Citrus Sinensis ID: 038454

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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-------36
Protein Sequence
MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKYFLCARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDIDNHTFCWGLRSMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHccccccccEEcccccccccccccccccccHHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHHccccccccccccEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHccccEEEEEccccccccHHHHHcccccEEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccccHHHHHHcccccccccHHHHHHcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEEccccccccEEcccccEEccccHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHccHHHccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHccccEEEEEEcccccEEEEEEccccccEEEEEcccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHccHHccccccccccHHHEEcHcccccHHHHHHHHHHHccccccEEEHHHcc
Coil and Loop (DISEMBL)
MKNLERVLQEFNSQKEDIEATLKAegdrgkkprtEVKNWLQNVQRINSKAQSIEQEVKKRKYFLCARLGKDVDAKIQEMKDCHQKGCSFIslvidappssglilptttlvgENTKKIVKKVWEDLMGdkvtkigvwgmggfgkTAIMRHInnrpqeetnefSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDIdnhtfcwglrsmgceevrvpplskEEALNLFLDKvgrnilhvptlneEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLvrsfsginaDVLGRLEFSYLRLKDKKVQHCFLYCALypedfaiskdeli
Flexible Loop (DISEMBL)
MKNLERVLQefnsqkedieatlkaegdrgkkprtevknwlqnvqRINSKAQSIEQEVKKRKYFLCARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLIlptttlvgentKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALklsltededkvSRARRllgklkakkkfvliLDDIDNHTFCWGLRSMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYpedfaiskdeli
Low Complexity Region (SEG)
MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKYFLCARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRllgklkakkkfvlilDDIDNHTFCWGLRSMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI
Disordered region (IsUnstruct)
**************************************WL****************VKKRKYFLCARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR***ETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDIDNHTFCWGLRSMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAI******
Disordered Region (DISOPRED)
MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKYFLCARLGKDVDAKI***********************************ENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKL******************LKAKKKFVLILDDIDNHTFCWGLRSMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGL*****GINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI
Disordered Region (DISEMBL)
MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKYFLCARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDIDNHTFCWGLRSMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI
Disordered Region (DISPRO)
MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKYFLCARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDIDNHTFCWGLRSMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDEL*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxGKKPRTExxxxxxxxxxxxxxxxxxxxxVKKRKYFLCARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSxxxxxxxxxxxxxxxxxxxxxKKFVLILDDIDNHTFCWGLRSMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI
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	359	2.2.26 [Sep-21-2011]
Q9C8T9	898	Putative disease resistan	yes	no	0.972	0.388	0.307	2e-36
Q9FG91	848	Probable disease resistan	no	no	0.980	0.415	0.290	5e-35
Q9LMP6	851	Probable disease resistan	no	no	0.941	0.397	0.309	7e-35
O82484	892	Putative disease resistan	no	no	0.974	0.392	0.296	1e-34
Q9T048	985	Disease resistance protei	no	no	0.972	0.354	0.306	2e-34
Q8RXS5	888	Probable disease resistan	no	no	0.974	0.394	0.286	6e-34
P60838	894	Probable disease resistan	no	no	0.919	0.369	0.304	7e-34
O64973	889	Disease resistance protei	no	no	0.988	0.399	0.290	2e-33
Q9FG90	862	Probable disease resistan	no	no	0.977	0.407	0.277	2e-33
O64789	925	Probable disease resistan	no	no	0.988	0.383	0.294	4e-33

>sp|Q9C8T9|DRL19_ARATH Putative disease resistance protein At1g63350 OS=Arabidopsis thaliana GN=At1g63350 PE=2 SV=1

 Score =  153 bits (386), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 122/397 (30%), Positives = 194/397 (48%), Gaps = 48/397 (12%)

Query: 4   LERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSI--EQEVKKRK 61
           LE  ++E  ++++D+   LK E DRG +   E+K WL  V+ I S+   +   +  + ++
Sbjct: 37  LETTMEELKAKRDDLLRKLKREEDRGLQTLGEIKVWLNRVETIESRVNDLLNARNAELQR 96

Query: 62  YFLCA----------RLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGL----ILPTT 107
             LC           R GK V  K++E++   ++    IS   D   +S +    + PT 
Sbjct: 97  LCLCGFCSKSLTTSYRYGKSVFLKLREVEKLERRVFEVIS---DQASTSEVEEQQLQPT- 152

Query: 108 TLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWV 167
            +VG+ T  ++   W  LM D V  +G++GMGG GKT ++  INN+  +    F  VIWV
Sbjct: 153 -IVGQET--MLDNAWNHLMEDGVGIMGLYGMGGVGKTTLLTQINNKFSKYMCGFDSVIWV 209

Query: 168 TVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRL-LGKLKAKKKFVLILDDI------ 220
            VS+ +++  +  EIA  + +S  + + K    + + L     K +FVL LDDI      
Sbjct: 210 VVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVYLYNFLRKMRFVLFLDDIWEKVNL 269

Query: 221 -----------DNHTFCWGLR------SMGCEE-VRVPPLSKEEALNLFLDKVGRNILHV 262
                      +     +  R      SMG E+ + V  L+  +A +LF  KVG+  L  
Sbjct: 270 VEIGVPFPTIKNKCKVVFTTRSLDVCTSMGVEKPMEVQCLADNDAYDLFQKKVGQITLGS 329

Query: 263 PTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVL 322
                E+   V ++C GL LA+  V   M     + EWR+A+  L      FSG++  +L
Sbjct: 330 DPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRHAIYVLNSYAAKFSGMDDKIL 389

Query: 323 GRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
             L++SY  LK + V+ C LYCAL+PED  I K+ LI
Sbjct: 390 PLLKYSYDSLKGEDVKMCLLYCALFPEDAKIRKENLI 426

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

>sp|Q9FG91|DRL32_ARATH Probable disease resistance protein At5g43730 OS=Arabidopsis thaliana GN=At5g43730 PE=2 SV=1

 Score =  148 bits (374), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 114/392 (29%), Positives = 187/392 (47%), Gaps = 40/392 (10%)

Query: 4   LERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKYF 63
           L++ ++E  + ++D+ A +  E D+G +    V  WL  VQ + S+ + + + +      
Sbjct: 38  LQKTMEELKNGRDDLLARVSIEEDKGLQRLALVNGWLSRVQIVESEFKDLLEAMSIETGR 97

Query: 64  LC------------ARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVG 111
           LC               G  V   ++E+K+   K    +      P +    + TT  VG
Sbjct: 98  LCLFGYCSEDCISSYNYGGKVMKNLEEVKELLSKKNFEVVAQKIIPKAEKKHIQTT--VG 155

Query: 112 ENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ 171
            +T  +V   WE L+ D++  +G++GMGG GKT ++  +NN+  E  +EF  VIWV VS+
Sbjct: 156 LDT--MVGIAWESLIDDEIRTLGLYGMGGIGKTTLLESLNNKFVELESEFDVVIWVVVSK 213

Query: 172 PLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI----------- 220
              L  +Q +I   L+     + +  S+   L+     +KKFVL+LDD+           
Sbjct: 214 DFQLEGIQDQILGRLRPDKEWERETESKKASLINNNLKRKKFVLLLDDLWSEVDLIKIGV 273

Query: 221 ------DNHTFCWGLRSMGC-------EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNE 267
                 +     +  RS          ++++V  LS +EA  LF   VG  IL       
Sbjct: 274 PPPSRENGSKIVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTVGDIILRSHQDIP 333

Query: 268 EIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEF 327
            +   V  +C GL LA+  +   M   + + EWR+A+N L      F G+   +L  L+F
Sbjct: 334 ALARIVAAKCHGLPLALNVIGKAMVCKETVQEWRHAINVLNSPGHKFPGMEERILPILKF 393

Query: 328 SYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
           SY  LK+ +++ CFLYC+L+PEDF I KD+LI
Sbjct: 394 SYDSLKNGEIKLCFLYCSLFPEDFEIEKDKLI 425

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  148 bits (373), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 128/413 (30%), Positives = 198/413 (47%), Gaps = 75/413 (18%)

Query: 1   MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINS------KAQSIE 54
           ++ L+  +QE   +++D+   +  E D+G +   +V+ WL  V+ + S      KA+SI+
Sbjct: 36  LEALQNTMQELEERRDDLLRRVVIEEDKGLQRLAQVQGWLSRVKDVCSQVNDLLKAKSIQ 95

Query: 55  QEV-----KKRKYFLCAR-LGKDVDAKIQEMKDCHQKGC-SFISLVIDAPPSSGLILPTT 107
            E         K F+  R  G +V  K++ ++    KG    ++  I AP      + TT
Sbjct: 96  TERLCLCGYCSKNFISGRNYGINVLKKLKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQTT 155

Query: 108 TLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWV 167
             VG +   +V + W  LM D+   +G++GMGG GKT ++  INN+  E  N F  VIWV
Sbjct: 156 --VGLDA--MVGRAWNSLMKDERRTLGLYGMGGVGKTTLLASINNKFLEGMNGFDLVIWV 211

Query: 168 TVSQPLDLVKLQAEIAMALKL-----SLTEDEDKVSRARRLLGKLKAKKKFVLILDDIDN 222
            VS+ L    +Q +I   L L      +TE E    +A  +   L   KKFVL+LDD+  
Sbjct: 212 VVSKDLQNEGIQEQILGRLGLHRGWKQVTEKE----KASYICNILNV-KKFVLLLDDL-- 264

Query: 223 HTFCWGLRSMGCEEVRVPPLSKE--------------------------------EALNL 250
               W    +  E++ VPPL++E                                EA  L
Sbjct: 265 ----WS--EVDLEKIGVPPLTRENGSKIVFTTRSKDVCRDMEVDGEMKVDCLPPDEAWEL 318

Query: 251 FLDKVGRNILH----VPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNE 306
           F  KVG   L     +PTL  +    V E+C GL LA+  +   M   + + EW++ ++ 
Sbjct: 319 FQKKVGPIPLQSHEDIPTLARK----VAEKCCGLPLALSVIGKAMASRETVQEWQHVIHV 374

Query: 307 LRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
           L      F  +   +L  L+FSY  LKD+KV+ CFLYC+L+PED+ + K+ELI
Sbjct: 375 LNSSSHEFPSMEEKILPVLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELI 427

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  147 bits (371), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 117/395 (29%), Positives = 196/395 (49%), Gaps = 45/395 (11%)

Query: 4   LERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSK------AQSIEQEV 57
           LE+ +++  + ++D+   ++ E  +G +   +V+ WL+ V+ I ++      A++IE + 
Sbjct: 39  LEKAIEDLTATRDDVLRRVQMEEGKGLERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQ- 97

Query: 58  KKRKYFLCAR-------LGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLV 110
           +   Y  C+         G+ V   I+E+++ +  G  F  +V    P   +     T++
Sbjct: 98  RLCFYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNG--FFEIVAAPAPKLEMRPIQPTIM 155

Query: 111 GENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS 170
           G  T  I ++ W  LM D V  +G++GMGG GKT ++  I+N   +  N    VIWV VS
Sbjct: 156 GRET--IFQRAWNRLMDDGVGTMGLYGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVS 213

Query: 171 QPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK--AKKKFVLILDDI-------- 220
             L + K+Q +I   L   + ++ +K   +++ +  L   +KK+FVL+LDDI        
Sbjct: 214 SDLQIHKIQEDIGEKLGF-IGKEWNKKQESQKAVDILNCLSKKRFVLLLDDIWKKVDLTK 272

Query: 221 ---------DNHTFCWGLRS------MGCEE-VRVPPLSKEEALNLFLDKVGRNILHVPT 264
                    +     +  RS      MG  + + V  LS  +A  LF +KVG+  L    
Sbjct: 273 IGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQEKVGQISLGSHP 332

Query: 265 LNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGR 324
              E+   V  +C GL LA+  +   M G   + EW +A++ L      FSG++  +L  
Sbjct: 333 DILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAAEFSGMDDHILLI 392

Query: 325 LEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
           L++SY  L DK V+ CF YCALYPED++I K  LI
Sbjct: 393 LKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLI 427

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score =  146 bits (369), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 119/388 (30%), Positives = 191/388 (49%), Gaps = 39/388 (10%)

Query: 2   KNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRK 61
           ++LER+ +   +  ED E  L     + K  R ++  W +  + + SKA+   +E     
Sbjct: 38  ESLERLTELKGNMSEDHETLLT----KDKPLRLKLMRWQREAEEVISKARLKLEERVSCG 93

Query: 62  YFLCARLGKDVDAKIQEMKDCHQKGCSFISLV-IDAPPSSGLILPTTTLVGEN-TKKIVK 119
             L  R+ + +   + E+K   + G  F+ ++ +++ P     +P  ++V +     ++ 
Sbjct: 94  MSLRPRMSRKLVKILDEVKMLEKDGIEFVDMLSVESTPERVEHVPGVSVVHQTMASNMLA 153

Query: 120 KVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEE--TNEFSDVIWVTVSQPLDLVK 177
           K+ + L  +K  KIGVWGMGG GKT ++R +NN+ +EE  T  F  VI+V VS+  D  +
Sbjct: 154 KIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPRE 213

Query: 178 LQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDD------------------ 219
           +Q +IA  L +    +E +   ARR+   L  ++KF+LILDD                  
Sbjct: 214 VQKQIAERLDIDTQMEESEEKLARRIYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEEN 273

Query: 220 -----IDNHTFCWGLRSMGCE-EVRVPPLSKEEALNLFLDKVGRNIL--HVPTLNEEIIN 271
                I    F    RSM  + +VRV  L +E+A  LF    G  +   HV     +I  
Sbjct: 274 KGSKVILTSRFLEVCRSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHV----RKIAK 329

Query: 272 SVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLR 331
           +V +EC GL LAI TV   MRG   +  W + L++L   V     I   +   L+ SY  
Sbjct: 330 AVSQECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLSKSVPWIKSIEEKIFQPLKLSYDF 389

Query: 332 LKDKKVQHCFLYCALYPEDFAISKDELI 359
           L+D K + CFL CAL+PED++I   E++
Sbjct: 390 LED-KAKFCFLLCALFPEDYSIEVTEVV 416

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  145 bits (365), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 115/402 (28%), Positives = 199/402 (49%), Gaps = 52/402 (12%)

Query: 1   MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSI--EQEVK 58
           +  L+R L++   ++ED+   + +E  RG +  + V+ W+  V+ I  +   +   + V+
Sbjct: 36  LTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSVQ 95

Query: 59  KRKYFLCA----------RLGKDVDAKIQEMKDCHQKG-CSFISLVIDAPPSSGLILPTT 107
            ++  LC           R GK V   I+E++    +G  + ++  +DA        PT 
Sbjct: 96  VQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERVDAARVEER--PTR 153

Query: 108 TLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWV 167
            +V  +   +++  W  LM D++  +G+ GMGG GKT ++ HINNR      EF  VIW+
Sbjct: 154 PMVAMD--PMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWI 211

Query: 168 TVSQPLDLVKLQAEIAMALKLSLTEDEDKVS--RARRLLGKLKAKKKFVLILDDIDNHT- 224
            VS+ L + ++Q EI   L+    + + K    +A  +   LK  K+FVL+LDDI +   
Sbjct: 212 VVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLK-HKRFVLLLDDIWSKVD 270

Query: 225 -----FCWGLRSMGCE------------------EVRVPPLSKEEALNLFLDKVGRNIL- 260
                  +  R  GC+                  ++ V  L+ ++A +LF  KVG   L 
Sbjct: 271 LTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWDLFTKKVGEITLG 330

Query: 261 ---HVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGI 317
               +PT    +  +V ++C GL LA+  +   M     + EWR+A++ L      FSG+
Sbjct: 331 SHPEIPT----VARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTSSAAEFSGM 386

Query: 318 NADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
             ++L  L++SY  LK ++++ CF YCAL+PED  I K++L+
Sbjct: 387 EDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLV 428

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  145 bits (365), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 114/374 (30%), Positives = 185/374 (49%), Gaps = 44/374 (11%)

Query: 25  EGDRGKKPRTEVKNWLQNVQRINSKAQSI----EQEVKKRKYF-LCAR-------LGKDV 72
           E  R ++  ++V+ WL NV  + +K   +    + E+++   F  C++        GK V
Sbjct: 61  EFTRRRERLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRV 120

Query: 73  DAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPT-TTLVGENTKKIVKKVWEDLMGDKVT 131
              ++E++    +G  F ++ +  P +    +P   T+VG+ T  ++++VW  L  D   
Sbjct: 121 VLMLKEIESLSSQG-DFDTVTLATPIARIEEMPIQPTIVGQET--MLERVWTRLTEDGDE 177

Query: 132 KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT 191
            +G++GMGG GKT ++  INN+  E+ + F  VIWV VS+  D+ ++Q +I   L L   
Sbjct: 178 IVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLG-G 236

Query: 192 EDEDKVSRARRLLG--KLKAKKKFVLILDDI------DNHTFCWGLRSMGCEEV------ 237
           E+ D V+  +R L    +  K+KFVL+LDDI      +     +  R  GC+ V      
Sbjct: 237 EEWDNVNENQRALDIYNVLGKQKFVLLLDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSR 296

Query: 238 ------------RVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIF 285
                        V  L   EA  LF  KVG N L       E+   V  +C GL LA+ 
Sbjct: 297 DVCGRMRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALN 356

Query: 286 TVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCA 345
            +   M     + EWRNA++ L      F G+   +L  L++SY  L  ++V+ CFLYC+
Sbjct: 357 VIGETMACKRMVQEWRNAIDVLSSYAAEFPGME-QILPILKYSYDNLNKEQVKPCFLYCS 415

Query: 346 LYPEDFAISKDELI 359
           L+PED+ + K+ LI
Sbjct: 416 LFPEDYRMEKERLI 429

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  143 bits (360), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 116/399 (29%), Positives = 201/399 (50%), Gaps = 44/399 (11%)

Query: 1   MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPR-TEVKNWLQNVQRINSKAQSI--EQEV 57
           + +L++ ++   +++ D+   L+ E   G++ R ++V+ WL +V  I ++   +    EV
Sbjct: 36  LASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQFNDLLRSNEV 95

Query: 58  KKRKYFLCA----------RLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGL--ILP 105
           + ++  LC           R GK V   ++E++    +G  F  +V +A P + +  I  
Sbjct: 96  ELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQG--FFDVVSEATPFADVDEIPF 153

Query: 106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVI 165
             T+VG+    +++K W  LM D    +G++GMGG GKT ++  INN+  +  + F  VI
Sbjct: 154 QPTIVGQEI--MLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVI 211

Query: 166 WVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRL-LGKLKAKKKFVLILDDI---- 220
           WV VS+   + K+Q +IA  + L   E  +K      + +  +  ++KFVL+LDDI    
Sbjct: 212 WVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDIWEKV 271

Query: 221 ------------DNHT-FCWGLRS------MGCEE-VRVPPLSKEEALNLFLDKVGRNIL 260
                       DN     +  RS      MG ++ + V  L  EE+ +LF  KVG+N L
Sbjct: 272 NLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVGKNTL 331

Query: 261 HVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINAD 320
                   +   V  +C GL LA+  +   M     +HEW +A++ L      FSG+  +
Sbjct: 332 GSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLTSSAIDFSGMEDE 391

Query: 321 VLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
           +L  L++SY  L  + ++ CFLYC+L+PED+ I K+ L+
Sbjct: 392 ILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLV 430

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG90|DRL33_ARATH Probable disease resistance protein At5g43740 OS=Arabidopsis thaliana GN=At5g43740 PE=2 SV=1

 Score =  143 bits (360), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 109/393 (27%), Positives = 183/393 (46%), Gaps = 42/393 (10%)

Query: 4   LERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKYF 63
           L++ ++E  + ++D+   +  E D+G +   +V  WL  VQ + S+ + + + +      
Sbjct: 37  LQKTMEELKNGRDDLLGRVSIEEDKGLQRLAQVNGWLSRVQIVESEFKDLLEAMSIETGR 96

Query: 64  LC------------ARLGKDVDAKIQEMKDC-HQKGCSFISLVIDAPPSSGLILPTTTLV 110
           LC               G+ V   ++E+K+   +K    ++  I       LI  T  L 
Sbjct: 97  LCLLGYCSEDCISSYNYGEKVSKMLEEVKELLSKKDFRMVAQEIIHKVEKKLIQTTVGL- 155

Query: 111 GENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS 170
                K+V+  W  LM D++  +G++GMGG GKT ++  +NN+  E  +EF  VIWV VS
Sbjct: 156 ----DKLVEMAWSSLMNDEIGTLGLYGMGGVGKTTLLESLNNKFVELESEFDVVIWVVVS 211

Query: 171 QPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------- 220
           +      +Q +I   L+     + +  S+   L+     +KKFVL+LDD+          
Sbjct: 212 KDFQFEGIQDQILGRLRSDKEWERETESKKASLIYNNLERKKFVLLLDDLWSEVDMTKIG 271

Query: 221 -------DNHTFCWGLRSMGC-------EEVRVPPLSKEEALNLFLDKVGRNILHVPTLN 266
                  +     +  RS          ++++V  LS +EA  LF   VG  IL      
Sbjct: 272 VPPPTRENGSKIVFTTRSTEVCKHMKADKQIKVACLSPDEAWELFRLTVGDIILRSHQDI 331

Query: 267 EEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLE 326
             +   V  +C GL LA+  +   M   + I EW +A+N L      F G+   +L  L+
Sbjct: 332 PALARIVAAKCHGLPLALNVIGKAMSCKETIQEWSHAINVLNSAGHEFPGMEERILPILK 391

Query: 327 FSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
           FSY  LK+ +++ CFLYC+L+PED  I K++ I
Sbjct: 392 FSYDSLKNGEIKLCFLYCSLFPEDSEIPKEKWI 424

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  142 bits (358), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 117/397 (29%), Positives = 194/397 (48%), Gaps = 42/397 (10%)

Query: 1   MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSI--EQEVK 58
           ++ L+R +++  + + +++  +  E  R ++    V+ WL  V  I+ + + +     V+
Sbjct: 36  LRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVE 95

Query: 59  KRKYFLCA----------RLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTT 108
            +K  LC           + GK V   ++E+K    +G +F  +    P S     PT  
Sbjct: 96  LQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEG-NFDEVSQPPPRSEVEERPTQP 154

Query: 109 LVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT 168
            +G+  +++++K W  LM D V  +G+ GMGG GKT + + I+N+  E    F  VIW+ 
Sbjct: 155 TIGQ--EEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIV 212

Query: 169 VSQPLDLVKLQAEIAMALKL--SLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------ 220
           VSQ   L KLQ +IA  L L   L +++++  +A  +   LK  K+FVL+LDDI      
Sbjct: 213 VSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKG-KRFVLMLDDIWEKVDL 271

Query: 221 -----------DNHTFCWGLRS------MG-CEEVRVPPLSKEEALNLFLDKVGRNILHV 262
                      +     +  RS      MG  + ++V  L  E+A  LF +KVG N L  
Sbjct: 272 EAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSS 331

Query: 263 PTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVL 322
             +   +   V ++C GL LA+  +   M     + EW  A++ L      FSG+   +L
Sbjct: 332 DPVIVGLAREVAQKCRGLPLALNVIGETMASKTMVQEWEYAIDVLTRSAAEFSGMENKIL 391

Query: 323 GRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
             L++SY  L D+ ++ CFLYCAL+PED  I  + LI
Sbjct: 392 PILKYSYDSLGDEHIKSCFLYCALFPEDGQIYTETLI 428

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	359
356542242	962	PREDICTED: probable disease resistance p	0.980	0.365	0.393	1e-56
302142868	984	unnamed protein product [Vitis vinifera]	0.988	0.360	0.380	3e-54
225461744	1016	PREDICTED: probable disease resistance p	0.988	0.349	0.380	4e-54
359493997	1276	PREDICTED: probable disease resistance p	0.952	0.268	0.386	4e-54
224128424	954	BED finger-nbs-lrr resistance protein [P	0.807	0.303	0.390	1e-51
15487932	246	NBS/LRR resistance protein-like protein	0.601	0.878	0.442	5e-49
224117250	958	nbs-lrr resistance protein [Populus tric	0.754	0.282	0.394	1e-48
15487942	250	NBS/LRR resistance protein-like protein	0.601	0.864	0.442	1e-48
15487936	243	NBS/LRR resistance protein-like protein	0.601	0.888	0.442	1e-48
15487940	250	NBS/LRR resistance protein-like protein	0.596	0.856	0.442	3e-48

>gi|356542242|ref|XP_003539578.1| PREDICTED: probable disease resistance protein At4g27220-like [Glycine max]

 Score =  226 bits (576), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 150/381 (39%), Positives = 205/381 (53%), Gaps = 29/381 (7%)

Query: 4   LERVLQEFNSQKEDIEATLK-AEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKY 62
           LE  L+E  S + DI   L+ AE  +GKK + EV+NW +NVQR   +   I QE++    
Sbjct: 36  LEMKLEELCSLEYDINKELEIAELQQGKKRKREVENWQRNVQRKKIEVYGIVQELRDCGV 95

Query: 63  FLCARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENTKKIVKKVW 122
           F   +L   V   I ++ D  + G     +V  A  S G  L TT L G   +K V K+W
Sbjct: 96  FKHLKLTAQVKKLIGQVTDLVECGRFPKGIVGCAHESRGYALLTTKLAGAMFQKNVAKIW 155

Query: 123 EDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEI 182
           + LM D    IGV+GMGG GKT+++ HI+N        F  V WVT+SQ   + KLQ ++
Sbjct: 156 DWLMNDGELIIGVYGMGGVGKTSMLMHIHNMLLTRVTNFDSVFWVTLSQSFSIHKLQCDV 215

Query: 183 AMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDIDNH------------------- 223
           A  + L ++++ D+  RA RL   L  +K+ VL LDD+ ++                   
Sbjct: 216 AKIVGLDISKESDERKRAARLSWTLMRRKRCVLFLDDVWSYFPLEKVGIPVREGLKLVLT 275

Query: 224 ----TFCWGLRSMGCE-EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECA 278
                 C   R M C+  V+V PL+KEEA  LFLD +G+     P +  ++  SV +ECA
Sbjct: 276 SRSLEVC---RRMNCQNNVKVEPLAKEEAWTLFLDNLGQQTTLSPEVT-KVARSVAKECA 331

Query: 279 GLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQ 338
           GL LAI T+   MRGV+EI EWR+AL ELR        +  +VL  L+FSY  L D  +Q
Sbjct: 332 GLPLAIITMARSMRGVEEICEWRHALEELRNTEIRLEEMEMEVLRVLQFSYDHLNDNMLQ 391

Query: 339 HCFLYCALYPEDFAISKDELI 359
            CFL CALYPEDF I +D LI
Sbjct: 392 KCFLCCALYPEDFEIDRDVLI 412

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302142868|emb|CBI20163.3| unnamed protein product [Vitis vinifera]

 Score =  218 bits (556), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 146/384 (38%), Positives = 214/384 (55%), Gaps = 29/384 (7%)

Query: 2   KNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRK 61
           + L+  ++   S+++D++  L+    + KK + EV+NWL+ VQ +    + +EQEV K +
Sbjct: 36  RTLKEKMERLKSREQDVKIELQNAQYQRKKEKKEVENWLKEVQNMKDDLERMEQEVGKGR 95

Query: 62  YFLCARLG--KDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENT-KKIV 118
            F  +RLG  +  +  I+++ +  ++G     ++ID     G  L TT L+GE T K+ +
Sbjct: 96  IF--SRLGFLRQSEEHIEKVDELLERGRFPEGILIDVLRDEGRALLTTQLIGETTTKRNL 153

Query: 119 KKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKL 178
           +K+W  L   ++  IGVWGMGG GKT I+ HI+N   E+ + F  V WVTVS+   + KL
Sbjct: 154 EKIWTCLEKGEIQSIGVWGMGGIGKTTIVTHIHNLLLEKKDTFGLVYWVTVSKDSSVRKL 213

Query: 179 QAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDD---------------IDNH 223
           Q  IA  + L L+++ED+  R+  L   L+ +KKFVLI DD               +D  
Sbjct: 214 QDVIAEKINLDLSKEEDERLRSALLFEALQKEKKFVLIFDDVWEVYPPREVGIPIGVDRG 273

Query: 224 TFCWGLRS------MGCEE-VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEE 276
                 RS      MGC+E ++V PL +EEA  LF +K       +    E+I   +V E
Sbjct: 274 KLIITTRSREVCLKMGCKEIIKVEPLYEEEAWELF-NKTLERYNALSQKEEKIAKDIVRE 332

Query: 277 CAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFS-GINADVLGRLEFSYLRLKDK 335
           CAGL LAI T    M    +I EWRNALNELR  V+  +  +  DV   LEFSY RL D+
Sbjct: 333 CAGLPLAIVTTARSMSVAYDIAEWRNALNELREHVKGHTINMENDVFKILEFSYNRLNDE 392

Query: 336 KVQHCFLYCALYPEDFAISKDELI 359
           K+Q C LYCAL+PED+ I +  LI
Sbjct: 393 KLQECLLYCALFPEDYKIRRVLLI 416

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225461744|ref|XP_002283414.1| PREDICTED: probable disease resistance protein At4g27220-like [Vitis vinifera]

 Score =  218 bits (554), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 146/384 (38%), Positives = 214/384 (55%), Gaps = 29/384 (7%)

Query: 2   KNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRK 61
           + L+  ++   S+++D++  L+    + KK + EV+NWL+ VQ +    + +EQEV K +
Sbjct: 36  RTLKEKMERLKSREQDVKIELQNAQYQRKKEKKEVENWLKEVQNMKDDLERMEQEVGKGR 95

Query: 62  YFLCARLG--KDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENT-KKIV 118
            F  +RLG  +  +  I+++ +  ++G     ++ID     G  L TT L+GE T K+ +
Sbjct: 96  IF--SRLGFLRQSEEHIEKVDELLERGRFPEGILIDVLRDEGRALLTTQLIGETTTKRNL 153

Query: 119 KKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKL 178
           +K+W  L   ++  IGVWGMGG GKT I+ HI+N   E+ + F  V WVTVS+   + KL
Sbjct: 154 EKIWTCLEKGEIQSIGVWGMGGIGKTTIVTHIHNLLLEKKDTFGLVYWVTVSKDSSVRKL 213

Query: 179 QAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDD---------------IDNH 223
           Q  IA  + L L+++ED+  R+  L   L+ +KKFVLI DD               +D  
Sbjct: 214 QDVIAEKINLDLSKEEDERLRSALLFEALQKEKKFVLIFDDVWEVYPPREVGIPIGVDRG 273

Query: 224 TFCWGLRS------MGCEE-VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEE 276
                 RS      MGC+E ++V PL +EEA  LF +K       +    E+I   +V E
Sbjct: 274 KLIITTRSREVCLKMGCKEIIKVEPLYEEEAWELF-NKTLERYNALSQKEEKIAKDIVRE 332

Query: 277 CAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFS-GINADVLGRLEFSYLRLKDK 335
           CAGL LAI T    M    +I EWRNALNELR  V+  +  +  DV   LEFSY RL D+
Sbjct: 333 CAGLPLAIVTTARSMSVAYDIAEWRNALNELREHVKGHTINMENDVFKILEFSYNRLNDE 392

Query: 336 KVQHCFLYCALYPEDFAISKDELI 359
           K+Q C LYCAL+PED+ I +  LI
Sbjct: 393 KLQECLLYCALFPEDYKIRRVLLI 416

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493997|ref|XP_002283439.2| PREDICTED: probable disease resistance protein At4g27220-like [Vitis vinifera]

 Score =  218 bits (554), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 143/370 (38%), Positives = 200/370 (54%), Gaps = 28/370 (7%)

Query: 14  QKEDIEATLK-AEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKYFLCARLGKDV 72
           ++EDI   L+ A+ +R KK + EV+NWL  VQ +   AQ IEQ+  +R+YF         
Sbjct: 310 REEDINTELEDAQYNRRKKAKREVENWLIEVQVVKDDAQQIEQKAGERRYFSRFSFLSQF 369

Query: 73  DAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENTKKIVKKVWEDLMGDKVTK 132
           +A ++++ +  + G     ++ID     G  L T  L+GE T    K +W  L   ++  
Sbjct: 370 EANMKKVDEIFELGNFPNGILIDVHQDEGNALLTAQLIGETT---AKNIWTCLEKGEIQS 426

Query: 133 IGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTE 192
           IGVWGMGG GKT ++ HI+NR  E  + F  V WVTVS+   + +LQ  IA  + L  ++
Sbjct: 427 IGVWGMGGIGKTTVVTHIHNRLLENRDTFGHVYWVTVSKDSSIRRLQDAIAGKINLDFSK 486

Query: 193 DEDKVSRARRLLGKLKAKKKFVLILDD---------------IDNHTFCWGLRS------ 231
           +ED+  RA  L   L+ KKKFVL+LDD               +D        RS      
Sbjct: 487 EEDEKIRAALLSEALQKKKKFVLVLDDVWEVYVPREVGIPIGVDGGKLIITTRSRDVCLR 546

Query: 232 MGCEE-VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC 290
           MGC+E +++ PLSK EA  LF +K       +    EEI   +++EC GL LAI T    
Sbjct: 547 MGCKEIIKMEPLSKVEAWELF-NKTLERYNALSQKEEEIAKDIIKECGGLPLAIVTTARS 605

Query: 291 MRGVDEIHEWRNALNELRGLVRSFS-GINADVLGRLEFSYLRLKDKKVQHCFLYCALYPE 349
           M  V  I  WRNALNELR  V+  +  +  DV   LEFSY RL ++K+Q C LYCAL+PE
Sbjct: 606 MSVVYSIAGWRNALNELREHVKGHTIDMENDVFKILEFSYNRLNNEKLQECLLYCALFPE 665

Query: 350 DFAISKDELI 359
           D+ I +  LI
Sbjct: 666 DYKIRRVSLI 675

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224128424|ref|XP_002329158.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa] gi|222869827|gb|EEF06958.1| BED finger-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  209 bits (532), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 125/320 (39%), Positives = 177/320 (55%), Gaps = 30/320 (9%)

Query: 69  GKDV-DAKIQEMKDCHQKGCSFI------SLVIDAPPSSGLILPTTTLVGENTKKIVKKV 121
           G DV D  ++ + D   +G S +      S  +DA  + G  L TT LVG+ + +  + +
Sbjct: 65  GTDVSDGVVENLTDNFTRGVSIVTEESRVSEGLDAHKAKGEALLTTKLVGQASDRNKETI 124

Query: 122 WEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAE 181
           W  LM D V  +G++GMGG GKT++   I+N+  +  + F+ V WVTVSQ   + KLQ  
Sbjct: 125 WSWLMKDDVLSVGIYGMGGVGKTSLATQIHNQLLQRPSSFNYVFWVTVSQNFTISKLQYL 184

Query: 182 IAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDIDNHTFCWGL------------ 229
           IA A+ L L+ +ED+  RA +L   L AK K VLILDDI NH     +            
Sbjct: 185 IAKAINLDLSNEEDEKKRAAKLSKALVAKGKSVLILDDIWNHFLLETVGIPVGVNACKLI 244

Query: 230 ---------RSMGCEE-VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAG 279
                    R MGC++ ++V  L+KEEA  LF++K+G      P +  +I  SV  ECA 
Sbjct: 245 LTSRSLEVCRRMGCQKSIKVELLTKEEAWTLFVEKLGNYATFSPEV-VQIAKSVAAECAR 303

Query: 280 LQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQH 339
           L L I  + G MRGVD++HEWRNAL EL+        +  +V   L FSY+RL D  +Q 
Sbjct: 304 LPLGIIAMAGSMRGVDDLHEWRNALTELKQSEVRAEDMETEVFHILRFSYMRLNDSALQQ 363

Query: 340 CFLYCALYPEDFAISKDELI 359
           C LYCA +PEDF + +++LI
Sbjct: 364 CLLYCAYFPEDFTVDREDLI 383

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15487932|gb|AAL01012.1|AF402744_1 NBS/LRR resistance protein-like protein [Theobroma cacao] gi|15487938|gb|AAL01015.1|AF402747_1 NBS/LRR resistance protein-like protein [Theobroma cacao]

 Score =  201 bits (511), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 108/244 (44%), Positives = 155/244 (63%), Gaps = 28/244 (11%)

Query: 140 GFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSR 199
           G GKT IM+ INN+  +ET +F+ VIW+ VS+ +++ K+Q+ I++ + ++L ++ED+  R
Sbjct: 2   GVGKTTIMKIINNQLLKETQKFNIVIWIIVSKEMNIYKIQSGISLKMGVTLPKNEDETIR 61

Query: 200 ARRLLGKLKAKKKFVLILDDIDNHT------------------------FCWGLRSMGCE 235
           A  L   L  K ++VLILDD+ +                           C   R +GC 
Sbjct: 62  AGMLYEMLTQKGRYVLILDDLWDKLSLEEVGIPQPSNGSKLVVTTRMLDVC---RYLGCR 118

Query: 236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVD 295
           E+R+P L K++A +LFL+KVGR++L+ P L   I+ SVVE+CAGL LAI TV   M+G+ 
Sbjct: 119 EIRMPTLPKQDAWSLFLEKVGRDVLNYPDL-LPIVESVVEQCAGLPLAIVTVASSMKGIT 177

Query: 296 EIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISK 355
            +HEWRNALNEL   VR  +G++  VL +L+FSY  L D++VQHCFL CALYPED  IS+
Sbjct: 178 NVHEWRNALNELSRCVRGVTGLDEKVLQQLQFSYDHLNDERVQHCFLCCALYPEDHNISE 237

Query: 356 DELI 359
             LI
Sbjct: 238 FNLI 241

Source: Theobroma cacao

Species: Theobroma cacao

Genus: Theobroma

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224117250|ref|XP_002317519.1| nbs-lrr resistance protein [Populus trichocarpa] gi|222860584|gb|EEE98131.1| nbs-lrr resistance protein [Populus trichocarpa]

 Score =  200 bits (508), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 116/294 (39%), Positives = 168/294 (57%), Gaps = 23/294 (7%)

Query: 88  SFISLVIDAPPSSGLILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIM 147
           S +S  +D   + G  L TT L G+   K  + +W  LM D+V+ IG++GMGG GK+++ 
Sbjct: 85  SRVSEGLDTHKAKGEALLTTELAGQGFDKNREMIWSWLMKDEVSSIGIYGMGGVGKSSLA 144

Query: 148 RHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL 207
            HI+N+  +    F  V+W+TVSQ   + KLQ  IA A+ L+L+ ++D+  RA +L   L
Sbjct: 145 THIHNQLLQRPTSFKHVLWITVSQDFSISKLQYLIANAINLNLSNEDDEKKRAAKLYKAL 204

Query: 208 KAKKKFVLILDDIDNH------------TFCWGL---------RSMGCEE-VRVPPLSKE 245
            AK K VLILDD+ NH              C  +         R MGC+E ++V  L+KE
Sbjct: 205 VAKGKSVLILDDLWNHFHLEKVGIPVEVNMCKLILTTRSLEVCRRMGCQERIKVELLTKE 264

Query: 246 EALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALN 305
           EA  LF +K+G +    P + E++   V  ECA L L I T+ G MRGVD+++EWRNAL 
Sbjct: 265 EAWTLFKEKLGHDAALSPEV-EQMAKLVAAECACLPLGIITMAGSMRGVDDLYEWRNALT 323

Query: 306 ELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
           EL+        +  +V   L FSY+RL D  +Q C LYCA +PE F + +++LI
Sbjct: 324 ELKQSEVRPHDMEPEVFHILRFSYMRLNDSALQQCLLYCAFFPEGFTMDREDLI 377

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15487942|gb|AAL01017.1|AF402749_1 NBS/LRR resistance protein-like protein [Theobroma cacao]

 Score =  200 bits (508), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 108/244 (44%), Positives = 154/244 (63%), Gaps = 28/244 (11%)

Query: 140 GFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSR 199
           G GKT IM+ INN+  +ET +F+ VIW+ VS+  ++ K+Q+ I++ + ++L ++ED+  R
Sbjct: 2   GVGKTTIMKIINNQLLKETQKFNIVIWIIVSKETNIYKIQSGISLKMGVTLPKNEDETIR 61

Query: 200 ARRLLGKLKAKKKFVLILDDIDNHT------------------------FCWGLRSMGCE 235
           A  L   L  K ++VLILDD+ +                           C   R +GC 
Sbjct: 62  AGMLYEMLTQKGRYVLILDDLWDKLSLEEVGIPQPSNGSKLVVTTRMLDVC---RYLGCR 118

Query: 236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVD 295
           E+R+P L K++A +LFL+KVGR++L+ P L   I+ SVVE+CAGL LAI TV   M+G+ 
Sbjct: 119 EIRMPTLPKQDAWSLFLEKVGRDVLNYPDL-LPIVESVVEQCAGLPLAIVTVASSMKGIT 177

Query: 296 EIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISK 355
            +HEWRNALNEL   VR  +G++  VL +L+FSY  L D++VQHCFL CALYPED  IS+
Sbjct: 178 NVHEWRNALNELSRCVRGVTGLDEKVLQQLQFSYDHLNDERVQHCFLCCALYPEDHNISE 237

Query: 356 DELI 359
             LI
Sbjct: 238 FNLI 241

Source: Theobroma cacao

Species: Theobroma cacao

Genus: Theobroma

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15487936|gb|AAL01014.1|AF402746_1 NBS/LRR resistance protein-like protein [Theobroma cacao]

 Score =  199 bits (507), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 108/244 (44%), Positives = 154/244 (63%), Gaps = 28/244 (11%)

Query: 140 GFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSR 199
           G GKT IM+ INN+  +ET +F+ VIW+ VS+  ++ K+Q+ I++ + ++L ++ED+  R
Sbjct: 2   GVGKTTIMKIINNQLLKETQKFNIVIWIIVSKETNIYKIQSGISLKMGVTLPKNEDETIR 61

Query: 200 ARRLLGKLKAKKKFVLILDDIDNHT------------------------FCWGLRSMGCE 235
           A  L   L  K ++VLILDD+ +                           C   R +GC 
Sbjct: 62  AGMLYEMLTQKGRYVLILDDLWDKLSLEEVGIPQPSNGSKLVVTTRMLDVC---RYLGCR 118

Query: 236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVD 295
           E+R+P L K++A +LFL+KVGR++L+ P L   I+ SVVE+CAGL LAI TV   M+G+ 
Sbjct: 119 EIRMPTLPKQDAWSLFLEKVGRDVLNYPDL-LPIVESVVEQCAGLPLAIVTVASSMKGIT 177

Query: 296 EIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISK 355
            +HEWRNALNEL   VR  +G++  VL +L+FSY  L D++VQHCFL CALYPED  IS+
Sbjct: 178 NVHEWRNALNELSRCVRGVTGLDEKVLQQLQFSYDHLNDERVQHCFLCCALYPEDHNISE 237

Query: 356 DELI 359
             LI
Sbjct: 238 FNLI 241

Source: Theobroma cacao

Species: Theobroma cacao

Genus: Theobroma

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15487940|gb|AAL01016.1|AF402748_1 NBS/LRR resistance protein-like protein [Theobroma cacao]

 Score =  199 bits (505), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 107/242 (44%), Positives = 154/242 (63%), Gaps = 28/242 (11%)

Query: 142 GKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRAR 201
           GKT IM+ INN+  +ET +F+ VIW+ VS+ +++ K+Q+ I++ + ++L ++ED+  RA 
Sbjct: 3   GKTTIMKIINNQLLKETQKFNIVIWIIVSKEMNIYKIQSGISLKMGVTLPKNEDETIRAG 62

Query: 202 RLLGKLKAKKKFVLILDDIDNHT------------------------FCWGLRSMGCEEV 237
            L   L  K ++VLILDD+ +                           C   R +GC E+
Sbjct: 63  MLYEMLTQKGRYVLILDDLWDKLSLEEVGIPQPSNGSKLVVTTRMLDVC---RYLGCREI 119

Query: 238 RVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEI 297
           R+P L K++A +LFL+KVGR++L+ P L   I+ SVVE+CAGL LAI TV   M+G+  +
Sbjct: 120 RMPTLPKQDAWSLFLEKVGRDVLNYPDL-LPIVESVVEQCAGLPLAIVTVASSMKGITNV 178

Query: 298 HEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDE 357
           HEWRNALNEL   VR  +G++  VL +L+FSY  L D++VQHCFL CALYPED  IS+  
Sbjct: 179 HEWRNALNELSRCVRGVTGLDEKVLQQLQFSYDHLNDERVQHCFLCCALYPEDHNISEFN 238

Query: 358 LI 359
           LI
Sbjct: 239 LI 240

Source: Theobroma cacao

Species: Theobroma cacao

Genus: Theobroma

Family: Malvaceae

Order: Malvales

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	359
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.506	0.202	0.296	1.7e-32
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.334	0.141	0.390	9.1e-31
TAIR|locus:2203881	893	AT1G62630 [Arabidopsis thalian	0.504	0.202	0.308	9.1e-31
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.537	0.195	0.292	3.8e-30
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.348	0.147	0.384	1e-29
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.350	0.141	0.396	1.2e-29
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.350	0.141	0.358	2.1e-29
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.487	0.197	0.286	2.2e-29
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.543	0.218	0.262	3.5e-29
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.520	0.193	0.296	1.5e-28

TAIR|locus:2031366 AT1G63350 "AT1G63350" [Arabidopsis thaliana (taxid:3702)]

 Score = 219 (82.2 bits), Expect = 1.7e-32, Sum P(2) = 1.7e-32
 Identities = 59/199 (29%), Positives = 101/199 (50%)

Query:     4 LERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSI--EQEVKKRK 61
             LE  ++E  ++++D+   LK E DRG +   E+K WL  V+ I S+   +   +  + ++
Sbjct:    37 LETTMEELKAKRDDLLRKLKREEDRGLQTLGEIKVWLNRVETIESRVNDLLNARNAELQR 96

Query:    62 YFLCA----------RLGKDVDAKIQEMKDCHQKGCSFIS-LVIDAPPSSGLILPTTTLV 110
               LC           R GK V  K++E++   ++    IS     +      + PT  +V
Sbjct:    97 LCLCGFCSKSLTTSYRYGKSVFLKLREVEKLERRVFEVISDQASTSEVEEQQLQPT--IV 154

Query:   111 GENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS 170
             G+ T  ++   W  LM D V  +G++GMGG GKT ++  INN+  +    F  VIWV VS
Sbjct:   155 GQET--MLDNAWNHLMEDGVGIMGLYGMGGVGKTTLLTQINNKFSKYMCGFDSVIWVVVS 212

Query:   171 QPLDLVKLQAEIAMALKLS 189
             + +++  +  EIA  + +S
Sbjct:   213 KEVNVENILDEIAQKVHIS 231

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 214 (80.4 bits), Expect = 9.1e-31, Sum P(2) = 9.1e-31
 Identities = 50/128 (39%), Positives = 74/128 (57%)

Query:   236 EVRVPPLSKEEALNLFLDKVGRNIL--H--VPTLNEEIINSVVEECAGLQLAIFTVVGCM 291
             E++V  L  +EA  LF  KVG   L  H  +PTL  +    V E+C GL LA+  +   M
Sbjct:   304 EMKVDCLPPDEAWELFQKKVGPIPLQSHEDIPTLARK----VAEKCCGLPLALSVIGKAM 359

Query:   292 RGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDF 351
                + + EW++ ++ L      F  +   +L  L+FSY  LKD+KV+ CFLYC+L+PED+
Sbjct:   360 ASRETVQEWQHVIHVLNSSSHEFPSMEEKILPVLKFSYDDLKDEKVKLCFLYCSLFPEDY 419

Query:   352 AISKDELI 359
              + K+ELI
Sbjct:   420 EVRKEELI 427

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2203881 AT1G62630 [Arabidopsis thaliana (taxid:3702)]

 Score = 208 (78.3 bits), Expect = 9.1e-31, Sum P(2) = 9.1e-31
 Identities = 61/198 (30%), Positives = 104/198 (52%)

Query:     4 LERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSI--EQEVKKRK 61
             LE  ++E  ++++D+   LK E DRG +  +E + WL  V  +     ++  +++V+ ++
Sbjct:    37 LETTMEELKAKRDDLLRRLKREEDRGLQRLSEFQVWLNRVATVEDIIITLLRDRDVEIQR 96

Query:    62 YFLCA----------RLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTT-TLV 110
               LC           R GK V  +++E++    KG  F  +   A  S+    P   T+V
Sbjct:    97 LCLCRFCSKNLTTSYRYGKSVFLRLREVEKL--KGEVFGVITEQASTSAFEERPLQPTIV 154

Query:   111 GENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS 170
             G+  KK++ K W+ LM D    +G++GMGG GKT ++  + N   ++   F   IWV VS
Sbjct:   155 GQ--KKMLDKAWKHLMEDGTGIMGMYGMGGVGKTTLLTQLFNMFNKDKCGFDIGIWVVVS 212

Query:   171 QPLDLVKLQAEIAMALKL 188
             Q +++ K+Q EIA  L L
Sbjct:   213 QEVNVEKIQDEIAQKLGL 230

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 218 (81.8 bits), Expect = 3.8e-30, Sum P(2) = 3.8e-30
 Identities = 60/205 (29%), Positives = 110/205 (53%)

Query:     2 KNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQ-SIEQEVKKR 60
             ++LER+ +   +  ED E  L  +    K  R ++  W +  + + SKA+  +E+ V   
Sbjct:    38 ESLERLTELKGNMSEDHETLLTKD----KPLRLKLMRWQREAEEVISKARLKLEERVSCG 93

Query:    61 KYFLCARLGKDVDAKIQEMKDCHQKGCSFISLV-IDAPPSSGLILPTTTLVGEN-TKKIV 118
                L  R+ + +   + E+K   + G  F+ ++ +++ P     +P  ++V +     ++
Sbjct:    94 MS-LRPRMSRKLVKILDEVKMLEKDGIEFVDMLSVESTPERVEHVPGVSVVHQTMASNML 152

Query:   119 KKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEE--TNEFSDVIWVTVSQPLDLV 176
              K+ + L  +K  KIGVWGMGG GKT ++R +NN+ +EE  T  F  VI+V VS+  D  
Sbjct:   153 AKIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPR 212

Query:   177 KLQAEIAMALKLS--LTEDEDKVSR 199
             ++Q +IA  L +   + E E+K++R
Sbjct:   213 EVQKQIAERLDIDTQMEESEEKLAR 237

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2170892 AT5G43730 [Arabidopsis thaliana (taxid:3702)]

 Score = 209 (78.6 bits), Expect = 1.0e-29, Sum P(2) = 1.0e-29
 Identities = 48/125 (38%), Positives = 71/125 (56%)

Query:   235 EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGV 294
             ++++V  LS +EA  LF   VG  IL        +   V  +C GL LA+  +   M   
Sbjct:   301 KQIKVDCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCK 360

Query:   295 DEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAIS 354
             + + EWR+A+N L      F G+   +L  L+FSY  LK+ +++ CFLYC+L+PEDF I 
Sbjct:   361 ETVQEWRHAINVLNSPGHKFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEIE 420

Query:   355 KDELI 359
             KD+LI
Sbjct:   421 KDKLI 425

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 214 (80.4 bits), Expect = 1.2e-29, Sum P(2) = 1.2e-29
 Identities = 52/131 (39%), Positives = 73/131 (55%)

Query:   232 MGCEE-VRVPPLSKEEALNLFLDKVGRNIL--HVPTLNEEIINSVVEECAGLQLAIFTVV 288
             MG  + + V  LS  +A  LF +KVG+  L  H   L  E+   V  +C GL LA+  + 
Sbjct:   299 MGVHDPMEVQCLSTNDAWELFQEKVGQISLGSHPDIL--ELAKKVAGKCRGLPLALNVIG 356

Query:   289 GCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYP 348
               M G   + EW +A++ L      FSG++  +L  L++SY  L DK V+ CF YCALYP
Sbjct:   357 ETMAGKRAVQEWHHAVDVLTSYAAEFSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYP 416

Query:   349 EDFAISKDELI 359
             ED++I K  LI
Sbjct:   417 EDYSIKKYRLI 427

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 202 (76.2 bits), Expect = 2.1e-29, Sum P(2) = 2.1e-29
 Identities = 47/131 (35%), Positives = 75/131 (57%)

Query:   232 MGCEE-VRVPPLSKEEALNLFLDKVGRNIL--HVPTLNEEIINSVVEECAGLQLAIFTVV 288
             MG ++ + V  L  EE+ +LF  KVG+N L  H P +   +   V  +C GL LA+  + 
Sbjct:   302 MGVDDPMEVSCLQPEESWDLFQMKVGKNTLGSH-PDI-PGLARKVARKCRGLPLALNVIG 359

Query:   289 GCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYP 348
               M     +HEW +A++ L      FSG+  ++L  L++SY  L  + ++ CFLYC+L+P
Sbjct:   360 EAMACKRTVHEWCHAIDVLTSSAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFP 419

Query:   349 EDFAISKDELI 359
             ED+ I K+ L+
Sbjct:   420 EDYLIDKEGLV 430

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

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

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

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

 Score = 201 (75.8 bits), Expect = 2.2e-29, Sum P(2) = 2.2e-29
 Identities = 55/192 (28%), Positives = 98/192 (51%)

Query:     4 LERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQ--EVKKRK 61
             L+R L++   ++ED+   + +E  RG +  + V+ W+  V+ I  +   + +   V+ ++
Sbjct:    39 LQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQR 98

Query:    62 YFLCA----------RLGKDVDAKIQEMKDCHQKG-CSFISLVIDAPPSSGLILPTTTLV 110
               LC           R GK V   I+E++    +G  + ++  +DA        PT  +V
Sbjct:    99 LCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERVDAARVEER--PTRPMV 156

Query:   111 GENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS 170
               +   +++  W  LM D++  +G+ GMGG GKT ++ HINNR      EF  VIW+ VS
Sbjct:   157 AMDP--MLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVS 214

Query:   171 QPLDLVKLQAEI 182
             + L + ++Q EI
Sbjct:   215 KELQIQRIQDEI 226

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 202 (76.2 bits), Expect = 3.5e-29, Sum P(2) = 3.5e-29
 Identities = 56/213 (26%), Positives = 113/213 (53%)

Query:     4 LERVLQEFNSQKEDIEATLKAEGDRGKKPR-TEVKNWLQNVQRINSKAQSI----EQEVK 58
             +++ ++    +++D++  +  E    ++ R ++V+ WL NV  + +K   +    + E++
Sbjct:    39 MKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQVQGWLTNVSTVENKFNELLTTNDAELQ 98

Query:    59 KRKYF-LCAR-------LGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTT-TL 109
             +   F  C++        GK V   ++E++    +G  F ++ +  P +    +P   T+
Sbjct:    99 RLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQG-DFDTVTLATPIARIEEMPIQPTI 157

Query:   110 VGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV 169
             VG+ T  ++++VW  L  D    +G++GMGG GKT ++  INN+  E+ + F  VIWV V
Sbjct:   158 VGQET--MLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVV 215

Query:   170 SQPLDLVKLQAEIAMALKLSLTEDEDKVSRARR 202
             S+  D+ ++Q +I   L L   E+ D V+  +R
Sbjct:   216 SKSPDIHRIQGDIGKRLDLG-GEEWDNVNENQR 247

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 201 (75.8 bits), Expect = 1.5e-28, Sum P(2) = 1.5e-28
 Identities = 61/206 (29%), Positives = 104/206 (50%)

Query:     1 MKNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSI--EQEVK 58
             ++ L+R +++  + + +++  +  E  R ++    V+ WL  V  I+ + + +     V+
Sbjct:    35 LRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVE 94

Query:    59 KRKYFLCA----------RLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPSSGLI-LPTT 107
              +K  LC           + GK V   ++E+     +G +F   V   PP S +   PT 
Sbjct:    95 LQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEG-NFDE-VSQPPPRSEVEERPTQ 152

Query:   108 TLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWV 167
               +G+  ++++KK W  LM D V  +G+ GMGG GKT + + I+N+  E    F  VIW+
Sbjct:   153 PTIGQ--EEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWI 210

Query:   168 TVSQPLDLVKLQAEIAMALKLSLTED 193
              VSQ   L KLQ +IA   KL L +D
Sbjct:   211 VVSQGAKLSKLQEDIAE--KLHLCDD 234

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP 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: GSVIVG00027864001 SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (1025 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	359
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-37
pfam13401	124	pfam13401, AAA_22, AAA domain	3e-05

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

 Score =  136 bits (344), Expect = 1e-37
 Identities = 78/274 (28%), Positives = 123/274 (44%), Gaps = 33/274 (12%)

Query: 115 KKIVKKVWEDLMGDK--VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP 172
           + +++ + E L+     +  +G+ GMGG GKT + + I N      + F  V WV VS+ 
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGH-FDSVAWVVVSKT 60

Query: 173 LDLVKLQAEIAMALKLSLTE-DEDKVSRARRLLGKLKAKKKFVLILDDIDNHTFCWGL-- 229
               +LQ +I   L L  ++  E   S     + +   +K+F+L+LDD+      W    
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWE-KNDWDKIG 119

Query: 230 ----------------RSM--------GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTL 265
                           RS           +   V  L  EE+  LF +KV    L     
Sbjct: 120 VPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPE 179

Query: 266 NEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRL 325
            EE+   +VE+C GL LA+  + G +     + EW + L +L   +    G+N +VL  L
Sbjct: 180 LEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLN-EVLSIL 238

Query: 326 EFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
             SY  L    ++ CFLY AL+PED+ I K++LI
Sbjct: 239 SLSYDNLPM-HLKRCFLYLALFPEDYNIRKEQLI 271

Length = 285

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

 Score = 43.0 bits (102), Expect = 3e-05
 Identities = 20/88 (22%), Positives = 35/88 (39%), Gaps = 6/88 (6%)

Query: 135 VWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDE 194
           + G  G GKT ++R +  +          V++V          L  +I  AL L L    
Sbjct: 9   LTGESGSGKTTLLRRLARQLPN-----RRVVYVEAPSLGTPKDLLRKILRALGLPL-SGG 62

Query: 195 DKVSRARRLLGKLKAKKKFVLILDDIDN 222
                   +L  LK + + +LI+D+  +
Sbjct: 63  TTAELLEAILDALKRRGRPLLIIDEAQH 90

Length = 124

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	359
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PRK04841	903	transcriptional regulator MalT; Provisional	99.48
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.39
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.36
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.35
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.31
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.23
PF05729	166	NACHT: NACHT domain	99.15
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.05
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.04
PRK13342	413	recombination factor protein RarA; Reviewed	98.97
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.93
PRK06893	229	DNA replication initiation factor; Validated	98.93
COG3903	414	Predicted ATPase [General function prediction only	98.89
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.85
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.85
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.84
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.77
PRK08727	233	hypothetical protein; Validated	98.76
PRK12402	337	replication factor C small subunit 2; Reviewed	98.76
COG3899	849	Predicted ATPase [General function prediction only	98.74
cd01128	249	rho_factor Transcription termination factor rho is	98.73
KOG2028	554	consensus ATPase related to the helicase subunit o	98.72
PRK08084	235	DNA replication initiation factor; Provisional	98.69
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.69
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.68
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.67
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.66
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.66
PLN03025	319	replication factor C subunit; Provisional	98.64
PTZ00202	550	tuzin; Provisional	98.63
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.62
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.62
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.61
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.61
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.6
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.6
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.6
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.59
PRK04195	482	replication factor C large subunit; Provisional	98.59
PRK09376	416	rho transcription termination factor Rho; Provisio	98.59
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.59
PRK09087	226	hypothetical protein; Validated	98.57
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.56
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.56
PRK13341	725	recombination factor protein RarA/unknown domain f	98.56
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.53
PF13173	128	AAA_14: AAA domain	98.52
PF14516	331	AAA_35: AAA-like domain	98.51
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.51
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.5
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.5
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.5
TIGR00767	415	rho transcription termination factor Rho. Members	98.48
PRK05642	234	DNA replication initiation factor; Validated	98.48
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.47
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.46
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.46
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.46
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.46
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.45
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.44
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.44
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.43
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.43
CHL00095	821	clpC Clp protease ATP binding subunit	98.38
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.38
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.38
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.36
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.35
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.34
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.34
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.34
PRK06620	214	hypothetical protein; Validated	98.32
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.3
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.3
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.29
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.28
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.27
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.27
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.27
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.25
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.25
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.22
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.21
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.2
PHA02544	316	44 clamp loader, small subunit; Provisional	98.19
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.18
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.18
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.18
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.18
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.17
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.16
PRK12422	445	chromosomal replication initiation protein; Provis	98.15
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.15
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.11
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.1
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.1
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.09
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.05
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.04
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.03
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.03
PRK10865	857	protein disaggregation chaperone; Provisional	98.02
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.01
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.97
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.96
smart00382	148	AAA ATPases associated with a variety of cellular	97.96
CHL00181	287	cbbX CbbX; Provisional	97.96
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.95
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.95
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.92
PRK08116	268	hypothetical protein; Validated	97.92
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.9
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.89
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.88
PRK08118	167	topology modulation protein; Reviewed	97.86
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.85
PRK12377	248	putative replication protein; Provisional	97.84
PRK08181	269	transposase; Validated	97.84
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.81
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.81
PRK06835	329	DNA replication protein DnaC; Validated	97.8
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.8
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.79
CHL00176	638	ftsH cell division protein; Validated	97.79
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.79
PF00004	132	AAA: ATPase family associated with various cellula	97.78
PRK07261	171	topology modulation protein; Provisional	97.77
PRK06526	254	transposase; Provisional	97.76
PHA00729	226	NTP-binding motif containing protein	97.72
PRK12608	380	transcription termination factor Rho; Provisional	97.71
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.7
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.7
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.67
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.66
PRK09183	259	transposase/IS protein; Provisional	97.64
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.62
PRK07952	244	DNA replication protein DnaC; Validated	97.61
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.56
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.56
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.56
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.55
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.53
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.52
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.52
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.52
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.5
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.5
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.5
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.5
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.49
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.49
PRK08939	306	primosomal protein DnaI; Reviewed	97.48
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.47
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.47
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.46
PRK06921	266	hypothetical protein; Provisional	97.44
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.44
PRK05541	176	adenylylsulfate kinase; Provisional	97.43
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.42
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.42
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.41
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.41
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.4
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.37
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.36
PRK09354	349	recA recombinase A; Provisional	97.36
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.36
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.35
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.34
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.33
PRK10865	857	protein disaggregation chaperone; Provisional	97.33
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.32
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.32
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	97.31
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.3
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.3
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.29
PHA02244	383	ATPase-like protein	97.28
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.26
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.26
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.25
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.24
PRK04296	190	thymidine kinase; Provisional	97.22
CHL00195	489	ycf46 Ycf46; Provisional	97.22
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.19
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.18
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.17
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.16
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.16
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.15
PRK04132	846	replication factor C small subunit; Provisional	97.15
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.14
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.13
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.11
PRK06067	234	flagellar accessory protein FlaH; Validated	97.1
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.09
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.07
PRK06696	223	uridine kinase; Validated	97.07
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.06
PRK06547	172	hypothetical protein; Provisional	97.04
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.02
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.01
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.0
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.99
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.99
PTZ00494	664	tuzin-like protein; Provisional	96.98
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.97
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.97
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.96
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.95
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.95
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.94
PRK14974	336	cell division protein FtsY; Provisional	96.93
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.93
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.93
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.92
PRK10867	433	signal recognition particle protein; Provisional	96.91
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.91
TIGR00959	428	ffh signal recognition particle protein. This mode	96.9
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.9
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.89
PRK04328	249	hypothetical protein; Provisional	96.89
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.87
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.87
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.86
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.86
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.85
PRK05480	209	uridine/cytidine kinase; Provisional	96.85
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.84
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.83
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.82
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.82
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.81
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.81
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.81
PRK08233	182	hypothetical protein; Provisional	96.8
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.8
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.79
PTZ00035	337	Rad51 protein; Provisional	96.79
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.78
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.78
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.77
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.77
CHL00095	821	clpC Clp protease ATP binding subunit	96.77
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.76
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.75
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.73
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.73
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.73
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.73
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.72
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.72
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.72
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.71
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.7
PRK15455	644	PrkA family serine protein kinase; Provisional	96.7
PRK06762	166	hypothetical protein; Provisional	96.68
PRK05973	237	replicative DNA helicase; Provisional	96.68
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.67
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.66
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.66
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.64
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.64
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.64
PTZ00301	210	uridine kinase; Provisional	96.63
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.63
PRK12678	672	transcription termination factor Rho; Provisional	96.63
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.63
PTZ00088	229	adenylate kinase 1; Provisional	96.62
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.62
PRK14527	191	adenylate kinase; Provisional	96.61
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.6
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.6
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.59
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.59
PRK07667	193	uridine kinase; Provisional	96.58
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.57
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.57
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.57
PRK06217	183	hypothetical protein; Validated	96.57
PRK03839	180	putative kinase; Provisional	96.57
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.56
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.56
PRK00889	175	adenylylsulfate kinase; Provisional	96.56
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.55
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.55
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.54
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.53
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.52
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.52
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.52
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.52
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.46
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.46
PRK03846	198	adenylylsulfate kinase; Provisional	96.45
PRK13765	637	ATP-dependent protease Lon; Provisional	96.45
PRK00131	175	aroK shikimate kinase; Reviewed	96.44
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.42
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.42
PRK08149	428	ATP synthase SpaL; Validated	96.42
PRK04040	188	adenylate kinase; Provisional	96.41
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.41
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	96.41
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	96.39
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.39
PRK13531	498	regulatory ATPase RavA; Provisional	96.38
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	96.38
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.38
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.37
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.37
PRK00625	173	shikimate kinase; Provisional	96.36
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.35
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	96.35
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	96.34
PRK05439	311	pantothenate kinase; Provisional	96.34
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.34
cd03246	173	ABCC_Protease_Secretion This family represents the	96.33
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.33
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.33
PRK05922	434	type III secretion system ATPase; Validated	96.32
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.32
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.31
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.31
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	96.3
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.3
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.3
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.3
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.3
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.29
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.29
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.28
PRK07594	433	type III secretion system ATPase SsaN; Validated	96.28
PRK06936	439	type III secretion system ATPase; Provisional	96.27
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.27
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.26
PRK10536	262	hypothetical protein; Provisional	96.26
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.24
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.24
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.23
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.22
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.2
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	96.19
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.19
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.18
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.18
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.18
PF07726	131	AAA_3: ATPase family associated with various cellu	96.17
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.16
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.16
PTZ00185	574	ATPase alpha subunit; Provisional	96.15
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	96.15
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.14
PRK09302	509	circadian clock protein KaiC; Reviewed	96.13
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.12
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.11
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.1
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.09
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	96.09
PRK09302	509	circadian clock protein KaiC; Reviewed	96.08
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.08
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.07
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.07
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.06
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.06
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.06
PRK10416	318	signal recognition particle-docking protein FtsY;	96.05
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.05
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.05
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.05
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.04
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.04
PRK13947	171	shikimate kinase; Provisional	96.04
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.02
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.02
PRK06851	367	hypothetical protein; Provisional	96.01
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.01
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.01
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.99
PRK00300	205	gmk guanylate kinase; Provisional	95.99
PF13479	213	AAA_24: AAA domain	95.98
) 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	95.98
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.96
PF13245	76	AAA_19: Part of AAA domain	95.95
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.95
PRK13949	169	shikimate kinase; Provisional	95.95
PRK11823	446	DNA repair protein RadA; Provisional	95.95
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.94
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	95.94
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.93
PRK14530	215	adenylate kinase; Provisional	95.93
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.93
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.92
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.92
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.91
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	95.9
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	95.9
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.9
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.9
PRK14737	186	gmk guanylate kinase; Provisional	95.89
PRK09099	441	type III secretion system ATPase; Provisional	95.89
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.89
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.88
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.86
PRK14529	223	adenylate kinase; Provisional	95.86
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	95.85
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.84
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.84
PRK15453	290	phosphoribulokinase; Provisional	95.82
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	95.82
PRK06820	440	type III secretion system ATPase; Validated	95.81
PRK05057	172	aroK shikimate kinase I; Reviewed	95.79
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.77
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	95.76
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	95.75
PRK13948	182	shikimate kinase; Provisional	95.73
COG0714	329	MoxR-like ATPases [General function prediction onl	95.72
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	95.72
KOG0736	953	consensus Peroxisome assembly factor 2 containing	95.7
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	95.7
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	95.7
PRK14738	206	gmk guanylate kinase; Provisional	95.68
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	95.67
PLN02200	234	adenylate kinase family protein	95.67
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	95.67
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.67
COG0055	468	AtpD F0F1-type ATP synthase, beta subunit [Energy	95.67
PRK13946	184	shikimate kinase; Provisional	95.66
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	95.66
PRK06761	282	hypothetical protein; Provisional	95.66
PRK13975	196	thymidylate kinase; Provisional	95.64
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.63
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.63
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	95.62
PRK04182	180	cytidylate kinase; Provisional	95.62
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	95.62
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	95.59
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.58
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	95.58
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	95.57
PRK14532	188	adenylate kinase; Provisional	95.57
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.56
PRK09825	176	idnK D-gluconate kinase; Provisional	95.56
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	95.54
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	95.54
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.52
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	95.51
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	95.51
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.49
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	95.49
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.49
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	95.49
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	95.48
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	95.48
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.47
PLN02165	334	adenylate isopentenyltransferase	95.46
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.46
COG2884	223	FtsE Predicted ATPase involved in cell division [C	95.44
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.44
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.43
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.43
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	95.43
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	95.43
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.42
COG1100	219	GTPase SAR1 and related small G proteins [General	95.42
PLN02348	395	phosphoribulokinase	95.41
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	95.39
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.38
CHL00059	485	atpA ATP synthase CF1 alpha subunit	95.37
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	95.36
PRK03731	171	aroL shikimate kinase II; Reviewed	95.35
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	95.34
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	95.33
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.33
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	95.32
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	95.32
PRK13695	174	putative NTPase; Provisional	95.31
PHA02530	300	pseT polynucleotide kinase; Provisional	95.3
COG1157	441	FliI Flagellar biosynthesis/type III secretory pat	95.29
CHL00060	494	atpB ATP synthase CF1 beta subunit	95.29
PRK14531	183	adenylate kinase; Provisional	95.28
PRK10875	615	recD exonuclease V subunit alpha; Provisional	95.28
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.28
TIGR00665	434	DnaB replicative DNA helicase. This model describe	95.28
smart00178	184	SAR Sar1p-like members of the Ras-family of small	95.27
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	95.27
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.26
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	95.26
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.25
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	95.25
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	95.23
PRK08356	195	hypothetical protein; Provisional	95.19
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	95.19
PRK00409	782	recombination and DNA strand exchange inhibitor pr	95.18
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.17
PRK06851	367	hypothetical protein; Provisional	95.17
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	95.15

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=3.7e-53  Score=429.78  Aligned_cols=351  Identities=34%  Similarity=0.537  Sum_probs=286.4

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHH-HhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHhhCC-------------------
Q 038454            2 KNLERVLQEFNSQKEDIEATLK-AEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRK-------------------   61 (359)
Q Consensus         2 ~~l~~~~~~L~~~l~~i~~~l~-a~~~~~~~~~~~~~~W~~~l~~~~~~~ed~~d~~~~~~-------------------   61 (359)
                      .+.++.+..|++.+..++.+++ ++..+..  ...+..|...+++++|++++.++.+.-..                   
T Consensus        24 ~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~--~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~  101 (889)
T KOG4658|consen   24 DGKDNYILELKENLKALQSALEDLDAKRDD--LERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRL  101 (889)
T ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHhhcch--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHH
Confidence            3567789999999999999999 7764443  56889999999999999999988764110                   


Q ss_pred             --cc-------ccccchhhHHHHHHHHHHHHhccCCcccccccCCCC---CcccCCcccccccchHHHHHHHHHHhcCCC
Q 038454           62 --YF-------LCARLGKDVDAKIQEMKDCHQKGCSFISLVIDAPPS---SGLILPTTTLVGENTKKIVKKVWEDLMGDK  129 (359)
Q Consensus        62 --~~-------~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~vGr~~~~~~~~l~~~l~~~~  129 (359)
                        +.       .-+.+.+++-.+++.++.+..++.+........++.   ..+..+... ||.+.  .++++++.|.+++
T Consensus       102 c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~--~~~kl~~~L~~d~  178 (889)
T KOG4658|consen  102 CLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLET--MLEKLWNRLMEDD  178 (889)
T ss_pred             hhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHH--HHHHHHHHhccCC
Confidence              01       112455666666666666665544433222111111   112222333 99977  9999999999988


Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCC--CccHHHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTE--DEDKVSRARRLLGKL  207 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~~l~~~l  207 (359)
                      ..+++|+||||+||||||++++|++..+.++|+.++||+||+.++...++.+|+..++.....  .......+..+.+.|
T Consensus       179 ~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L  258 (889)
T KOG4658|consen  179 VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLL  258 (889)
T ss_pred             CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHh
Confidence            899999999999999999999999544899999999999999999999999999999874332  233468889999999


Q ss_pred             hcCCcEEEEEecC----------------CCC-eEEEeec-------ccce-eeeecCCCChHHHHHHHHHhhcCCCCCC
Q 038454          208 KAKKKFVLILDDI----------------DNH-TFCWGLR-------SMGC-EEVRVPPLSKEEALNLFLDKVGRNILHV  262 (359)
Q Consensus       208 ~~~k~~LlVlDdv----------------~~g-~ilvTtr-------~~~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~  262 (359)
                      .+ +|||||||||                .+| +|++|||       .++. ..++++.|+.+|||.||++.+|......
T Consensus       259 ~~-krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~  337 (889)
T KOG4658|consen  259 EG-KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGS  337 (889)
T ss_pred             cc-CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccc
Confidence            98 9999999999                577 9999999       2554 5699999999999999999998875545


Q ss_pred             CCchHHHHHHHHHHcCCchhHHHHHHHhhcCCCChhHHHHHHHHHhhc-ccccCCChhhHhhHHHHhhhcCCCcchhHHH
Q 038454          263 PTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGL-VRSFSGINADVLGRLEFSYLRLKDKKVQHCF  341 (359)
Q Consensus       263 ~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~~~~~~w~~~l~~~~~~-~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf  341 (359)
                      .+.++++|++++++|+|+|||++++|+.|+.+.+..+|+++++.+.+. ..+.++..+.++++|.+||+.| |+++|.||
T Consensus       338 ~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L-~~~lK~CF  416 (889)
T KOG4658|consen  338 HPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNL-PEELKSCF  416 (889)
T ss_pred             cccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhh-hHHHHHHH
Confidence            566999999999999999999999999999999999999999999876 3455566789999999999999 69999999


Q ss_pred             hhccccCCCCccCCCCCC
Q 038454          342 LYCALYPEDFAISKDELI  359 (359)
Q Consensus       342 ~~~s~fp~~~~i~~~~Li  359 (359)
                      +|||+||+||.|+++.||
T Consensus       417 LycalFPED~~I~~e~Li  434 (889)
T KOG4658|consen  417 LYCALFPEDYEIKKEKLI  434 (889)
T ss_pred             HhhccCCcccccchHHHH
Confidence            999999999999999885

>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=100.00  E-value=5e-43  Score=320.24  Aligned_cols=241  Identities=32%  Similarity=0.563  Sum_probs=203.1

Q ss_pred             HHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC--
Q 038454          116 KIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT--  191 (359)
Q Consensus       116 ~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~--  191 (359)
                      .++++|.++|.+  ++.++|+|+|+||+||||||.+++++ ....++|+.++|++++...+...++..|+.+++....  
T Consensus         3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~-~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~   81 (287)
T PF00931_consen    3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARD-LRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSI   81 (287)
T ss_dssp             HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCH-HHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STS
T ss_pred             HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccc-ccccccccccccccccccccccccccccccccccccccc
Confidence            488999999988  78999999999999999999999998 5588999999999999999999999999999988633  


Q ss_pred             -CCccHHHHHHHHHHHHhcCCcEEEEEecC----------------CCC-eEEEeecc------cc--eeeeecCCCChH
Q 038454          192 -EDEDKVSRARRLLGKLKAKKKFVLILDDI----------------DNH-TFCWGLRS------MG--CEEVRVPPLSKE  245 (359)
Q Consensus       192 -~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----------------~~g-~ilvTtr~------~~--~~~~~l~~L~~~  245 (359)
                       ...+.......+.+.+.+ +++|||||||                ..| +||+|||.      .+  ...+++++|+.+
T Consensus        82 ~~~~~~~~~~~~l~~~L~~-~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~  160 (287)
T PF00931_consen   82 SDPKDIEELQDQLRELLKD-KRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEE  160 (287)
T ss_dssp             SCCSSHHHHHHHHHHHHCC-TSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HH
T ss_pred             ccccccccccccchhhhcc-ccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence             346777899999999998 8999999999                346 99999992      12  457999999999


Q ss_pred             HHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhcCCCChhHHHHHHHHHhhcccccCCChhhHhhHH
Q 038454          246 EALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFSGINADVLGRL  325 (359)
Q Consensus       246 ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~~~~~~w~~~l~~~~~~~~~~~~~~~~~~~~l  325 (359)
                      +|++||.+.++......++...+.+++|+++|+|+||||.++|++|+.+.+..+|..+++++.....+..+....+..++
T Consensus       161 ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l  240 (287)
T PF00931_consen  161 EALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSAL  240 (287)
T ss_dssp             HHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999997765224455677899999999999999999999997656789999999998876544444568899999


Q ss_pred             HHhhhcCCCcchhHHHhhccccCCCCccCCCCCC
Q 038454          326 EFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI  359 (359)
Q Consensus       326 ~~sy~~L~~~~~k~cf~~~s~fp~~~~i~~~~Li  359 (359)
                      .+||+.| |+++|.||+|||+||+++.|+++.||
T Consensus       241 ~~s~~~L-~~~~~~~f~~L~~f~~~~~i~~~~li  273 (287)
T PF00931_consen  241 ELSYDSL-PDELRRCFLYLSIFPEGVPIPRERLI  273 (287)
T ss_dssp             HHHHHSS-HTCCHHHHHHGGGSGTTS-EEHHHHH
T ss_pred             eechhcC-CccHHHHHhhCcCCCCCceECHHHHH
Confidence            9999999 78999999999999999999987664

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PLN03210 Resistant to P

Probab=100.00  E-value=1.8e-33  Score=298.86  Aligned_cols=232  Identities=22%  Similarity=0.298  Sum_probs=181.4

Q ss_pred             cccccccchHHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe---CCC--------
Q 038454          106 TTTLVGENTKKIVKKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV---SQP--------  172 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~---~~~--------  172 (359)
                      .+.+||++.  .++++..++.  .+++++|+|+||||+||||||+++|++   ...+|++.+|+..   +..        
T Consensus       183 ~~~~vG~~~--~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~---l~~~F~g~vfv~~~~v~~~~~~~~~~~  257 (1153)
T PLN03210        183 FEDFVGIED--HIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSR---LSRQFQSSVFIDRAFISKSMEIYSSAN  257 (1153)
T ss_pred             cccccchHH--HHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHH---HhhcCCeEEEeeccccccchhhccccc
Confidence            467999977  7777777764  457899999999999999999999998   6778988887742   111        


Q ss_pred             ---cC-HHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC----------------CCC-eEEEeec-
Q 038454          173 ---LD-LVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI----------------DNH-TFCWGLR-  230 (359)
Q Consensus       173 ---~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----------------~~g-~ilvTtr-  230 (359)
                         .+ ...++..++..+.........   ....+++.+.+ +|+|||||||                ++| +|||||| 
T Consensus       258 ~~~~~~~~~l~~~~l~~il~~~~~~~~---~~~~~~~~L~~-krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd  333 (1153)
T PLN03210        258 PDDYNMKLHLQRAFLSEILDKKDIKIY---HLGAMEERLKH-RKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKD  333 (1153)
T ss_pred             ccccchhHHHHHHHHHHHhCCCCcccC---CHHHHHHHHhC-CeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCc
Confidence               01 223445555554322111000   12456677887 9999999999                468 9999999 


Q ss_pred             -----ccce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhcCCCChhHHHHHH
Q 038454          231 -----SMGC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNAL  304 (359)
Q Consensus       231 -----~~~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~~~~~~w~~~l  304 (359)
                           ..++ ..|+++.|+.++||+||+..||+... .+..+.+++++|+++|+|+|||++++|++|++ ++..+|+.++
T Consensus       334 ~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~-~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~-k~~~~W~~~l  411 (1153)
T PLN03210        334 KHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNS-PPDGFMELASEVALRAGNLPLGLNVLGSYLRG-RDKEDWMDML  411 (1153)
T ss_pred             HHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCC-CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC-CCHHHHHHHH
Confidence                 2333 57999999999999999999998654 45568899999999999999999999999998 6889999999


Q ss_pred             HHHhhcccccCCChhhHhhHHHHhhhcCCCcchhHHHhhccccCCCCccC
Q 038454          305 NELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAIS  354 (359)
Q Consensus       305 ~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp~~~~i~  354 (359)
                      +++...      ...++..+|++||+.|+++..|.||++||+||.++.++
T Consensus       412 ~~L~~~------~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~  455 (1153)
T PLN03210        412 PRLRNG------LDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN  455 (1153)
T ss_pred             HHHHhC------ccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH
Confidence            998742      34689999999999994446899999999999987664

syringae 6; Provisional

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.48  E-value=4.4e-12  Score=133.65  Aligned_cols=220  Identities=14%  Similarity=0.206  Sum_probs=144.1

Q ss_pred             ccCCcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHH
Q 038454          102 LILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQA  180 (359)
Q Consensus       102 ~~~~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~  180 (359)
                      +|..+..++-|+.  ..+.+-   .....+++.|+|++|.||||++.++.+.   .    +.++|+++.. ..+...+..
T Consensus         9 ~p~~~~~~~~R~r--l~~~l~---~~~~~~~~~v~apaG~GKTtl~~~~~~~---~----~~~~w~~l~~~d~~~~~f~~   76 (903)
T PRK04841          9 RPVRLHNTVVRER--LLAKLS---GANNYRLVLVTSPAGYGKTTLISQWAAG---K----NNLGWYSLDESDNQPERFAS   76 (903)
T ss_pred             CCCCccccCcchH--HHHHHh---cccCCCeEEEECCCCCCHHHHHHHHHHh---C----CCeEEEecCcccCCHHHHHH
Confidence            3444567787754  333332   1235789999999999999999998865   1    2589999964 456677778


Q ss_pred             HHHHHhcCCCCC-------------CccHHHHHHHHHHHHhc-CCcEEEEEecC-------------------CCC-eEE
Q 038454          181 EIAMALKLSLTE-------------DEDKVSRARRLLGKLKA-KKKFVLILDDI-------------------DNH-TFC  226 (359)
Q Consensus       181 ~i~~~l~~~~~~-------------~~~~~~~~~~l~~~l~~-~k~~LlVlDdv-------------------~~g-~il  226 (359)
                      .++..+......             ..+.......+...+.. +.+++|||||+                   .++ +++
T Consensus        77 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv  156 (903)
T PRK04841         77 YLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLV  156 (903)
T ss_pred             HHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEE
Confidence            888777421111             02223344445555543 48999999999                   345 888


Q ss_pred             Eeeccc----------ceeeeecC----CCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhc
Q 038454          227 WGLRSM----------GCEEVRVP----PLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMR  292 (359)
Q Consensus       227 vTtr~~----------~~~~~~l~----~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~  292 (359)
                      +|||..          ......+.    +|+.+|+.+||.......      -..+.+..|.+.|+|+|+++..++..+.
T Consensus       157 ~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~------~~~~~~~~l~~~t~Gwp~~l~l~~~~~~  230 (903)
T PRK04841        157 VLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSP------IEAAESSRLCDDVEGWATALQLIALSAR  230 (903)
T ss_pred             EEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCC------CCHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            999921          11123455    999999999998764322      2346678899999999999999988775


Q ss_pred             CCCChhHHHHHHHHHhhcccccCC-ChhhHhhHHHH-hhhcCCCcchhHHHhhccccCC
Q 038454          293 GVDEIHEWRNALNELRGLVRSFSG-INADVLGRLEF-SYLRLKDKKVQHCFLYCALYPE  349 (359)
Q Consensus       293 ~~~~~~~w~~~l~~~~~~~~~~~~-~~~~~~~~l~~-sy~~L~~~~~k~cf~~~s~fp~  349 (359)
                      .....  .......       +.. ....+...+.- .++.| |+..+..+...|+++.
T Consensus       231 ~~~~~--~~~~~~~-------~~~~~~~~~~~~l~~~v~~~l-~~~~~~~l~~~a~~~~  279 (903)
T PRK04841        231 QNNSS--LHDSARR-------LAGINASHLSDYLVEEVLDNV-DLETRHFLLRCSVLRS  279 (903)
T ss_pred             hCCCc--hhhhhHh-------hcCCCchhHHHHHHHHHHhcC-CHHHHHHHHHhccccc
Confidence            43211  0011111       111 12345554443 37899 8899999999999873

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

Probab=99.39  E-value=1.5e-10  Score=104.76  Aligned_cols=160  Identities=20%  Similarity=0.265  Sum_probs=107.2

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHH
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGK  206 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  206 (359)
                      ..+.+++.|+|++|+|||||++.+++.+ .. ..+ ..+|+ +....+..+++..|+..++.+.. ..+.......+...
T Consensus        40 ~~~~~~~~l~G~~G~GKTtl~~~l~~~l-~~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~-~~~~~~~~~~l~~~  114 (269)
T TIGR03015        40 SQREGFILITGEVGAGKTTLIRNLLKRL-DQ-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLETE-GRDKAALLRELEDF  114 (269)
T ss_pred             hcCCCEEEEEcCCCCCHHHHHHHHHHhc-CC-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCC-CCCHHHHHHHHHHH
Confidence            3445789999999999999999999883 21 111 12333 33345778899999999887543 23333334444333


Q ss_pred             ----HhcCCcEEEEEecC-------------------CCC---eEEEeec-----cc---c--------eeeeecCCCCh
Q 038454          207 ----LKAKKKFVLILDDI-------------------DNH---TFCWGLR-----SM---G--------CEEVRVPPLSK  244 (359)
Q Consensus       207 ----l~~~k~~LlVlDdv-------------------~~g---~ilvTtr-----~~---~--------~~~~~l~~L~~  244 (359)
                          ...+++.+||+||+                   ..+   .|++|..     ..   .        ...+.+++|+.
T Consensus       115 l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~  194 (269)
T TIGR03015       115 LIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDR  194 (269)
T ss_pred             HHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCH
Confidence                22348899999998                   112   3455544     00   0        23478999999


Q ss_pred             HHHHHHHHHhhcCCCCC-CCCchHHHHHHHHHHcCCchhHHHHHHHhh
Q 038454          245 EEALNLFLDKVGRNILH-VPTLNEEIINSVVEECAGLQLAIFTVVGCM  291 (359)
Q Consensus       245 ~ea~~lf~~~~~~~~~~-~~~~~~~~~~~i~~~c~g~Plai~~~~~~L  291 (359)
                      +|..+++...+...+.. ...-..+..+.|++.|+|.|..|..++..+
T Consensus       195 ~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       195 EETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            99999988776433211 122346788999999999999999998876

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.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.36  E-value=3.3e-10  Score=108.27  Aligned_cols=197  Identities=17%  Similarity=0.170  Sum_probs=127.8

Q ss_pred             CcccccccchHHHHHHHHHHh----cCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          105 PTTTLVGENTKKIVKKVWEDL----MGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l----~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      .++.++||+.  ++++|...+    .++....+.|+|++|+|||++++.+++++ ......-..+++++....+...++.
T Consensus        28 ~P~~l~~Re~--e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l-~~~~~~~~~v~in~~~~~~~~~~~~  104 (394)
T PRK00411         28 VPENLPHREE--QIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEEL-EEIAVKVVYVYINCQIDRTRYAIFS  104 (394)
T ss_pred             cCCCCCCHHH--HHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHhcCCcEEEEEECCcCCCHHHHHH
Confidence            4567999976  777777776    33455678999999999999999999983 2222123466777777778889999


Q ss_pred             HHHHHhcC-CCC-CCccHHHHHHHHHHHHhc-CCcEEEEEecC---------------------CCC---eEEEeec---
Q 038454          181 EIAMALKL-SLT-EDEDKVSRARRLLGKLKA-KKKFVLILDDI---------------------DNH---TFCWGLR---  230 (359)
Q Consensus       181 ~i~~~l~~-~~~-~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv---------------------~~g---~ilvTtr---  230 (359)
                      .|+.++.. ..+ ...+.......+.+.+.. ++..+||||++                     .++   .+|.++.   
T Consensus       105 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~  184 (394)
T PRK00411        105 EIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLT  184 (394)
T ss_pred             HHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcc
Confidence            99999875 222 233556677777777764 35689999999                     122   3555554   


Q ss_pred             -----------ccceeeeecCCCChHHHHHHHHHhhcCC--CCCCCCchHHHHHHHHHH----cCCchhHHHHHHHhh--
Q 038454          231 -----------SMGCEEVRVPPLSKEEALNLFLDKVGRN--ILHVPTLNEEIINSVVEE----CAGLQLAIFTVVGCM--  291 (359)
Q Consensus       231 -----------~~~~~~~~l~~L~~~ea~~lf~~~~~~~--~~~~~~~~~~~~~~i~~~----c~g~Plai~~~~~~L--  291 (359)
                                 ..+...+.+++++.++..+++...+...  ....+   .+..+.|++.    .|..+.|+.++-...  
T Consensus       185 ~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~---~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~  261 (394)
T PRK00411        185 FLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVD---DEVLDLIADLTAREHGDARVAIDLLRRAGLI  261 (394)
T ss_pred             hhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCC---HhHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence                       1112457999999999999998876321  11122   2333334433    455777776664322  


Q ss_pred             ---cC--CCChhHHHHHHHHH
Q 038454          292 ---RG--VDEIHEWRNALNEL  307 (359)
Q Consensus       292 ---~~--~~~~~~w~~~l~~~  307 (359)
                         ++  .-+.+.+..+++..
T Consensus       262 a~~~~~~~I~~~~v~~a~~~~  282 (394)
T PRK00411        262 AEREGSRKVTEEDVRKAYEKS  282 (394)
T ss_pred             HHHcCCCCcCHHHHHHHHHHH
Confidence               11  13556666666654

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=99.35  E-value=7.8e-12  Score=110.20  Aligned_cols=170  Identities=22%  Similarity=0.323  Sum_probs=96.6

Q ss_pred             ccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHH------
Q 038454          109 LVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEI------  182 (359)
Q Consensus       109 ~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i------  182 (359)
                      |+||+.  ++++|.+++..+....+.|+|+.|+|||+|++.+.+..  ....+ .++|+......... ....+      
T Consensus         1 F~gR~~--el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~--~~~~~-~~~y~~~~~~~~~~-~~~~~~~~~~~   74 (234)
T PF01637_consen    1 FFGREK--ELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL--KEKGY-KVVYIDFLEESNES-SLRSFIEETSL   74 (234)
T ss_dssp             S-S-HH--HHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC--T--EE-CCCHHCCTTBSHHH-HHHHHHHHHHH
T ss_pred             CCCHHH--HHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh--hhcCC-cEEEEecccchhhh-HHHHHHHHHHH
Confidence            689966  99999999988778899999999999999999999982  11122 34444443433222 22222      


Q ss_pred             ----HHHhcCCCC----------CCccHHHHHHHHHHHHhc-CCcEEEEEecC--------------------------C
Q 038454          183 ----AMALKLSLT----------EDEDKVSRARRLLGKLKA-KKKFVLILDDI--------------------------D  221 (359)
Q Consensus       183 ----~~~l~~~~~----------~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv--------------------------~  221 (359)
                          ...+....+          ...........+.+.+.. +++++||+||+                          .
T Consensus        75 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~  154 (234)
T PF01637_consen   75 ADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQ  154 (234)
T ss_dssp             HCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhcccc
Confidence                122221111          112334445555555554 24599999999                          2


Q ss_pred             CC-eEEEeec------c---------cceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHH
Q 038454          222 NH-TFCWGLR------S---------MGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIF  285 (359)
Q Consensus       222 ~g-~ilvTtr------~---------~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~  285 (359)
                      .. .+++++.      .         .....+.+++|+.+++++++...+-.. ... +...+..++|+..+||+|..|.
T Consensus       155 ~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~-~~~~~~~~~i~~~~gG~P~~l~  232 (234)
T PF01637_consen  155 QNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKL-PFSDEDIEEIYSLTGGNPRYLQ  232 (234)
T ss_dssp             TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC--------HHHHHHHHHHHTT-HHHHH
T ss_pred             CCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcc-cCCHHHHHHHHHHhCCCHHHHh
Confidence            23 4444443      1         112348999999999999999875333 212 2345667999999999999886


Q ss_pred             H
Q 038454          286 T  286 (359)
Q Consensus       286 ~  286 (359)
                      .
T Consensus       233 ~  233 (234)
T PF01637_consen  233 E  233 (234)
T ss_dssp             H
T ss_pred             c
Confidence            4

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

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.31  E-value=1.1e-09  Score=103.50  Aligned_cols=178  Identities=17%  Similarity=0.221  Sum_probs=118.0

Q ss_pred             cccccccchHHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCC---ccEEEEEeCCCcCHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEF---SDVIWVTVSQPLDLVKL  178 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~~~~~~~~~~~  178 (359)
                      |+.++||+.  ++++|..++.    .+....+.|+|++|+|||++++.+++.+.......   -..+|+++....+...+
T Consensus        14 p~~l~gRe~--e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~   91 (365)
T TIGR02928        14 PDRIVHRDE--QIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQV   91 (365)
T ss_pred             CCCCCCcHH--HHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHH
Confidence            457999976  8888887775    34557899999999999999999998732211111   13667887777788899


Q ss_pred             HHHHHHHhc---CCCC-CCccHHHHHHHHHHHHhc-CCcEEEEEecC----------------------C--CC-eEEEe
Q 038454          179 QAEIAMALK---LSLT-EDEDKVSRARRLLGKLKA-KKKFVLILDDI----------------------D--NH-TFCWG  228 (359)
Q Consensus       179 ~~~i~~~l~---~~~~-~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv----------------------~--~g-~ilvT  228 (359)
                      +..|+.++.   ...+ ...+..+....+.+.+.. +++++||||++                      .  .. .+|.+
T Consensus        92 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i  171 (365)
T TIGR02928        92 LVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGI  171 (365)
T ss_pred             HHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEE
Confidence            999999983   3222 123445556666666643 46889999999                      0  22 34444


Q ss_pred             ec--------------ccceeeeecCCCChHHHHHHHHHhhcC--CCCCCCCchHHHHHHHHHHcCCchhHHH
Q 038454          229 LR--------------SMGCEEVRVPPLSKEEALNLFLDKVGR--NILHVPTLNEEIINSVVEECAGLQLAIF  285 (359)
Q Consensus       229 tr--------------~~~~~~~~l~~L~~~ea~~lf~~~~~~--~~~~~~~~~~~~~~~i~~~c~g~Plai~  285 (359)
                      |.              ......+.++|++.++..+++...+..  .....+++..+.+..++..+.|.|-.+.
T Consensus       172 ~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al  244 (365)
T TIGR02928       172 SNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAI  244 (365)
T ss_pred             ECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHH
Confidence            43              111235799999999999999887631  1111233333455567777778885443

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.23  E-value=1.7e-09  Score=107.26  Aligned_cols=221  Identities=18%  Similarity=0.242  Sum_probs=150.5

Q ss_pred             ccCCcccccccchHHHHHHHHHHhcCC-CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHH
Q 038454          102 LILPTTTLVGENTKKIVKKVWEDLMGD-KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQ  179 (359)
Q Consensus       102 ~~~~~~~~vGr~~~~~~~~l~~~l~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~  179 (359)
                      .|.++.+.|-|.      .|.+.|.+. +.+.+.|..++|.|||||+.+.+..   . ..=..+.|.++.+. .++..++
T Consensus        14 ~P~~~~~~v~R~------rL~~~L~~~~~~RL~li~APAGfGKttl~aq~~~~---~-~~~~~v~Wlslde~dndp~rF~   83 (894)
T COG2909          14 RPVRPDNYVVRP------RLLDRLRRANDYRLILISAPAGFGKTTLLAQWREL---A-ADGAAVAWLSLDESDNDPARFL   83 (894)
T ss_pred             CCCCcccccccH------HHHHHHhcCCCceEEEEeCCCCCcHHHHHHHHHHh---c-CcccceeEeecCCccCCHHHHH
Confidence            444456667664      455556554 7899999999999999999999764   1 22235999998764 5788999


Q ss_pred             HHHHHHhcCCCCC-------------CccHHHHHHHHHHHHhc-CCcEEEEEecC-------------------CCC-eE
Q 038454          180 AEIAMALKLSLTE-------------DEDKVSRARRLLGKLKA-KKKFVLILDDI-------------------DNH-TF  225 (359)
Q Consensus       180 ~~i~~~l~~~~~~-------------~~~~~~~~~~l~~~l~~-~k~~LlVlDdv-------------------~~g-~i  225 (359)
                      ..++..++.-.+.             ..+....+..+..-+.. .++.+|||||.                   .++ .+
T Consensus        84 ~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~l  163 (894)
T COG2909          84 SYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTL  163 (894)
T ss_pred             HHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEE
Confidence            9999988743221             22344455566655544 47899999999                   567 99


Q ss_pred             EEeec---ccce-------eeeecC----CCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhh
Q 038454          226 CWGLR---SMGC-------EEVRVP----PLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCM  291 (359)
Q Consensus       226 lvTtr---~~~~-------~~~~l~----~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L  291 (359)
                      ++|||   ..+.       ..++++    .|+.+|+.++|.....      .+-....++.+.+..+|.+-|+..++=.+
T Consensus       164 vv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~------l~Ld~~~~~~L~~~teGW~~al~L~aLa~  237 (894)
T COG2909         164 VVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGS------LPLDAADLKALYDRTEGWAAALQLIALAL  237 (894)
T ss_pred             EEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCC------CCCChHHHHHHHhhcccHHHHHHHHHHHc
Confidence            99999   1111       123333    6899999999988742      22235667889999999999999998888


Q ss_pred             cCCCChhHHHHHHHHHhhcccccCCChhhHhhH-HHHhhhcCCCcchhHHHhhccccCC
Q 038454          292 RGVDEIHEWRNALNELRGLVRSFSGINADVLGR-LEFSYLRLKDKKVQHCFLYCALYPE  349 (359)
Q Consensus       292 ~~~~~~~~w~~~l~~~~~~~~~~~~~~~~~~~~-l~~sy~~L~~~~~k~cf~~~s~fp~  349 (359)
                      +.+.+.+.-...+          ++....+..- ..--++.| |+++|..++-||+++.
T Consensus       238 ~~~~~~~q~~~~L----------sG~~~~l~dYL~eeVld~L-p~~l~~FLl~~svl~~  285 (894)
T COG2909         238 RNNTSAEQSLRGL----------SGAASHLSDYLVEEVLDRL-PPELRDFLLQTSVLSR  285 (894)
T ss_pred             cCCCcHHHHhhhc----------cchHHHHHHHHHHHHHhcC-CHHHHHHHHHHHhHHH
Confidence            8544443322222          2222222222 22346778 8899999999998864

>PF05729 NACHT: NACHT domain

Probab=99.15  E-value=4e-10  Score=93.82  Aligned_cols=118  Identities=19%  Similarity=0.238  Sum_probs=77.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCC----CccEEEEEeCCCcCHH---HHHHHHHHHhcCCCCCCccHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNE----FSDVIWVTVSQPLDLV---KLQAEIAMALKLSLTEDEDKVSRARRL  203 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~~~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~l  203 (359)
                      +++.|+|.+|+||||+++.++..+.. ...    +...+|++.+......   .+...|..+......   ....   .+
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~---~~~~---~~   73 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAE-EEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIA---PIEE---LL   73 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHh-cCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchh---hhHH---HH
Confidence            57999999999999999999988422 222    4456677765543322   333334333332211   1111   23


Q ss_pred             HHHHhcCCcEEEEEecC---------------------------CCC-eEEEeecc----------cceeeeecCCCChH
Q 038454          204 LGKLKAKKKFVLILDDI---------------------------DNH-TFCWGLRS----------MGCEEVRVPPLSKE  245 (359)
Q Consensus       204 ~~~l~~~k~~LlVlDdv---------------------------~~g-~ilvTtr~----------~~~~~~~l~~L~~~  245 (359)
                      ...+...++++||+|++                           .++ ++++|+|.          .....+.+.+|+++
T Consensus        74 ~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~  153 (166)
T PF05729_consen   74 QELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEE  153 (166)
T ss_pred             HHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHH
Confidence            33333459999999999                           356 99999991          11235899999999


Q ss_pred             HHHHHHHHhh
Q 038454          246 EALNLFLDKV  255 (359)
Q Consensus       246 ea~~lf~~~~  255 (359)
                      +..+++.++.
T Consensus       154 ~~~~~~~~~f  163 (166)
T PF05729_consen  154 DIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHh
Confidence            9999998763

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.05  E-value=3.4e-09  Score=97.67  Aligned_cols=170  Identities=11%  Similarity=0.060  Sum_probs=102.8

Q ss_pred             ccccccchHHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLM-----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAE  181 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  181 (359)
                      ..|+|++.  .++.|..++.     ......+.++|++|+|||+||+.+++.+   ...+   ..+..+...... .+..
T Consensus         4 ~~~iG~~~--~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~---~~~~---~~~~~~~~~~~~-~l~~   74 (305)
T TIGR00635         4 AEFIGQEK--VKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM---GVNL---KITSGPALEKPG-DLAA   74 (305)
T ss_pred             HHHcCHHH--HHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCCE---EEeccchhcCch-hHHH
Confidence            46899976  7777777775     3445678999999999999999999983   2222   122221111222 2223


Q ss_pred             HHHHhcCCCC------CCccHHHHHHHHHHHHhcCCcEEEEEecC---------CC-C-eEEEeecc--------cce-e
Q 038454          182 IAMALKLSLT------EDEDKVSRARRLLGKLKAKKKFVLILDDI---------DN-H-TFCWGLRS--------MGC-E  235 (359)
Q Consensus       182 i~~~l~~~~~------~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------~~-g-~ilvTtr~--------~~~-~  235 (359)
                      .+..++...-      +..+ ......+...+.+ .+..+|+|+.         .+ . -|..||+.        ..+ .
T Consensus        75 ~l~~~~~~~vl~iDEi~~l~-~~~~e~l~~~~~~-~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~  152 (305)
T TIGR00635        75 ILTNLEEGDVLFIDEIHRLS-PAVEELLYPAMED-FRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGI  152 (305)
T ss_pred             HHHhcccCCEEEEehHhhhC-HHHHHHhhHHHhh-hheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcce
Confidence            3333332110      0011 1223445556666 6777888775         22 3 33445551        112 3


Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC  290 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~  290 (359)
                      .+.+++++.++..+++.+.+.....   .-..+....|++.|+|.|-.+..++..
T Consensus       153 ~~~l~~l~~~e~~~il~~~~~~~~~---~~~~~al~~ia~~~~G~pR~~~~ll~~  204 (305)
T TIGR00635       153 ILRLEFYTVEELAEIVSRSAGLLNV---EIEPEAALEIARRSRGTPRIANRLLRR  204 (305)
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHhCC---CcCHHHHHHHHHHhCCCcchHHHHHHH
Confidence            5789999999999999988754322   223567788999999999776555543

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=99.04  E-value=5e-09  Score=97.52  Aligned_cols=172  Identities=13%  Similarity=0.070  Sum_probs=102.7

Q ss_pred             cccccccchHHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM-----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      -..|+|++.  .++.+..++.     ......+.++|++|+|||+||+.+++.+   ...+   .++... .......+.
T Consensus        24 ~~~~vG~~~--~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l---~~~~---~~~~~~-~~~~~~~l~   94 (328)
T PRK00080         24 LDEFIGQEK--VKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM---GVNI---RITSGP-ALEKPGDLA   94 (328)
T ss_pred             HHHhcCcHH--HHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh---CCCe---EEEecc-cccChHHHH
Confidence            467999976  6666655543     3345688999999999999999999982   2221   122221 112222334


Q ss_pred             HHHHHhcCCCC----CCcc-HHHHHHHHHHHHhcCCcEEEEEecC---------CCC-eEE-Eeec--c------cce-e
Q 038454          181 EIAMALKLSLT----EDED-KVSRARRLLGKLKAKKKFVLILDDI---------DNH-TFC-WGLR--S------MGC-E  235 (359)
Q Consensus       181 ~i~~~l~~~~~----~~~~-~~~~~~~l~~~l~~~k~~LlVlDdv---------~~g-~il-vTtr--~------~~~-~  235 (359)
                      .++..+....-    +... .......+...+.+ .+..+++|+.         -+. .++ .|++  .      ..+ .
T Consensus        95 ~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~-~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~  173 (328)
T PRK00080         95 AILTNLEEGDVLFIDEIHRLSPVVEEILYPAMED-FRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGI  173 (328)
T ss_pred             HHHHhcccCCEEEEecHhhcchHHHHHHHHHHHh-cceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCe
Confidence            44444432110    0000 01122334555555 6777888875         123 334 4555  1      112 3


Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC  290 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~  290 (359)
                      .+.+++++.++..+++.+.+...+.   .-..+.+..|++.|+|.|-.+..+...
T Consensus       174 ~~~l~~~~~~e~~~il~~~~~~~~~---~~~~~~~~~ia~~~~G~pR~a~~~l~~  225 (328)
T PRK00080        174 VQRLEFYTVEELEKIVKRSARILGV---EIDEEGALEIARRSRGTPRIANRLLRR  225 (328)
T ss_pred             eeecCCCCHHHHHHHHHHHHHHcCC---CcCHHHHHHHHHHcCCCchHHHHHHHH
Confidence            5899999999999999988754332   223467899999999999655555543

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.97  E-value=3.6e-08  Score=94.59  Aligned_cols=158  Identities=17%  Similarity=0.267  Sum_probs=97.9

Q ss_pred             cccccccchHHHHHH---HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKK---VWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~---l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  182 (359)
                      -+.++|++.  .+..   +..++..+....+.++|++|+||||||+.+++.   ....|     +.++....-..-++.+
T Consensus        11 l~d~vGq~~--~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~---~~~~~-----~~l~a~~~~~~~ir~i   80 (413)
T PRK13342         11 LDEVVGQEH--LLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGA---TDAPF-----EALSAVTSGVKDLREV   80 (413)
T ss_pred             HHHhcCcHH--HhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHH---hCCCE-----EEEecccccHHHHHHH
Confidence            456888865  5444   777777777888999999999999999999987   22332     2222211111111112


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------CCC-eEEE-e-ec----------ccce
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------DNH-TFCW-G-LR----------SMGC  234 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------~~g-~ilv-T-tr----------~~~~  234 (359)
                                       ..........+++.+|++|++               ..| .+++ + |.          ...+
T Consensus        81 -----------------i~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~~~iilI~att~n~~~~l~~aL~SR~  143 (413)
T PRK13342         81 -----------------IEEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVEDGTITLIGATTENPSFEVNPALLSRA  143 (413)
T ss_pred             -----------------HHHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhcCcEEEEEeCCCChhhhccHHHhccc
Confidence                             122222122237889999999               345 4444 2 32          1234


Q ss_pred             eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh
Q 038454          235 EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC  290 (359)
Q Consensus       235 ~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~  290 (359)
                      ..+.+.+++.++...++.+.+.........-..+..+.|++.|+|.|..+..+...
T Consensus       144 ~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~  199 (413)
T PRK13342        144 QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLEL  199 (413)
T ss_pred             eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            57899999999999999886532111011233567788999999999777555443

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

Probab=98.93  E-value=1.2e-07  Score=87.10  Aligned_cols=201  Identities=17%  Similarity=0.183  Sum_probs=113.1

Q ss_pred             ccccccch-HHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH
Q 038454          107 TTLVGENT-KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      +.+||.+. -.+-.-|...+..+.+....+||++|+||||||+.+++.   ....|.     .++...+-          
T Consensus        24 de~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~---~~~~f~-----~~sAv~~g----------   85 (436)
T COG2256          24 DEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGT---TNAAFE-----ALSAVTSG----------   85 (436)
T ss_pred             HHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHh---hCCceE-----Eecccccc----------
Confidence            45666643 001124555667788999999999999999999999987   334442     22222111          


Q ss_pred             hcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------CCC-eEEEe--ec----------ccceeee
Q 038454          186 LKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------DNH-TFCWG--LR----------SMGCEEV  237 (359)
Q Consensus       186 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------~~g-~ilvT--tr----------~~~~~~~  237 (359)
                             ..+....++.-++....+++.+|++|.|               .+| -++|.  |.          ...+..+
T Consensus        86 -------vkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf  158 (436)
T COG2256          86 -------VKDLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVENGTIILIGATTENPSFELNPALLSRARVF  158 (436)
T ss_pred             -------HHHHHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhhcCCeEEEEeccCCCCCeeecHHHhhhhhee
Confidence                   1222333333333333348999999999               678 55553  33          2345679


Q ss_pred             ecCCCChHHHHHHHHHhhcCCCCC----CCCchHHHHHHHHHHcCCchhHHHHHH---HhhcCCC---ChhHHHHHHHHH
Q 038454          238 RVPPLSKEEALNLFLDKVGRNILH----VPTLNEEIINSVVEECAGLQLAIFTVV---GCMRGVD---EIHEWRNALNEL  307 (359)
Q Consensus       238 ~l~~L~~~ea~~lf~~~~~~~~~~----~~~~~~~~~~~i~~~c~g~Plai~~~~---~~L~~~~---~~~~w~~~l~~~  307 (359)
                      .+++|+.++-.+++.+.+......    ...-.++....++..++|---++-...   ..+....   ..+..++.+++-
T Consensus       159 ~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~l~~~  238 (436)
T COG2256         159 ELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEEILQRR  238 (436)
T ss_pred             eeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHHHHhhh
Confidence            999999999999998844222111    111234566778888888654433222   2222211   244444444443


Q ss_pred             hhcccccCCChhhHhhHHHHhhhcC
Q 038454          308 RGLVRSFSGINADVLGRLEFSYLRL  332 (359)
Q Consensus       308 ~~~~~~~~~~~~~~~~~l~~sy~~L  332 (359)
                      ........+..-++...|.-|...=
T Consensus       239 ~~~~Dk~gD~hYdliSA~hKSvRGS  263 (436)
T COG2256         239 SARFDKDGDAHYDLISALHKSVRGS  263 (436)
T ss_pred             hhccCCCcchHHHHHHHHHHhhccC
Confidence            2211111222334555555555544

>PRK06893 DNA replication initiation factor; Validated

Probab=98.93  E-value=3.9e-08  Score=86.66  Aligned_cols=153  Identities=14%  Similarity=0.261  Sum_probs=90.9

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  186 (359)
                      ++|+|-+.......+.........+.+.++|++|+|||+|++.+++.+   ......+.|+++....   ....      
T Consensus        16 d~f~~~~~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~---~~~~~~~~y~~~~~~~---~~~~------   83 (229)
T PRK06893         16 DNFYADNNLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHY---LLNQRTAIYIPLSKSQ---YFSP------   83 (229)
T ss_pred             cccccCChHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHH---HHcCCCeEEeeHHHhh---hhhH------
Confidence            456654432233333333333344678999999999999999999983   2222345677653210   0000      


Q ss_pred             cCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEE-Eeec-------------
Q 038454          187 KLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFC-WGLR-------------  230 (359)
Q Consensus       187 ~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~il-vTtr-------------  230 (359)
                                     .+.+.+.  +.-+|+|||+                     ..| .++ +|++             
T Consensus        84 ---------------~~~~~~~--~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L  146 (229)
T PRK06893         84 ---------------AVLENLE--QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDL  146 (229)
T ss_pred             ---------------HHHhhcc--cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhH
Confidence                           1111121  2347788887                     234 444 4444             


Q ss_pred             --cc-ceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhh
Q 038454          231 --SM-GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCM  291 (359)
Q Consensus       231 --~~-~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L  291 (359)
                        +. ....+++++++.++.++++.+.+...+.   .-..+...-|++.+.|..-.+..+-..|
T Consensus       147 ~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l---~l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        147 ASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGI---ELSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence              11 1236899999999999999998865432   2235677888998887776665444433

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.89  E-value=6.3e-09  Score=95.82  Aligned_cols=214  Identities=21%  Similarity=0.253  Sum_probs=151.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      .+.+.++|.|||||||++-++.. .   ...|. .+.++....-.+...+.-.....++....+   .+.....+.....
T Consensus        14 ~RlvtL~g~ggvgkttl~~~~a~-~---~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~---g~~~~~~~~~~~~   86 (414)
T COG3903          14 LRLVTLTGAGGVGKTTLALQAAH-A---ASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQP---GDSAVDTLVRRIG   86 (414)
T ss_pred             hheeeeeccCccceehhhhhhHh-H---hhhcccceeeeeccccCchhHhHHHHHhhccccccc---chHHHHHHHHHHh
Confidence            47899999999999999999887 1   34564 566676666667777777777767775432   2333445556666


Q ss_pred             cCCcEEEEEecC-----------------CCC-eEEEeec----ccceeeeecCCCChH-HHHHHHHHhhcCCC--CCCC
Q 038454          209 AKKKFVLILDDI-----------------DNH-TFCWGLR----SMGCEEVRVPPLSKE-EALNLFLDKVGRNI--LHVP  263 (359)
Q Consensus       209 ~~k~~LlVlDdv-----------------~~g-~ilvTtr----~~~~~~~~l~~L~~~-ea~~lf~~~~~~~~--~~~~  263 (359)
                      . ++.++|+||.                 .+. .++.|+|    ..+-..+.+++|+.- ++.++|...+....  -...
T Consensus        87 ~-rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~  165 (414)
T COG3903          87 D-RRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLT  165 (414)
T ss_pred             h-hhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcccccccccCCccccCCchhHHHHHHHHHhccceeec
Confidence            6 9999999998                 333 8889999    223356788888865 79999887764321  1233


Q ss_pred             CchHHHHHHHHHHcCCchhHHHHHHHhhcCCCChhHHHHHHHHHhhccccc----CCChhhHhhHHHHhhhcCCCcchhH
Q 038454          264 TLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSF----SGINADVLGRLEFSYLRLKDKKVQH  339 (359)
Q Consensus       264 ~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~~~~~~w~~~l~~~~~~~~~~----~~~~~~~~~~l~~sy~~L~~~~~k~  339 (359)
                      ......+.+|.+...|.|++|...++..+. ....+....++.--.....-    ..........+.+||.-| ....+-
T Consensus       166 ~~~~a~v~~icr~ldg~~laielaaarv~s-l~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lL-tgwe~~  243 (414)
T COG3903         166 DDNAAAVAEICRRLDGIPLAIELAAARVRS-LSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALL-TGWERA  243 (414)
T ss_pred             CCchHHHHHHHHHhhcchHHHHHHHHHHHh-cCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhh-hhHHHH
Confidence            445678899999999999999999999887 55555444444322111111    112356788999999999 888899


Q ss_pred             HHhhccccCCCCcc
Q 038454          340 CFLYCALYPEDFAI  353 (359)
Q Consensus       340 cf~~~s~fp~~~~i  353 (359)
                      .|.-++.|...|.-
T Consensus       244 ~~~rLa~~~g~f~~  257 (414)
T COG3903         244 LFGRLAVFVGGFDL  257 (414)
T ss_pred             Hhcchhhhhhhhcc
Confidence            99999999887764

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.85  E-value=8.8e-08  Score=84.23  Aligned_cols=151  Identities=15%  Similarity=0.286  Sum_probs=93.5

Q ss_pred             cccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhc
Q 038454          108 TLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALK  187 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  187 (359)
                      +|++......++.+..++.......+.|+|++|+|||+||+.+++..   .......++++++.-.+.   ..       
T Consensus        16 ~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~---~~~~~~~~~i~~~~~~~~---~~-------   82 (226)
T TIGR03420        16 NFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAA---EERGKSAIYLPLAELAQA---DP-------   82 (226)
T ss_pred             CcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHH---HhcCCcEEEEeHHHHHHh---HH-------
Confidence            45532224567777777666667889999999999999999999872   222334556654332110   00       


Q ss_pred             CCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeecc--------------
Q 038454          188 LSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLRS--------------  231 (359)
Q Consensus       188 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr~--------------  231 (359)
                                    .+...+.  +.-+||+||+                     ..+ .+++||+.              
T Consensus        83 --------------~~~~~~~--~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~  146 (226)
T TIGR03420        83 --------------EVLEGLE--QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRT  146 (226)
T ss_pred             --------------HHHhhcc--cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHH
Confidence                          1111122  2237778887                     234 78888761              


Q ss_pred             -cc-eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh
Q 038454          232 -MG-CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC  290 (359)
Q Consensus       232 -~~-~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~  290 (359)
                       .. ...+++++++.++...++...+-..+.   .-..+..+.|+..+.|.|..+..+...
T Consensus       147 r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~---~~~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       147 RLAWGLVFQLPPLSDEEKIAALQSRAARRGL---QLPDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             HHhcCeeEecCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHhccCCHHHHHHHHHH
Confidence             00 235889999999989988775432221   122456677888888888877665443

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.

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

Probab=98.85  E-value=4.9e-07  Score=84.74  Aligned_cols=178  Identities=20%  Similarity=0.292  Sum_probs=122.5

Q ss_pred             cccccccchHHHHHHHHHHh----cCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDL----MGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAE  181 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l----~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  181 (359)
                      |..+.+|+.  +++++...+    .++.+.-+.|+|.+|+|||+.++.+.+.+........ +++|++....+..+++..
T Consensus        16 P~~l~~Re~--ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~   92 (366)
T COG1474          16 PEELPHREE--EINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSK   92 (366)
T ss_pred             cccccccHH--HHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHH
Confidence            445889977  666666555    4455566999999999999999999998433222232 789999999999999999


Q ss_pred             HHHHhcCCCCCCccHHHHHHHHHHHHhc-CCcEEEEEecC-------------------CCC-eE--EEeec--------
Q 038454          182 IAMALKLSLTEDEDKVSRARRLLGKLKA-KKKFVLILDDI-------------------DNH-TF--CWGLR--------  230 (359)
Q Consensus       182 i~~~l~~~~~~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv-------------------~~g-~i--lvTtr--------  230 (359)
                      |+++++..........+....+.+.+.. ++.+++|||++                   ..+ +|  +..+.        
T Consensus        93 i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~l  172 (366)
T COG1474          93 ILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYL  172 (366)
T ss_pred             HHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHh
Confidence            9999986555566777777888887765 57899999999                   112 22  22332        


Q ss_pred             ------ccceeeeecCCCChHHHHHHHHHhh---cCCCCCCCCchHHHHHHHHHHcCC-chhHHHHH
Q 038454          231 ------SMGCEEVRVPPLSKEEALNLFLDKV---GRNILHVPTLNEEIINSVVEECAG-LQLAIFTV  287 (359)
Q Consensus       231 ------~~~~~~~~l~~L~~~ea~~lf~~~~---~~~~~~~~~~~~~~~~~i~~~c~g-~Plai~~~  287 (359)
                            ..+...+..+|-+.++-.+.+...+   |..+. .++..-+.+..++..-+| .=.||..+
T Consensus       173 d~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~-~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         173 DPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGV-IDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             hhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCC-cCccHHHHHHHHHHHcCccHHHHHHHH
Confidence                  2333457899999999999998876   33333 344444444444444443 44444443

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

Probab=98.84  E-value=8.8e-09  Score=82.37  Aligned_cols=91  Identities=22%  Similarity=0.339  Sum_probs=68.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccc--cCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEE--TNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      .+++.|+|.+|+|||+++..+.+.+...  ...-..++|+++....+...+...|+.+++.......+.......+.+.+
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            4789999999999999999999873110  00123477999988889999999999999987765567778888888888


Q ss_pred             hcCCcEEEEEecC
Q 038454          208 KAKKKFVLILDDI  220 (359)
Q Consensus       208 ~~~k~~LlVlDdv  220 (359)
                      ...+..+||+|++
T Consensus        84 ~~~~~~~lviDe~   96 (131)
T PF13401_consen   84 DRRRVVLLVIDEA   96 (131)
T ss_dssp             HHCTEEEEEEETT
T ss_pred             HhcCCeEEEEeCh
Confidence            8845569999997

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.77  E-value=3e-07  Score=92.43  Aligned_cols=184  Identities=14%  Similarity=0.103  Sum_probs=111.4

Q ss_pred             cccccccchHHHHHHHHHHhc----CCC-ccEEEEEcCCCCcHHHHHHHHHcCccccc--CCCc--cEEEEEeCCCcCHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM----GDK-VTKIGVWGMGGFGKTAIMRHINNRPQEET--NEFS--DVIWVTVSQPLDLV  176 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~----~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~F~--~~~wv~~~~~~~~~  176 (359)
                      |+.+.||+.  ++++|...|.    ... ..++.|+|++|+|||++++.|.+.+....  ...+  .+++|++..-.+..
T Consensus       754 PD~LPhREe--EIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~  831 (1164)
T PTZ00112        754 PKYLPCREK--EIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPN  831 (1164)
T ss_pred             CCcCCChHH--HHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHH
Confidence            467889976  7777766663    233 35678999999999999999988742211  1222  26778777777888


Q ss_pred             HHHHHHHHHhcCCCC-CCccHHHHHHHHHHHHhc--CCcEEEEEecC-------------------CCC-eEEE--eec-
Q 038454          177 KLQAEIAMALKLSLT-EDEDKVSRARRLLGKLKA--KKKFVLILDDI-------------------DNH-TFCW--GLR-  230 (359)
Q Consensus       177 ~~~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l~~--~k~~LlVlDdv-------------------~~g-~ilv--Ttr-  230 (359)
                      .++..|..+|....+ ...........+...+..  ....+||||++                   ..+ ++++  .|. 
T Consensus       832 sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNd  911 (1164)
T PTZ00112        832 AAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNT  911 (1164)
T ss_pred             HHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCc
Confidence            899999999854332 233344555666655522  13458999999                   223 4333  332 


Q ss_pred             -------------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCc-hHHHHHHHHHHcCCchhHHHHHHHhh
Q 038454          231 -------------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTL-NEEIINSVVEECAGLQLAIFTVVGCM  291 (359)
Q Consensus       231 -------------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~-~~~~~~~i~~~c~g~Plai~~~~~~L  291 (359)
                                   .++...+..+|++.++-.+++..++.......++. ++-+|+.++...|-.=.||.++-.+.
T Consensus       912 lDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        912 MDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             hhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence                         12223477899999999999998875321112222 22233333333344455555544433

>PRK08727 hypothetical protein; Validated

Probab=98.76  E-value=3.3e-07  Score=80.96  Aligned_cols=145  Identities=14%  Similarity=0.223  Sum_probs=90.6

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  186 (359)
                      ++|++.+. +.+..+...........+.|+|.+|+|||.|++.+++..   ......+.|++..+      ....+.   
T Consensus        19 ~~f~~~~~-n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~---~~~~~~~~y~~~~~------~~~~~~---   85 (233)
T PRK08727         19 DSYIAAPD-GLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAA---EQAGRSSAYLPLQA------AAGRLR---   85 (233)
T ss_pred             hhccCCcH-HHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEeHHH------hhhhHH---
Confidence            45665443 234444443333444679999999999999999998872   22223456665422      111110   


Q ss_pred             cCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeec--------------
Q 038454          187 KLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLR--------------  230 (359)
Q Consensus       187 ~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr--------------  230 (359)
                                     ...+.+.  +.-+||+||+                     .+| .+|+||+              
T Consensus        86 ---------------~~~~~l~--~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~  148 (233)
T PRK08727         86 ---------------DALEALE--GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLR  148 (233)
T ss_pred             ---------------HHHHHHh--cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHH
Confidence                           1112222  3458899998                     356 7999998              


Q ss_pred             -cc-ceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          231 -SM-GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       231 -~~-~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                       +. .+..+++++++.++-.+++.+.+...+.   .-..+....|++.++|-.-.+
T Consensus       149 SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~l---~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        149 SRLAQCIRIGLPVLDDVARAAVLRERAQRRGL---ALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHhcCceEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHhCCCCHHHH
Confidence             11 1346899999999999999987644322   223567788888888766555

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.76  E-value=4.3e-07  Score=84.83  Aligned_cols=176  Identities=14%  Similarity=0.190  Sum_probs=101.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCH-HHHHH---
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDL-VKLQA---  180 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~-~~~~~---  180 (359)
                      -..++|++.  .++.+..++..+..+.+.++|++|+||||+|+.+++.+  ....+. ..+.++++...+. ...+.   
T Consensus        14 ~~~~~g~~~--~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l--~~~~~~~~~~~i~~~~~~~~~~~~~~~~~   89 (337)
T PRK12402         14 LEDILGQDE--VVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALAREL--YGDPWENNFTEFNVADFFDQGKKYLVEDP   89 (337)
T ss_pred             HHHhcCCHH--HHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh--cCcccccceEEechhhhhhcchhhhhcCc
Confidence            367899866  88889888888877788999999999999999999873  122222 2344444321100 00000   


Q ss_pred             HHHHHhcCCCCCCccHHHHHHHHHHHHhc-----CCcEEEEEecC------------------CCC-eEEEeec------
Q 038454          181 EIAMALKLSLTEDEDKVSRARRLLGKLKA-----KKKFVLILDDI------------------DNH-TFCWGLR------  230 (359)
Q Consensus       181 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~-----~k~~LlVlDdv------------------~~g-~ilvTtr------  230 (359)
                      .....++...............+.+....     ..+-+||+||+                  .+. ++|+|+.      
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~  169 (337)
T PRK12402         90 RFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLI  169 (337)
T ss_pred             chhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCc
Confidence            00000000000001111222222221111     14458999998                  233 6777764      


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                         ...+..+.+.+++.++...++...+...+..   -..+....+++.++|.+-.+....
T Consensus       170 ~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~---~~~~al~~l~~~~~gdlr~l~~~l  227 (337)
T PRK12402        170 PPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD---YDDDGLELIAYYAGGDLRKAILTL  227 (337)
T ss_pred             hhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence               1224568999999999999988876433321   235677889999988776654433

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.74  E-value=2.4e-07  Score=95.99  Aligned_cols=234  Identities=15%  Similarity=0.209  Sum_probs=144.1

Q ss_pred             cccccchHHHHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc---CHHHHHHH
Q 038454          108 TLVGENTKKIVKKVWEDLM---GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL---DLVKLQAE  181 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~---~~~~~~~~  181 (359)
                      +++||+.  +++.|...+.   .+...++.+.|.+|||||+|+++|...+.+.++.|-...+-......   ...+.+++
T Consensus         1 ~l~GRe~--ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~   78 (849)
T COG3899           1 PLYGRET--ELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRD   78 (849)
T ss_pred             CCCchHh--HHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHH
Confidence            4789977  7777777664   46677999999999999999999998843332333211121122221   13334444


Q ss_pred             HHHHhcCCCC-----------------------------------------CCccHHH-----HHHHHHHHHhcCCcEEE
Q 038454          182 IAMALKLSLT-----------------------------------------EDEDKVS-----RARRLLGKLKAKKKFVL  215 (359)
Q Consensus       182 i~~~l~~~~~-----------------------------------------~~~~~~~-----~~~~l~~~l~~~k~~Ll  215 (359)
                      +..++.....                                         .......     ....+.......++.++
T Consensus        79 l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi  158 (849)
T COG3899          79 LMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVI  158 (849)
T ss_pred             HHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEE
Confidence            4443311000                                         0001111     12223333344479999


Q ss_pred             EEecC------------------C-------CCeEEEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCC
Q 038454          216 ILDDI------------------D-------NHTFCWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILH  261 (359)
Q Consensus       216 VlDdv------------------~-------~g~ilvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~  261 (359)
                      |+||+                  .       +.-.+.|.+         ......+.|.||+..+...+........   
T Consensus       159 ~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~---  235 (849)
T COG3899         159 VLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCT---  235 (849)
T ss_pred             EEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCc---
Confidence            99999                  1       112222223         1223679999999999999998886442   


Q ss_pred             CCCchHHHHHHHHHHcCCchhHHHHHHHhhcCC------CChhHHHHHHHHHhhcccccCCChhhHhhHHHHhhhcCCCc
Q 038454          262 VPTLNEEIINSVVEECAGLQLAIFTVVGCMRGV------DEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDK  335 (359)
Q Consensus       262 ~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~------~~~~~w~~~l~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~  335 (359)
                       .....+..+.|+++..|+|+.+..+-..+..+      .+...|..-..++.     ..+..+++...+..-.+.| |.
T Consensus       236 -~~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~-----~~~~~~~vv~~l~~rl~kL-~~  308 (849)
T COG3899         236 -KLLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLG-----ILATTDAVVEFLAARLQKL-PG  308 (849)
T ss_pred             -ccccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcC-----CchhhHHHHHHHHHHHhcC-CH
Confidence             22345778899999999999999998888662      33344443333322     1222334666788889999 88


Q ss_pred             chhHHHhhccccCCCCcc
Q 038454          336 KVQHCFLYCALYPEDFAI  353 (359)
Q Consensus       336 ~~k~cf~~~s~fp~~~~i  353 (359)
                      ..|..+...|++-..|..
T Consensus       309 ~t~~Vl~~AA~iG~~F~l  326 (849)
T COG3899         309 TTREVLKAAACIGNRFDL  326 (849)
T ss_pred             HHHHHHHHHHHhCccCCH
Confidence            889988888887765543

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

Probab=98.73  E-value=3.1e-08  Score=87.89  Aligned_cols=90  Identities=17%  Similarity=0.142  Sum_probs=61.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC--cCHHHHHHHHHHHhcCCCCCCccHH------HHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP--LDLVKLQAEIAMALKLSLTEDEDKV------SRA  200 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~------~~~  200 (359)
                      .-..++|+|++|+|||||++.+++.+  ...+|+.++|+.+...  +++.++++.+...+-....+.....      ...
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l--~~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~   92 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAI--TKNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVL   92 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc--ccccCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHH
Confidence            34679999999999999999999984  2348999999997665  7899999998443322211111111      112


Q ss_pred             HHHHHHHhcCCcEEEEEecC
Q 038454          201 RRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       201 ~~l~~~l~~~k~~LlVlDdv  220 (359)
                      .........+++++|++|++
T Consensus        93 ~~a~~~~~~G~~vll~iDei  112 (249)
T cd01128          93 EKAKRLVEHGKDVVILLDSI  112 (249)
T ss_pred             HHHHHHHHCCCCEEEEEECH
Confidence            22222223359999999999

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.

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

Probab=98.72  E-value=2.8e-07  Score=83.46  Aligned_cols=142  Identities=16%  Similarity=0.231  Sum_probs=92.5

Q ss_pred             HHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHH
Q 038454          120 KVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSR  199 (359)
Q Consensus       120 ~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~  199 (359)
                      -|.+.+..+.++.+.+||++|+||||||+.+... .  +.+  ...||..|....-..-++.|.++-..           
T Consensus       152 llrs~ieq~~ipSmIlWGppG~GKTtlArlia~t-s--k~~--SyrfvelSAt~a~t~dvR~ife~aq~-----------  215 (554)
T KOG2028|consen  152 LLRSLIEQNRIPSMILWGPPGTGKTTLARLIAST-S--KKH--SYRFVELSATNAKTNDVRDIFEQAQN-----------  215 (554)
T ss_pred             HHHHHHHcCCCCceEEecCCCCchHHHHHHHHhh-c--CCC--ceEEEEEeccccchHHHHHHHHHHHH-----------
Confidence            4556667888999999999999999999999987 2  222  15677776654333333444433211           


Q ss_pred             HHHHHHHHhcCCcEEEEEecC---------------CCC-eEEE--eec----------ccceeeeecCCCChHHHHHHH
Q 038454          200 ARRLLGKLKAKKKFVLILDDI---------------DNH-TFCW--GLR----------SMGCEEVRVPPLSKEEALNLF  251 (359)
Q Consensus       200 ~~~l~~~l~~~k~~LlVlDdv---------------~~g-~ilv--Ttr----------~~~~~~~~l~~L~~~ea~~lf  251 (359)
                          ...+.. +|.+|.+|.|               .+| -++|  ||.          ...|..+.|++|+.++...++
T Consensus       216 ----~~~l~k-rkTilFiDEiHRFNksQQD~fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL  290 (554)
T KOG2028|consen  216 ----EKSLTK-RKTILFIDEIHRFNKSQQDTFLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTIL  290 (554)
T ss_pred             ----HHhhhc-ceeEEEeHHhhhhhhhhhhcccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHH
Confidence                112334 8999999999               567 4444  343          234678999999999999998


Q ss_pred             HHhh--cCC-CC---CCCC----chHHHHHHHHHHcCCchh
Q 038454          252 LDKV--GRN-IL---HVPT----LNEEIINSVVEECAGLQL  282 (359)
Q Consensus       252 ~~~~--~~~-~~---~~~~----~~~~~~~~i~~~c~g~Pl  282 (359)
                      .+-.  .+. ..   ..+.    -...+.+-++..|.|-.-
T Consensus       291 ~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  291 MRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             HHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence            8733  111 11   1111    234566777888888653

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.69  E-value=6.8e-07  Score=79.07  Aligned_cols=149  Identities=13%  Similarity=0.181  Sum_probs=91.9

Q ss_pred             cccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhc
Q 038454          108 TLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALK  187 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~  187 (359)
                      -++| .....+..+..+......+.+.|+|++|+|||+|++.+++..   ...-..+.|+++.....             
T Consensus        24 f~~~-~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~---~~~~~~v~y~~~~~~~~-------------   86 (235)
T PRK08084         24 FYPG-DNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAEL---SQRGRAVGYVPLDKRAW-------------   86 (235)
T ss_pred             cccC-ccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEEEHHHHhh-------------
Confidence            3446 434456666666555556789999999999999999999872   22223356666533100             


Q ss_pred             CCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC--eEEEeec--------------
Q 038454          188 LSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH--TFCWGLR--------------  230 (359)
Q Consensus       188 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g--~ilvTtr--------------  230 (359)
                             .    ...+.+.+.  .--+|++||+                     ..|  ++|+||+              
T Consensus        87 -------~----~~~~~~~~~--~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~  153 (235)
T PRK08084         87 -------F----VPEVLEGME--QLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLA  153 (235)
T ss_pred             -------h----hHHHHHHhh--hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHH
Confidence                   0    001112221  1236778888                     234  6888887              


Q ss_pred             -cc-ceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHH
Q 038454          231 -SM-GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVG  289 (359)
Q Consensus       231 -~~-~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~  289 (359)
                       +. ....+++.+++.++-.+++.+.+...+.   .-.+++..-|++.+.|..-.+..+-.
T Consensus       154 SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~---~l~~~v~~~L~~~~~~d~r~l~~~l~  211 (235)
T PRK08084        154 SRLDWGQIYKLQPLSDEEKLQALQLRARLRGF---ELPEDVGRFLLKRLDREMRTLFMTLD  211 (235)
T ss_pred             HHHhCCceeeecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHhhcCCHHHHHHHHH
Confidence             11 1146899999999999998876643322   22356778888888876665544433

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.69  E-value=6.6e-07  Score=90.92  Aligned_cols=157  Identities=15%  Similarity=0.241  Sum_probs=97.5

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccE-EEEEcCCCCcHHHHHHHHHcCcccccCC-------------------CccEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTK-IGVWGMGGFGKTAIMRHINNRPQEETNE-------------------FSDVI  165 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~v-i~I~G~gGiGKTtLa~~v~~~~~~~~~~-------------------F~~~~  165 (359)
                      -..++|.+.  .+..|.+++..+++.- +.++|+.|+||||+|+.+++.+.- ...                   |.-++
T Consensus        15 FddIIGQe~--Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnc-e~~~~~~pCg~C~sC~~i~~g~~~Dvi   91 (944)
T PRK14949         15 FEQMVGQSH--VLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNC-EQGVTATPCGVCSSCVEIAQGRFVDLI   91 (944)
T ss_pred             HHHhcCcHH--HHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccC-ccCCCCCCCCCchHHHHHhcCCCceEE
Confidence            457899966  8888888888877654 589999999999999999988411 111                   10111


Q ss_pred             EEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHH-HhcCCcEEEEEecC-----------------CCC--eE
Q 038454          166 WVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGK-LKAKKKFVLILDDI-----------------DNH--TF  225 (359)
Q Consensus       166 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~~k~~LlVlDdv-----------------~~g--~i  225 (359)
                      +++......+.. ++.|.                 ..+... ..+ ++-++|||++                 .++  ++
T Consensus        92 EidAas~~kVDd-IReLi-----------------e~v~~~P~~g-k~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrF  152 (944)
T PRK14949         92 EVDAASRTKVDD-TRELL-----------------DNVQYRPSRG-RFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKF  152 (944)
T ss_pred             EeccccccCHHH-HHHHH-----------------HHHHhhhhcC-CcEEEEEechHhcCHHHHHHHHHHHhccCCCeEE
Confidence            121111111111 11121                 111111 123 6779999999                 233  55


Q ss_pred             EEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          226 CWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       226 lvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                      |++|.         ...|..|.+.+|+.++....+.+.+-..+.   ....+.+..|++.++|.|--+..+
T Consensus       153 ILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI---~~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        153 LLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQL---PFEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             EEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            55554         234678999999999999998886533221   223567788999999988644444

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=98.68  E-value=7.9e-07  Score=76.39  Aligned_cols=174  Identities=17%  Similarity=0.155  Sum_probs=82.2

Q ss_pred             cccccccchHHHHHHHHHHh---c--CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDL---M--GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l---~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      -..|+|.+.  .+..+.-++   .  ++...-+.+||++|+||||||.-+++.   ....|.   +++...-....++ .
T Consensus        23 L~efiGQ~~--l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e---~~~~~~---~~sg~~i~k~~dl-~   93 (233)
T PF05496_consen   23 LDEFIGQEH--LKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANE---LGVNFK---ITSGPAIEKAGDL-A   93 (233)
T ss_dssp             CCCS-S-HH--HHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHH---CT--EE---EEECCC--SCHHH-H
T ss_pred             HHHccCcHH--HHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhc---cCCCeE---eccchhhhhHHHH-H
Confidence            468999976  444433322   2  345778999999999999999999998   333442   3332111111111 1


Q ss_pred             HHHHHhcCCC----CC-CccHHHHHHHHHHHHhcCCcEEEEEecC---------CCC--eEEEeec--------cccee-
Q 038454          181 EIAMALKLSL----TE-DEDKVSRARRLLGKLKAKKKFVLILDDI---------DNH--TFCWGLR--------SMGCE-  235 (359)
Q Consensus       181 ~i~~~l~~~~----~~-~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------~~g--~ilvTtr--------~~~~~-  235 (359)
                      .++..+....    ++ ..-.....+.+...+.+ ..+-+|+.--         -+.  -|=.|||        ..... 
T Consensus        94 ~il~~l~~~~ILFIDEIHRlnk~~qe~LlpamEd-~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi  172 (233)
T PF05496_consen   94 AILTNLKEGDILFIDEIHRLNKAQQEILLPAMED-GKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGI  172 (233)
T ss_dssp             HHHHT--TT-EEEECTCCC--HHHHHHHHHHHHC-SEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSE
T ss_pred             HHHHhcCCCcEEEEechhhccHHHHHHHHHHhcc-CeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcce
Confidence            2222221100    00 00011112222222222 2222222211         111  2234666        11111 


Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhc
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMR  292 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~  292 (359)
                      ..+++..+.+|-.++..+.+..-+.   +-..+.+.+|++.|.|-|--..-+-..++
T Consensus       173 ~~~l~~Y~~~el~~Iv~r~a~~l~i---~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  173 VLRLEFYSEEELAKIVKRSARILNI---EIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             EEE----THHHHHHHHHHCCHCTT----EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             ecchhcCCHHHHHHHHHHHHHHhCC---CcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            3579999999999999887643322   23467889999999999987766655554

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.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.67  E-value=1.1e-06  Score=87.89  Aligned_cols=157  Identities=15%  Similarity=0.233  Sum_probs=97.5

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCC-------------------CccEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNE-------------------FSDVI  165 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-------------------F~~~~  165 (359)
                      -..++|.+.  .++.|.+++..+++ ..+.++|..|+||||+|+.+.+.+. -...                   |..++
T Consensus        15 FdEVIGQe~--Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLn-Ce~~~~~~PCG~C~sCr~I~~G~h~Dvi   91 (830)
T PRK07003         15 FASLVGQEH--VVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALN-CETGVTSQPCGVCRACREIDEGRFVDYV   91 (830)
T ss_pred             HHHHcCcHH--HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CccCCCCCCCcccHHHHHHhcCCCceEE
Confidence            467899866  88889999987764 4668999999999999999988731 1111                   11122


Q ss_pred             EEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEE
Q 038454          166 WVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFC  226 (359)
Q Consensus       166 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~il  226 (359)
                      +++.+....+.++ +.+++                 ........++.-++|||++                  ... ++|
T Consensus        92 EIDAas~rgVDdI-ReLIe-----------------~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FI  153 (830)
T PRK07003         92 EMDAASNRGVDEM-AALLE-----------------RAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFI  153 (830)
T ss_pred             EecccccccHHHH-HHHHH-----------------HHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEE
Confidence            2222111111111 11111                 1110111125568889999                  235 777


Q ss_pred             Eeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch-hHHHH
Q 038454          227 WGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ-LAIFT  286 (359)
Q Consensus       227 vTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P-lai~~  286 (359)
                      ++|+         ...|..+.+.+++.++..+.+.+.+...+.   .-..+....|++.++|.. -++..
T Consensus       154 LaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI---~id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        154 LATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERI---AFEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             EEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            7776         345678999999999999999887644322   123567788999998865 45544

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=1.7e-06  Score=81.57  Aligned_cols=153  Identities=17%  Similarity=0.270  Sum_probs=94.0

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCC-------------------CccEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNE-------------------FSDVI  165 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-------------------F~~~~  165 (359)
                      -..++|.+.  .++.+...+..++. ..+.++|+.|+||||+|+.+++.+. -...                   +....
T Consensus        15 ~~~iiGq~~--~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~-c~~~~~~~pc~~c~~c~~~~~~~~~d~~   91 (363)
T PRK14961         15 FRDIIGQKH--IVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN-CQNGITSNPCRKCIICKEIEKGLCLDLI   91 (363)
T ss_pred             hhhccChHH--HHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc-CCCCCCCCCCCCCHHHHHHhcCCCCceE
Confidence            457899866  78888888877654 5679999999999999999998731 0000                   11111


Q ss_pred             EEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh----cCCcEEEEEecC-----------------C-CC
Q 038454          166 WVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK----AKKKFVLILDDI-----------------D-NH  223 (359)
Q Consensus       166 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv-----------------~-~g  223 (359)
                      ++..+.....                      +..+.+.+.+.    .+++-++|+|++                 . +.
T Consensus        92 ~~~~~~~~~v----------------------~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~  149 (363)
T PRK14961         92 EIDAASRTKV----------------------EEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQH  149 (363)
T ss_pred             EecccccCCH----------------------HHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCC
Confidence            2211111111                      11222222221    125568899998                 2 33


Q ss_pred             -eEEEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          224 -TFCWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       224 -~ilvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                       .+|++|.         ...+..+++.+++.++..+.+...+...+.   .-..+.+..|++.++|.|-.+..
T Consensus       150 ~~fIl~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~---~i~~~al~~ia~~s~G~~R~al~  219 (363)
T PRK14961        150 IKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESI---DTDEYALKLIAYHAHGSMRDALN  219 (363)
T ss_pred             eEEEEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Confidence             5666555         223467999999999999988876543321   12346678899999998864433

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

Probab=98.66  E-value=3.8e-06  Score=75.47  Aligned_cols=182  Identities=18%  Similarity=0.180  Sum_probs=119.4

Q ss_pred             cccccccch-HHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHcCcccccCC---CccEEEEEeCCCcCHHHH
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMG---DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNE---FSDVIWVTVSQPLDLVKL  178 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~---F~~~~wv~~~~~~~~~~~  178 (359)
                      .+..+|-.. .+.++.|.+.+..   ...+.+.|+|.+|.|||++++++........+.   --.++.|.....++...+
T Consensus        33 ~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~  112 (302)
T PF05621_consen   33 ADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRF  112 (302)
T ss_pred             cCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHH
Confidence            456777655 4455566555544   356789999999999999999999763221111   013777888889999999


Q ss_pred             HHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC----eEEEeec---
Q 038454          179 QAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH----TFCWGLR---  230 (359)
Q Consensus       179 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g----~ilvTtr---  230 (359)
                      ...|+.+++.+.....+...........++.-+-=+||+|++                     ++-    -|.+.|+   
T Consensus       113 Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~  192 (302)
T PF05621_consen  113 YSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAY  192 (302)
T ss_pred             HHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHH
Confidence            999999999987666666666666666666545668999999                     121    3455665   


Q ss_pred             ---------ccceeeeecCCCChHH-HHHHHHHhh--cCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          231 ---------SMGCEEVRVPPLSKEE-ALNLFLDKV--GRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       231 ---------~~~~~~~~l~~L~~~e-a~~lf~~~~--~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                               .....++.++....++ ...|+....  ..-.....-...+.+..|...++|+.=-+..+
T Consensus       193 ~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  193 RALRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             HHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence                     1122456777766554 344433322  11122233445788999999999987555433

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

>PLN03025 replication factor C subunit; Provisional

Probab=98.64  E-value=1.3e-06  Score=81.01  Aligned_cols=158  Identities=16%  Similarity=0.204  Sum_probs=97.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .+..|..++.+++.+-+.++|++|+||||+|..+++.+  ....|. .++-++.+...+.. ..+.++.
T Consensus        12 l~~~~g~~~--~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l--~~~~~~~~~~eln~sd~~~~~-~vr~~i~   86 (319)
T PLN03025         12 LDDIVGNED--AVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL--LGPNYKEAVLELNASDDRGID-VVRNKIK   86 (319)
T ss_pred             HHHhcCcHH--HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH--hcccCccceeeecccccccHH-HHHHHHH
Confidence            457888865  77788888887777778899999999999999999873  122232 12222223222222 2222222


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------ccceee
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGCEE  236 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~~  236 (359)
                      .+.....              .+..++.-+++||++                  .+. ++++++.         ...+..
T Consensus        87 ~~~~~~~--------------~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~  152 (319)
T PLN03025         87 MFAQKKV--------------TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAI  152 (319)
T ss_pred             HHHhccc--------------cCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhc
Confidence            2111000              000125678999999                  233 6666664         223457


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHH
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIF  285 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~  285 (359)
                      +++.+++.++....+...+-..+...   ..+....|++.++|-.-.+.
T Consensus       153 i~f~~l~~~~l~~~L~~i~~~egi~i---~~~~l~~i~~~~~gDlR~al  198 (319)
T PLN03025        153 VRFSRLSDQEILGRLMKVVEAEKVPY---VPEGLEAIIFTADGDMRQAL  198 (319)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHH
Confidence            89999999999999888764433212   24567889999998764443

>PTZ00202 tuzin; Provisional

Probab=98.63  E-value=6e-07  Score=84.09  Aligned_cols=143  Identities=14%  Similarity=0.108  Sum_probs=92.0

Q ss_pred             CCcccCCcccccccchHHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH
Q 038454           99 SSGLILPTTTLVGENTKKIVKKVWEDLMG---DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL  175 (359)
Q Consensus        99 ~~~~~~~~~~~vGr~~~~~~~~l~~~l~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  175 (359)
                      ..+.|.+...|+||+.  ++..|...|.+   +.++++.|+|++|+|||||++.+.... .    + ..++++..   +.
T Consensus       254 ~~~lPa~~~~FVGRea--Ela~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l-~----~-~qL~vNpr---g~  322 (550)
T PTZ00202        254 LQSAPAVIRQFVSREA--EESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE-G----M-PAVFVDVR---GT  322 (550)
T ss_pred             ccCCCCCccCCCCcHH--HHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC-C----c-eEEEECCC---CH
Confidence            3445666789999977  77777777743   245699999999999999999999872 1    2 13344433   67


Q ss_pred             HHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh----c-CCcEEEEEe-----cC------------CCC--eEEEeec-
Q 038454          176 VKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK----A-KKKFVLILD-----DI------------DNH--TFCWGLR-  230 (359)
Q Consensus       176 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~-~k~~LlVlD-----dv------------~~g--~ilvTtr-  230 (359)
                      .+++..|+.+||.+..  ....++...+.+.+.    . +++.+||+-     ++            +..  .|++.-- 
T Consensus       323 eElLr~LL~ALGV~p~--~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~v~la~drr~ch~v~evpl  400 (550)
T PTZ00202        323 EDTLRSVVKALGVPNV--EACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEVVALACDRRLCHVVIEVPL  400 (550)
T ss_pred             HHHHHHHHHHcCCCCc--ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHHHHHHccchhheeeeeehH
Confidence            9999999999997432  333445555554442    2 366666653     22            111  3332221 


Q ss_pred             ---------ccceeeeecCCCChHHHHHHHHHh
Q 038454          231 ---------SMGCEEVRVPPLSKEEALNLFLDK  254 (359)
Q Consensus       231 ---------~~~~~~~~l~~L~~~ea~~lf~~~  254 (359)
                               ...-.-|-+++++.++|...-.+.
T Consensus       401 eslt~~~~~lprldf~~vp~fsr~qaf~y~~h~  433 (550)
T PTZ00202        401 ESLTIANTLLPRLDFYLVPNFSRSQAFAYTQHA  433 (550)
T ss_pred             hhcchhcccCccceeEecCCCCHHHHHHHHhhc
Confidence                     111245788999999998775543

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

Probab=98.62  E-value=8.2e-08  Score=81.46  Aligned_cols=45  Identities=22%  Similarity=0.384  Sum_probs=31.1

Q ss_pred             cccccchHHHHHHHHHHh---cCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          108 TLVGENTKKIVKKVWEDL---MGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l---~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .|+||+.  +++++...+   .....+.+.|+|.+|+|||+|+++++..+
T Consensus         1 ~fvgR~~--e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    1 QFVGREE--EIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             --TT-HH--HHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHH--HHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4899966  999999988   34467899999999999999999999883

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.62  E-value=1.8e-06  Score=85.36  Aligned_cols=167  Identities=16%  Similarity=0.259  Sum_probs=97.1

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .+..|..++..++. ..+.++|+.|+||||+|+.+++.+. -.....      . ..++.-...+.+..
T Consensus        14 FddVIGQe~--vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~Ln-C~~~~~------~-~pCg~C~sC~~I~~   83 (702)
T PRK14960         14 FNELVGQNH--VSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLN-CETGVT------S-TPCEVCATCKAVNE   83 (702)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC-CCcCCC------C-CCCccCHHHHHHhc
Confidence            467899866  88889998887764 5779999999999999999988731 000000      0 00000001111110


Q ss_pred             HhcC-----CCCCCccHHHHHHHHHHHH----hcCCcEEEEEecC------------------CCC-eEEEeec------
Q 038454          185 ALKL-----SLTEDEDKVSRARRLLGKL----KAKKKFVLILDDI------------------DNH-TFCWGLR------  230 (359)
Q Consensus       185 ~l~~-----~~~~~~~~~~~~~~l~~~l----~~~k~~LlVlDdv------------------~~g-~ilvTtr------  230 (359)
                      .-..     ........++ ++.+....    ..++.-++|+|++                  ..+ .+|++|.      
T Consensus        84 g~hpDviEIDAAs~~~Vdd-IReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp  162 (702)
T PRK14960         84 GRFIDLIEIDAASRTKVED-TRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLP  162 (702)
T ss_pred             CCCCceEEecccccCCHHH-HHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhh
Confidence            0000     0000011111 11222111    1126678999999                  234 6777665      


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                         ...|..+.+.+++.++..+.+.+.+-..+.   .-..+....|++.++|.+-.+..
T Consensus       163 ~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI---~id~eAL~~IA~~S~GdLRdALn  218 (702)
T PRK14960        163 ITVISRCLQFTLRPLAVDEITKHLGAILEKEQI---AADQDAIWQIAESAQGSLRDALS  218 (702)
T ss_pred             HHHHHhhheeeccCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Confidence               234567999999999999998887644322   22346678899999997755443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.61  E-value=1.7e-06  Score=80.84  Aligned_cols=176  Identities=15%  Similarity=0.147  Sum_probs=104.7

Q ss_pred             ccCCcccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCccccc-CCCccEEEEEeCCCcCHHHHH
Q 038454          102 LILPTTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEET-NEFSDVIWVTVSQPLDLVKLQ  179 (359)
Q Consensus       102 ~~~~~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~~~~~~~~~~~  179 (359)
                      .|.....++|.+.  ....+...+..+.. ..+.++|+.|+||||+|..+++.+.-.. ..+...   ........-...
T Consensus        18 ~P~~~~~l~Gh~~--a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c   92 (351)
T PRK09112         18 SPSENTRLFGHEE--AEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVW   92 (351)
T ss_pred             CCCchhhccCcHH--HHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHH
Confidence            3444678999966  88888888887764 4699999999999999999988741100 001111   001111111122


Q ss_pred             HHHHHHhc-------CCC-C------CCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC
Q 038454          180 AEIAMALK-------LSL-T------EDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH  223 (359)
Q Consensus       180 ~~i~~~l~-------~~~-~------~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g  223 (359)
                      +.+...-.       .+. .      ..... +.++.+.+++..    +++-++|+|++                  ...
T Consensus        93 ~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~v-d~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~  171 (351)
T PRK09112         93 RQIAQGAHPNLLHITRPFDEKTGKFKTAITV-DEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPAR  171 (351)
T ss_pred             HHHHcCCCCCEEEeecccccccccccccCCH-HHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCC
Confidence            33322211       000 0      01112 233455555442    36678999999                  222


Q ss_pred             --eEEEeec--------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          224 --TFCWGLR--------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       224 --~ilvTtr--------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                        -|++|++        ...|..+.+.+++.++..+++.......    . ...+.+..+++.++|.|.....+.
T Consensus       172 ~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~----~-~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        172 ALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQ----G-SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             ceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhccc----C-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence              3455544        3356789999999999999998742111    1 224557889999999998765544

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.61  E-value=2.8e-06  Score=78.62  Aligned_cols=152  Identities=15%  Similarity=0.218  Sum_probs=96.4

Q ss_pred             ccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCc---ccccCCCccEEEEEe-CCCcCHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRP---QEETNEFSDVIWVTV-SQPLDLVKLQAE  181 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~---~~~~~~F~~~~wv~~-~~~~~~~~~~~~  181 (359)
                      ..++|.+.  .++.+..++..+.. ....++|+.|+||||+|+.+++.+   .....|+|...|... +......+ .++
T Consensus         4 ~~i~g~~~--~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~   80 (313)
T PRK05564          4 HTIIGHEN--IKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRN   80 (313)
T ss_pred             hhccCcHH--HHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHH
Confidence            45778754  78889888877654 577899999999999999999853   112345565555442 23333333 233


Q ss_pred             HHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------ccc
Q 038454          182 IAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMG  233 (359)
Q Consensus       182 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~  233 (359)
                      +...+....                ..+ ++-++|+|++                  .++ .+|++|.         ...
T Consensus        81 ~~~~~~~~p----------------~~~-~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SR  143 (313)
T PRK05564         81 IIEEVNKKP----------------YEG-DKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSR  143 (313)
T ss_pred             HHHHHhcCc----------------ccC-CceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhh
Confidence            334332211                112 4556666665                  345 5665655         234


Q ss_pred             eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHH
Q 038454          234 CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIF  285 (359)
Q Consensus       234 ~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~  285 (359)
                      |..+.+.+++.++....+......       ...+.+..++..++|.|.-+.
T Consensus       144 c~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        144 CQIYKLNRLSKEEIEKFISYKYND-------IKEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             ceeeeCCCcCHHHHHHHHHHHhcC-------CCHHHHHHHHHHcCCCHHHHH
Confidence            678999999999998887665311       113456788999999886554

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.60  E-value=2.4e-06  Score=79.17  Aligned_cols=157  Identities=13%  Similarity=0.190  Sum_probs=95.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe--CCCcCHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV--SQPLDLVKLQAEIA  183 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~--~~~~~~~~~~~~i~  183 (359)
                      -..++|++.  .++.+..++..+..+.+.++|.+|+||||+|+.+++.+  ....+.. .++.+  +....... ....+
T Consensus        16 ~~~~~g~~~--~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l--~~~~~~~-~~i~~~~~~~~~~~~-~~~~i   89 (319)
T PRK00440         16 LDEIVGQEE--IVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALAREL--YGEDWRE-NFLELNASDERGIDV-IRNKI   89 (319)
T ss_pred             HHHhcCcHH--HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH--cCCcccc-ceEEeccccccchHH-HHHHH
Confidence            356889966  88899999988777778999999999999999999873  1222221 12222  22222111 11111


Q ss_pred             HHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------cccee
Q 038454          184 MALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGCE  235 (359)
Q Consensus       184 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~  235 (359)
                      ..+....+               .....+-++++|++                  .+. .+|+++.         ...+.
T Consensus        90 ~~~~~~~~---------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~  154 (319)
T PRK00440         90 KEFARTAP---------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCA  154 (319)
T ss_pred             HHHHhcCC---------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhh
Confidence            11111000               00013457777777                  223 5666554         11234


Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                      .+++.+++.++....+...+...+..   -..+.+..+++.++|.+--+..
T Consensus       155 ~~~~~~l~~~ei~~~l~~~~~~~~~~---i~~~al~~l~~~~~gd~r~~~~  202 (319)
T PRK00440        155 VFRFSPLKKEAVAERLRYIAENEGIE---ITDDALEAIYYVSEGDMRKAIN  202 (319)
T ss_pred             eeeeCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            68999999999999888876443321   2256778899999998866443

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=98.60  E-value=2.6e-06  Score=74.49  Aligned_cols=157  Identities=19%  Similarity=0.246  Sum_probs=90.3

Q ss_pred             ccccchHHHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh
Q 038454          109 LVGENTKKIVKKVWEDLMGD--KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       109 ~vGr~~~~~~~~l~~~l~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  186 (359)
                      ++|...+...........+.  ....+.|+|..|+|||.|.+++++.+.+..... .++|++      ..++...+...+
T Consensus        11 v~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~-~v~y~~------~~~f~~~~~~~~   83 (219)
T PF00308_consen   11 VVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGK-RVVYLS------AEEFIREFADAL   83 (219)
T ss_dssp             --TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS--EEEEE------HHHHHHHHHHHH
T ss_pred             CcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccc-cceeec------HHHHHHHHHHHH
Confidence            35654433333333333332  345689999999999999999999842222222 355654      445555665555


Q ss_pred             cCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeec--------------
Q 038454          187 KLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLR--------------  230 (359)
Q Consensus       187 ~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr--------------  230 (359)
                      ...     .    ...+.+.+.  .-=+|++||+                     ..| ++|+|+.              
T Consensus        84 ~~~-----~----~~~~~~~~~--~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~  152 (219)
T PF00308_consen   84 RDG-----E----IEEFKDRLR--SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLR  152 (219)
T ss_dssp             HTT-----S----HHHHHHHHC--TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHH
T ss_pred             Hcc-----c----chhhhhhhh--cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhh
Confidence            431     1    223444444  3558889999                     467 9999997              


Q ss_pred             -c-cceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          231 -S-MGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       231 -~-~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                       + ...-.+++.+++.++-.+++.+.+...+..   -.++++.-|++.+.+..-.+..
T Consensus       153 SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~---l~~~v~~~l~~~~~~~~r~L~~  207 (219)
T PF00308_consen  153 SRLSWGLVVELQPPDDEDRRRILQKKAKERGIE---LPEEVIEYLARRFRRDVRELEG  207 (219)
T ss_dssp             HHHHCSEEEEE----HHHHHHHHHHHHHHTT-----S-HHHHHHHHHHTTSSHHHHHH
T ss_pred             hhHhhcchhhcCCCCHHHHHHHHHHHHHHhCCC---CcHHHHHHHHHhhcCCHHHHHH
Confidence             1 122358999999999999999887544332   2246666677777655544443

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.60  E-value=1.1e-06  Score=86.55  Aligned_cols=173  Identities=17%  Similarity=0.243  Sum_probs=96.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..+||.+.  .+..|.+++..+++. .+.++|..|+||||+|+.+++.+.  ...-+..--+. +..+..-.....|..
T Consensus        15 FddVIGQe~--vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLn--C~~p~~~~g~~-~~PCG~C~sC~~I~a   89 (700)
T PRK12323         15 FTTLVGQEH--VVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLN--CTGADGEGGIT-AQPCGQCRACTEIDA   89 (700)
T ss_pred             HHHHcCcHH--HHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc--CCCccccccCC-CCCCcccHHHHHHHc
Confidence            467899966  888899999887654 578999999999999999988731  10000000000 000000011111110


Q ss_pred             H-----hcCCCCCCccHHHHHHHHHHHH----hcCCcEEEEEecC------------------CCC-eEEEeec------
Q 038454          185 A-----LKLSLTEDEDKVSRARRLLGKL----KAKKKFVLILDDI------------------DNH-TFCWGLR------  230 (359)
Q Consensus       185 ~-----l~~~~~~~~~~~~~~~~l~~~l----~~~k~~LlVlDdv------------------~~g-~ilvTtr------  230 (359)
                      .     +..+.......++ ++.+.+.+    ..++.-++|+|++                  ..+ .+|++|.      
T Consensus        90 G~hpDviEIdAas~~gVDd-IReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLl  168 (700)
T PRK12323         90 GRFVDYIEMDAASNRGVDE-MAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIP  168 (700)
T ss_pred             CCCCcceEecccccCCHHH-HHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhh
Confidence            0     0000000111111 11222221    1136678999999                  233 5554444      


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                         ...|..+.+.+++.++..+.+.+.+...+.   ....+..+.|++.++|.|.-...+
T Consensus       169 pTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi---~~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        169 VTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGI---AHEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             hHHHHHHHhcccCCCChHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence               345678999999999999998877643322   122455688999999999655444

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.59  E-value=4.1e-06  Score=78.66  Aligned_cols=173  Identities=13%  Similarity=0.095  Sum_probs=100.6

Q ss_pred             cCCcccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccCC-CccE---E-EEEeCCCcCHH
Q 038454          103 ILPTTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETNE-FSDV---I-WVTVSQPLDLV  176 (359)
Q Consensus       103 ~~~~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-F~~~---~-wv~~~~~~~~~  176 (359)
                      |.....++|.+.  .+..|.+.+.+++.+ .+.++|+.|+||+|+|..+++.+  .... ....   . -.+.. ....-
T Consensus        15 P~~~~~iiGq~~--~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~L--lc~~~~~~~~~~~~~~~l~-~~~~c   89 (365)
T PRK07471         15 PRETTALFGHAA--AEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFL--LATPPPGGDGAVPPPTSLA-IDPDH   89 (365)
T ss_pred             CCchhhccChHH--HHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHH--hCCCCCCCCcccccccccc-CCCCC
Confidence            333567999865  888888888887654 69999999999999999988873  1111 0000   0 00000 00000


Q ss_pred             HHHHHHHHHhcCC-------C-C------CCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------
Q 038454          177 KLQAEIAMALKLS-------L-T------EDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------  220 (359)
Q Consensus       177 ~~~~~i~~~l~~~-------~-~------~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------  220 (359)
                      ...+.+...-..+       . .      .... .+.++.+.+.+.-    +++.++|+|++                  
T Consensus        90 ~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~-VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEep  168 (365)
T PRK07471         90 PVARRIAAGAHGGLLTLERSWNEKGKRLRTVIT-VDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEP  168 (365)
T ss_pred             hHHHHHHccCCCCeEEEeccccccccccccccc-HHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcC
Confidence            1111111111000       0 0      0011 2234445544432    36779999999                  


Q ss_pred             CCC-eEEEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          221 DNH-TFCWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       221 ~~g-~ilvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      .++ .+|++|.         ...|..+.+.+++.++..+++.......       .......++..++|.|+....+.
T Consensus       169 p~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~-------~~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        169 PARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL-------PDDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             CCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC-------CHHHHHHHHHHcCCCHHHHHHHh
Confidence            234 5666665         3456789999999999999998763111       11223678999999998665543

>PRK04195 replication factor C large subunit; Provisional

Probab=98.59  E-value=1.9e-06  Score=84.42  Aligned_cols=159  Identities=14%  Similarity=0.224  Sum_probs=99.7

Q ss_pred             cccccccchHHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG----DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAE  181 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  181 (359)
                      -..++|.+.  .+..+..|+..    ...+.+.|+|++|+||||+|+.+++.+     .|+ .+-++.+...+.. .+..
T Consensus        13 l~dlvg~~~--~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el-----~~~-~ielnasd~r~~~-~i~~   83 (482)
T PRK04195         13 LSDVVGNEK--AKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY-----GWE-VIELNASDQRTAD-VIER   83 (482)
T ss_pred             HHHhcCCHH--HHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCC-EEEEcccccccHH-HHHH
Confidence            457899866  77777777753    226889999999999999999999983     233 3334444432222 2222


Q ss_pred             HHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC--------------------CCC-eEEEeec----------
Q 038454          182 IAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI--------------------DNH-TFCWGLR----------  230 (359)
Q Consensus       182 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--------------------~~g-~ilvTtr----------  230 (359)
                      ++........              .... ++-+||||++                    ..+ .+|+++.          
T Consensus        84 ~i~~~~~~~s--------------l~~~-~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~~~~iIli~n~~~~~~~k~L  148 (482)
T PRK04195         84 VAGEAATSGS--------------LFGA-RRKLILLDEVDGIHGNEDRGGARAILELIKKAKQPIILTANDPYDPSLREL  148 (482)
T ss_pred             HHHHhhccCc--------------ccCC-CCeEEEEecCcccccccchhHHHHHHHHHHcCCCCEEEeccCccccchhhH
Confidence            2222211100              0012 6778999988                    123 5666664          


Q ss_pred             ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhh
Q 038454          231 SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCM  291 (359)
Q Consensus       231 ~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L  291 (359)
                      ...+..+.+.+++..+....+...+...+...   ..+....|++.++|-.-.+......+
T Consensus       149 rsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i---~~eaL~~Ia~~s~GDlR~ain~Lq~~  206 (482)
T PRK04195        149 RNACLMIEFKRLSTRSIVPVLKRICRKEGIEC---DDEALKEIAERSGGDLRSAINDLQAI  206 (482)
T ss_pred             hccceEEEecCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            12345689999999999998888764433322   24677889999988776655443333

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.59  E-value=1.4e-07  Score=87.65  Aligned_cols=89  Identities=17%  Similarity=0.153  Sum_probs=60.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc--CHHHHHHHHHHHhcCCCCCCccHHH------HHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL--DLVKLQAEIAMALKLSLTEDEDKVS------RAR  201 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~------~~~  201 (359)
                      -...+|+|++|+||||||+.+|+.+  ..++|++++||.+.+..  .+.++++.+...+-....+......      ...
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I--~~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie  246 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSI--TTNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIE  246 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHH--HhhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHH
Confidence            3568999999999999999999984  23489999999998877  7788888886432222221111111      111


Q ss_pred             HHHHHHhcCCcEEEEEecC
Q 038454          202 RLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       202 ~l~~~l~~~k~~LlVlDdv  220 (359)
                      ........++++||++|++
T Consensus       247 ~Ae~~~e~G~dVlL~iDsI  265 (416)
T PRK09376        247 KAKRLVEHGKDVVILLDSI  265 (416)
T ss_pred             HHHHHHHcCCCEEEEEECh
Confidence            1222222359999999999

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=3e-07  Score=89.80  Aligned_cols=170  Identities=17%  Similarity=0.123  Sum_probs=97.1

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .+..|..++..+... .+.++|++|+||||+|+.+++.+ ...+.+...+|.|.+.. .+......-+.
T Consensus        13 ~~dvvGq~~--v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l-~c~~~~~~~cg~C~sc~-~i~~~~h~dv~   88 (504)
T PRK14963         13 FDEVVGQEH--VKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAV-NCSGEDPKPCGECESCL-AVRRGAHPDVL   88 (504)
T ss_pred             HHHhcChHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH-hccCCCCCCCCcChhhH-HHhcCCCCceE
Confidence            357899865  788888888777654 56999999999999999998873 11122222233221110 00000000000


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eEEEeec---------cc
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TFCWGLR---------SM  232 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~ilvTtr---------~~  232 (359)
                      .++..  .... .+.++.+.+.+..    .++-++|+|++                  .+. .+|++|.         ..
T Consensus        89 el~~~--~~~~-vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~S  165 (504)
T PRK14963         89 EIDAA--SNNS-VEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILS  165 (504)
T ss_pred             Eeccc--ccCC-HHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhc
Confidence            00000  0111 1112222222211    25668889998                  233 4444443         23


Q ss_pred             ceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHH
Q 038454          233 GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIF  285 (359)
Q Consensus       233 ~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~  285 (359)
                      .+..+.+.+++.++..+.+.+.+-..+..   -..+.+..|++.++|.+--+.
T Consensus       166 Rc~~~~f~~ls~~el~~~L~~i~~~egi~---i~~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        166 RTQHFRFRRLTEEEIAGKLRRLLEAEGRE---AEPEALQLVARLADGAMRDAE  215 (504)
T ss_pred             ceEEEEecCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHH
Confidence            35679999999999999998876443321   135677889999999886553

>PRK09087 hypothetical protein; Validated

Probab=98.57  E-value=2.6e-06  Score=74.78  Aligned_cols=118  Identities=14%  Similarity=0.155  Sum_probs=75.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA  209 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  209 (359)
                      .+.+.|+|.+|+|||+|++.+++. .  .     ..|++..      .+...+...+                     . 
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~-~--~-----~~~i~~~------~~~~~~~~~~---------------------~-   87 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREK-S--D-----ALLIHPN------EIGSDAANAA---------------------A-   87 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh-c--C-----CEEecHH------HcchHHHHhh---------------------h-
Confidence            467999999999999999998876 1  1     1243321      1111111111                     0 


Q ss_pred             CCcEEEEEecC------------------CCC-eEEEeec----------------ccceeeeecCCCChHHHHHHHHHh
Q 038454          210 KKKFVLILDDI------------------DNH-TFCWGLR----------------SMGCEEVRVPPLSKEEALNLFLDK  254 (359)
Q Consensus       210 ~k~~LlVlDdv------------------~~g-~ilvTtr----------------~~~~~~~~l~~L~~~ea~~lf~~~  254 (359)
                        .-+|++||+                  ..| .+++|++                -..+..+++.+++.++-.+++.+.
T Consensus        88 --~~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~  165 (226)
T PRK09087         88 --EGPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKL  165 (226)
T ss_pred             --cCeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHH
Confidence              125555666                  346 7777776                112246899999999999999988


Q ss_pred             hcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          255 VGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       255 ~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      +-..+.   .-.+++..-|++.+.|..-++..+-
T Consensus       166 ~~~~~~---~l~~ev~~~La~~~~r~~~~l~~~l  196 (226)
T PRK09087        166 FADRQL---YVDPHVVYYLVSRMERSLFAAQTIV  196 (226)
T ss_pred             HHHcCC---CCCHHHHHHHHHHhhhhHHHHHHHH
Confidence            744322   1235777889998888877776433

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=1.3e-06  Score=83.76  Aligned_cols=171  Identities=12%  Similarity=0.102  Sum_probs=97.3

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .+..|..++..+.+. .+.++|+.|+||||+|+.+++.+  ........  ..+....+...+......
T Consensus        17 f~dvVGQe~--iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~L--nce~~~~~--~pCg~C~sC~~i~~g~~~   90 (484)
T PRK14956         17 FRDVIHQDL--AIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRL--NCENPIGN--EPCNECTSCLEITKGISS   90 (484)
T ss_pred             HHHHhChHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhc--CcccccCc--cccCCCcHHHHHHccCCc
Confidence            457899866  788888888888754 68999999999999999999873  11111000  000111111111111000


Q ss_pred             Hh---cCCCC-CCccHHHHHHHHHHHHhcCCcEEEEEecC-----------------CCC--eEEEee-c--------cc
Q 038454          185 AL---KLSLT-EDEDKVSRARRLLGKLKAKKKFVLILDDI-----------------DNH--TFCWGL-R--------SM  232 (359)
Q Consensus       185 ~l---~~~~~-~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------------~~g--~ilvTt-r--------~~  232 (359)
                      .+   ..... ...+..+....+...-..++.-++|+|++                 .++  .+|++| .        ..
T Consensus        91 dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~S  170 (484)
T PRK14956         91 DVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILS  170 (484)
T ss_pred             cceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHh
Confidence            00   00000 01111122222221111236679999999                 334  444444 3        34


Q ss_pred             ceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHH
Q 038454          233 GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIF  285 (359)
Q Consensus       233 ~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~  285 (359)
                      .|..|.+.+++.++..+.+.+.+...+.   .-..+....|++.++|.+--+.
T Consensus       171 RCq~~~f~~ls~~~i~~~L~~i~~~Egi---~~e~eAL~~Ia~~S~Gd~RdAL  220 (484)
T PRK14956        171 RCQDFIFKKVPLSVLQDYSEKLCKIENV---QYDQEGLFWIAKKGDGSVRDML  220 (484)
T ss_pred             hhheeeecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCChHHHHH
Confidence            5677999999999999888887643322   2235677889999999885443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.56  E-value=2.9e-06  Score=80.33  Aligned_cols=150  Identities=15%  Similarity=0.161  Sum_probs=89.9

Q ss_pred             ccccccchHHHHHHHHHHhcCCC----------ccEEEEEcCCCCcHHHHHHHHHcCccccc-----------------C
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDK----------VTKIGVWGMGGFGKTAIMRHINNRPQEET-----------------N  159 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~----------~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-----------------~  159 (359)
                      ..++|.+.  .++.|...+..+.          ...+.++|++|+|||++|..+++.+.-..                 +
T Consensus         5 ~~IiGq~~--~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~   82 (394)
T PRK07940          5 DDLVGQEA--VVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAG   82 (394)
T ss_pred             hhccChHH--HHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcC
Confidence            45788755  7778888887653          46789999999999999999987521000                 0


Q ss_pred             CCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc----CCcEEEEEecC---------------
Q 038454          160 EFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA----KKKFVLILDDI---------------  220 (359)
Q Consensus       160 ~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv---------------  220 (359)
                      .++-+.++.....                    ....+ .++.+.+....    +++-++++|++               
T Consensus        83 ~hpD~~~i~~~~~--------------------~i~i~-~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~L  141 (394)
T PRK07940         83 THPDVRVVAPEGL--------------------SIGVD-EVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAV  141 (394)
T ss_pred             CCCCEEEeccccc--------------------cCCHH-HHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHh
Confidence            0111112211100                    01111 12222222211    25558888999               


Q ss_pred             ---CCC-eEEEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          221 ---DNH-TFCWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       221 ---~~g-~ilvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                         .++ .+|++|.         ...|..+.+.+++.++..+.+.....     .   ..+.+..++..++|.|.....+
T Consensus       142 Eep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~-----~---~~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        142 EEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG-----V---DPETARRAARASQGHIGRARRL  213 (394)
T ss_pred             hcCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC-----C---CHHHHHHHHHHcCCCHHHHHHH
Confidence               234 4555444         33467899999999999988875321     1   1355778999999999755433

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

Probab=98.56  E-value=1.5e-06  Score=88.13  Aligned_cols=152  Identities=21%  Similarity=0.300  Sum_probs=90.3

Q ss_pred             cccccccchHHHH---HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHH
Q 038454          106 TTTLVGENTKKIV---KKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       106 ~~~~vGr~~~~~~---~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  182 (359)
                      -+.++|.+.  .+   ..+...+..+....+.++|++|+||||||+.+++.   ....|.   .++... ....      
T Consensus        27 ldd~vGQe~--ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~---~~~~f~---~lna~~-~~i~------   91 (725)
T PRK13341         27 LEEFVGQDH--ILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANH---TRAHFS---SLNAVL-AGVK------   91 (725)
T ss_pred             HHHhcCcHH--HhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHH---hcCcce---eehhhh-hhhH------
Confidence            356899865  44   35666677777888899999999999999999987   333441   111110 0010      


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhc-CCcEEEEEecC---------------CCC-eEEEe--ecc----------cc
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLKA-KKKFVLILDDI---------------DNH-TFCWG--LRS----------MG  233 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv---------------~~g-~ilvT--tr~----------~~  233 (359)
                                  +.........+.+.. +++.+|+||++               ..| .++++  |..          ..
T Consensus        92 ------------dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE~g~IiLI~aTTenp~~~l~~aL~SR  159 (725)
T PRK13341         92 ------------DLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVENGTITLIGATTENPYFEVNKALVSR  159 (725)
T ss_pred             ------------HHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhcCceEEEEEecCCChHhhhhhHhhcc
Confidence                        111112222222211 26789999999               345 34442  221          12


Q ss_pred             eeeeecCCCChHHHHHHHHHhhcCC----CCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          234 CEEVRVPPLSKEEALNLFLDKVGRN----ILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       234 ~~~~~l~~L~~~ea~~lf~~~~~~~----~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                      +..+.+++|+.++...++.+.+-..    +.....-..+....|++.+.|..-.+
T Consensus       160 ~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~l  214 (725)
T PRK13341        160 SRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSL  214 (725)
T ss_pred             ccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHH
Confidence            4568999999999999988765310    01011223556678888888865433

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.53  E-value=4.6e-06  Score=80.67  Aligned_cols=182  Identities=14%  Similarity=0.212  Sum_probs=111.7

Q ss_pred             ccccchHHHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh
Q 038454          109 LVGENTKKIVKKVWEDLMGD--KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       109 ~vGr~~~~~~~~l~~~l~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  186 (359)
                      ++|............+..+.  ....+.|+|..|+|||+|++++++.+...... ..+++++      ..++...+...+
T Consensus       118 v~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~-~~v~yv~------~~~f~~~~~~~l  190 (450)
T PRK14087        118 VIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSD-LKVSYMS------GDEFARKAVDIL  190 (450)
T ss_pred             cCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCC-CeEEEEE------HHHHHHHHHHHH
Confidence            44654332344444443332  23568999999999999999999863111112 2344543      345666666665


Q ss_pred             cCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeec--------------
Q 038454          187 KLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLR--------------  230 (359)
Q Consensus       187 ~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr--------------  230 (359)
                      +...       .....+.+.+.  ..-+||+||+                     ..| .||+|+.              
T Consensus       191 ~~~~-------~~~~~~~~~~~--~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~  261 (450)
T PRK14087        191 QKTH-------KEIEQFKNEIC--QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLI  261 (450)
T ss_pred             HHhh-------hHHHHHHHHhc--cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHH
Confidence            4310       12333444444  3458899999                     456 7888876              


Q ss_pred             -ccc-eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhh------c---CCCChhH
Q 038454          231 -SMG-CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCM------R---GVDEIHE  299 (359)
Q Consensus       231 -~~~-~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L------~---~~~~~~~  299 (359)
                       +.. .-.+.+.+++.++-.+++.+.+-..+. ...-.+++..-|+..++|.|-.+.-+...+      .   ..-+.+.
T Consensus       262 SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl-~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~  340 (450)
T PRK14087        262 TRFNMGLSIAIQKLDNKTATAIIKKEIKNQNI-KQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEI  340 (450)
T ss_pred             HHHhCCceeccCCcCHHHHHHHHHHHHHhcCC-CCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHH
Confidence             111 134689999999999999988743321 112346788999999999998876655333      2   1244555


Q ss_pred             HHHHHHHH
Q 038454          300 WRNALNEL  307 (359)
Q Consensus       300 w~~~l~~~  307 (359)
                      -+.++..+
T Consensus       341 v~~~l~~~  348 (450)
T PRK14087        341 VSDLFRDI  348 (450)
T ss_pred             HHHHHhhc
Confidence            56666554

>PF13173 AAA_14: AAA domain

Probab=98.52  E-value=6.9e-07  Score=71.27  Aligned_cols=95  Identities=20%  Similarity=0.257  Sum_probs=61.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA  209 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  209 (359)
                      -+++.|.|+.|+|||||++++++++   . ....++|++..+.......                ..+ ....+.+....
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~---~-~~~~~~yi~~~~~~~~~~~----------------~~~-~~~~~~~~~~~   60 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL---L-PPENILYINFDDPRDRRLA----------------DPD-LLEYFLELIKP   60 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh---c-ccccceeeccCCHHHHHHh----------------hhh-hHHHHHHhhcc
Confidence            3689999999999999999999883   1 3345777776553221100                000 12223333333


Q ss_pred             CCcEEEEEecC----------------CCC-eEEEeec------c------c-ceeeeecCCCChHH
Q 038454          210 KKKFVLILDDI----------------DNH-TFCWGLR------S------M-GCEEVRVPPLSKEE  246 (359)
Q Consensus       210 ~k~~LlVlDdv----------------~~g-~ilvTtr------~------~-~~~~~~l~~L~~~e  246 (359)
                       ++.+++||++                .+. +|++|+.      .      . ....+++.||+..|
T Consensus        61 -~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   61 -GKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             -CCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence             6788999999                334 9999987      0      1 12358999999776

>PF14516 AAA_35: AAA-like domain

Probab=98.51  E-value=1.6e-05  Score=74.03  Aligned_cols=178  Identities=15%  Similarity=0.213  Sum_probs=112.7

Q ss_pred             CCcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-----cCHHHH
Q 038454          104 LPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-----LDLVKL  178 (359)
Q Consensus       104 ~~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-----~~~~~~  178 (359)
                      ..++..|+|..  .-+++.+.+.+. -..+.|.|+-.+|||+|..++.+.. . +..+. ++++++..-     .+...+
T Consensus         8 ~~~~~Yi~R~~--~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l-~-~~~~~-~v~id~~~~~~~~~~~~~~f   81 (331)
T PF14516_consen    8 LDSPFYIERPP--AEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERL-Q-QQGYR-CVYIDLQQLGSAIFSDLEQF   81 (331)
T ss_pred             CCCCcccCchH--HHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHH-H-HCCCE-EEEEEeecCCCcccCCHHHH
Confidence            33556778874  455666666653 2689999999999999999998883 2 23443 557776541     356666


Q ss_pred             HHHHHHHh----cCCCC-------CCccHHHHHHHHHHHH-hc-CCcEEEEEecC-------------------------
Q 038454          179 QAEIAMAL----KLSLT-------EDEDKVSRARRLLGKL-KA-KKKFVLILDDI-------------------------  220 (359)
Q Consensus       179 ~~~i~~~l----~~~~~-------~~~~~~~~~~~l~~~l-~~-~k~~LlVlDdv-------------------------  220 (359)
                      ++.++..+    +....       ...+.......+.+.+ .. +++.+|+||++                         
T Consensus        82 ~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~  161 (331)
T PF14516_consen   82 LRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRK  161 (331)
T ss_pred             HHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcc
Confidence            66555544    33211       0112222233333433 22 58999999999                         


Q ss_pred             ----CCC-eEEEe-ec-----------ccce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh
Q 038454          221 ----DNH-TFCWG-LR-----------SMGC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL  282 (359)
Q Consensus       221 ----~~g-~ilvT-tr-----------~~~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  282 (359)
                          ... ++++. +.           ..+. .++.|++++.+|...|+...-..    .   .....+.|...+||+|.
T Consensus       162 ~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~----~---~~~~~~~l~~~tgGhP~  234 (331)
T PF14516_consen  162 NNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE----F---SQEQLEQLMDWTGGHPY  234 (331)
T ss_pred             cCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc----C---CHHHHHHHHHHHCCCHH
Confidence                111 22222 11           1111 36899999999999998876321    1   12348999999999999


Q ss_pred             HHHHHHHhhcCC
Q 038454          283 AIFTVVGCMRGV  294 (359)
Q Consensus       283 ai~~~~~~L~~~  294 (359)
                      -+..++..+..+
T Consensus       235 Lv~~~~~~l~~~  246 (331)
T PF14516_consen  235 LVQKACYLLVEE  246 (331)
T ss_pred             HHHHHHHHHHHc
Confidence            999999999663

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.51  E-value=6.9e-06  Score=80.66  Aligned_cols=158  Identities=15%  Similarity=0.180  Sum_probs=94.9

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCccccc------------------CCCccEEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEET------------------NEFSDVIW  166 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~F~~~~w  166 (359)
                      -..++|.+.  .+..|...+..++. ..+.++|+.|+||||+|+.+++.+.-..                  +.|...++
T Consensus        15 f~diiGq~~--~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlie   92 (546)
T PRK14957         15 FAEVAGQQH--ALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIE   92 (546)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEE
Confidence            357889866  88888888887655 4588999999999999999988631000                  01222223


Q ss_pred             EEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHH-HhcCCcEEEEEecC-----------------CC-C-eEE
Q 038454          167 VTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGK-LKAKKKFVLILDDI-----------------DN-H-TFC  226 (359)
Q Consensus       167 v~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~~k~~LlVlDdv-----------------~~-g-~il  226 (359)
                      +.......+.+                  .......+... ..+ ++-++|+|++                 .+ . .+|
T Consensus        93 idaas~~gvd~------------------ir~ii~~~~~~p~~g-~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fI  153 (546)
T PRK14957         93 IDAASRTGVEE------------------TKEILDNIQYMPSQG-RYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFI  153 (546)
T ss_pred             eecccccCHHH------------------HHHHHHHHHhhhhcC-CcEEEEEechhhccHHHHHHHHHHHhcCCCCceEE
Confidence            32222112211                  11122222111 123 6679999998                 22 3 444


Q ss_pred             -Eeec--------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh-HHHHH
Q 038454          227 -WGLR--------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL-AIFTV  287 (359)
Q Consensus       227 -vTtr--------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-ai~~~  287 (359)
                       +||.        ...|..+++.+++.++....+.+.+-..+.   .........|++.++|.+- |+..+
T Consensus       154 L~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi---~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        154 LATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENI---NSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             EEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence             4554        234678999999999988888875533221   2234566788999999664 44333

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.50  E-value=6.5e-06  Score=79.70  Aligned_cols=158  Identities=18%  Similarity=0.272  Sum_probs=98.3

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccc------------------cCCCccEEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEE------------------TNEFSDVIW  166 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~------------------~~~F~~~~w  166 (359)
                      -..++|.+.  .+..|...+..+.+. .+.++|+.|+||||+|+.+++.+.-.                  .+.+..++.
T Consensus        12 f~dliGQe~--vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~e   89 (491)
T PRK14964         12 FKDLVGQDV--LVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIE   89 (491)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEE
Confidence            467899865  777888888777665 79999999999999999998742000                  011112334


Q ss_pred             EEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEE
Q 038454          167 VTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCW  227 (359)
Q Consensus       167 v~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilv  227 (359)
                      ++.+...++.++ +.++......                -..+ +.-++|+|++                  .+. .+|+
T Consensus        90 idaas~~~vddI-R~Iie~~~~~----------------P~~~-~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIl  151 (491)
T PRK14964         90 IDAASNTSVDDI-KVILENSCYL----------------PISS-KFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFIL  151 (491)
T ss_pred             EecccCCCHHHH-HHHHHHHHhc----------------cccC-CceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEE
Confidence            444333333322 2222221110                0112 5668899998                  234 5555


Q ss_pred             eec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          228 GLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       228 Ttr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                      +|.         ...|..+.+.+++.++..+.+.+.+...+.   .-..+....|++.++|.+-.+..
T Consensus       152 atte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi---~i~~eAL~lIa~~s~GslR~als  216 (491)
T PRK14964        152 ATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENI---EHDEESLKLIAENSSGSMRNALF  216 (491)
T ss_pred             EeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Confidence            554         334567899999999999998887654332   12346677899999998764433

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.50  E-value=4.1e-06  Score=83.35  Aligned_cols=172  Identities=13%  Similarity=0.228  Sum_probs=96.0

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCccccc-CCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEET-NEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      -..++|.+.  .+..|.+++..++. ..+.++|..|+||||+|+.+++.+.-.. ....+...    ..++.-...+.|.
T Consensus        15 f~dviGQe~--vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C~~i~   88 (618)
T PRK14951         15 FSEMVGQEH--VVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQACRDID   88 (618)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHHHHHH
Confidence            457899755  88889888888765 5679999999999999999977631000 00000000    0001111111111


Q ss_pred             HHhc-----CCCCCCccHHHHHHHHHHHHh----cCCcEEEEEecC-----------------C-CC-eEEEeec-----
Q 038454          184 MALK-----LSLTEDEDKVSRARRLLGKLK----AKKKFVLILDDI-----------------D-NH-TFCWGLR-----  230 (359)
Q Consensus       184 ~~l~-----~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv-----------------~-~g-~ilvTtr-----  230 (359)
                      ..-.     .+.......++ ++.+.+...    .++.-++|||++                 . .. .+|++|.     
T Consensus        89 ~g~h~D~~eldaas~~~Vd~-iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~ki  167 (618)
T PRK14951         89 SGRFVDYTELDAASNRGVDE-VQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKV  167 (618)
T ss_pred             cCCCCceeecCcccccCHHH-HHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhh
Confidence            0000     00000011111 222222211    125568899999                 2 33 5555543     


Q ss_pred             ----ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          231 ----SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       231 ----~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                          ...|..+.+.+++.++..+.+.+.+...+.   .-..+....|++.++|.+--+..+
T Consensus       168 l~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi---~ie~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        168 PVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENV---PAEPQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence                334678999999999999998887644332   122466788899999977555443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.50  E-value=5.5e-06  Score=82.66  Aligned_cols=168  Identities=14%  Similarity=0.203  Sum_probs=96.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..+||.+.  .+..|...+..+++. .+.++|..|+||||+|+.+++.+.- ...+.       ...+..-..++.|..
T Consensus        15 f~divGQe~--vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c-~~~~~-------~~pCg~C~~C~~i~~   84 (647)
T PRK07994         15 FAEVVGQEH--VLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNC-ETGIT-------ATPCGECDNCREIEQ   84 (647)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhh-ccCCC-------CCCCCCCHHHHHHHc
Confidence            467899866  888888888877654 4689999999999999999887311 01000       000000011111111


Q ss_pred             Hhc-----CCCCCCccHHHHHHHHHHHHh----cCCcEEEEEecC-----------------CC-C-eEEEeec------
Q 038454          185 ALK-----LSLTEDEDKVSRARRLLGKLK----AKKKFVLILDDI-----------------DN-H-TFCWGLR------  230 (359)
Q Consensus       185 ~l~-----~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv-----------------~~-g-~ilvTtr------  230 (359)
                      .-.     .+.......+ .++.+.+.+.    .+++-++|+|++                 .+ . ++|++|.      
T Consensus        85 g~~~D~ieidaas~~~Vd-diR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl  163 (647)
T PRK07994         85 GRFVDLIEIDAASRTKVE-DTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (647)
T ss_pred             CCCCCceeecccccCCHH-HHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccc
Confidence            000     0000001111 1222222211    126779999999                 22 3 5555554      


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                         ...|..|.+.+|+.++..+.+.+.+-..+.   .........|++.++|.+--+..+
T Consensus       164 ~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i---~~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        164 VTILSRCLQFHLKALDVEQIRQQLEHILQAEQI---PFEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             hHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence               234678999999999999998876532221   123456678999999988644443

>TIGR00767 rho transcription termination factor Rho

Probab=98.48  E-value=4e-07  Score=84.96  Aligned_cols=89  Identities=16%  Similarity=0.134  Sum_probs=61.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC--cCHHHHHHHHHHHhcCCCCCCccHH------HHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP--LDLVKLQAEIAMALKLSLTEDEDKV------SRAR  201 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~------~~~~  201 (359)
                      -..++|+|++|+|||||++.+++.+  ..++|+..+||.+.+.  .++.++++.++..+-....+.....      ....
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I--~~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e  245 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAI--TRNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIE  245 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhh--cccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHH
Confidence            4679999999999999999999984  3347999999998865  7899999998654433222111111      1112


Q ss_pred             HHHHHHhcCCcEEEEEecC
Q 038454          202 RLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       202 ~l~~~l~~~k~~LlVlDdv  220 (359)
                      ........+++++|++|++
T Consensus       246 ~Ae~~~~~GkdVVLlIDEi  264 (415)
T TIGR00767       246 KAKRLVEHKKDVVILLDSI  264 (415)
T ss_pred             HHHHHHHcCCCeEEEEECh
Confidence            2222323359999999999

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

>PRK05642 DNA replication initiation factor; Validated

Probab=98.48  E-value=7.9e-06  Score=72.22  Aligned_cols=128  Identities=19%  Similarity=0.319  Sum_probs=80.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA  209 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  209 (359)
                      ...+.|+|.+|+|||.|++.+++.+   ...-..++|++..+      +...                  ...+.+.+..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~---~~~~~~v~y~~~~~------~~~~------------------~~~~~~~~~~   97 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF---EQRGEPAVYLPLAE------LLDR------------------GPELLDNLEQ   97 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH---HhCCCcEEEeeHHH------HHhh------------------hHHHHHhhhh
Confidence            3678999999999999999998873   11123466776432      1110                  0122333332


Q ss_pred             CCcEEEEEecC---------------------CCC-eEEEeec---------------cc-ceeeeecCCCChHHHHHHH
Q 038454          210 KKKFVLILDDI---------------------DNH-TFCWGLR---------------SM-GCEEVRVPPLSKEEALNLF  251 (359)
Q Consensus       210 ~k~~LlVlDdv---------------------~~g-~ilvTtr---------------~~-~~~~~~l~~L~~~ea~~lf  251 (359)
                       -. +||+||+                     .+| .+|+|++               +. .+..+++.+++.++-.+.+
T Consensus        98 -~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il  175 (234)
T PRK05642         98 -YE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRAL  175 (234)
T ss_pred             -CC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHH
Confidence             22 5777888                     456 8888887               01 1235789999999999998


Q ss_pred             HHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHH
Q 038454          252 LDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVG  289 (359)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~  289 (359)
                      ..++...+...   .+++..-|++.+.|..-.+..+-.
T Consensus       176 ~~ka~~~~~~l---~~ev~~~L~~~~~~d~r~l~~~l~  210 (234)
T PRK05642        176 QLRASRRGLHL---TDEVGHFILTRGTRSMSALFDLLE  210 (234)
T ss_pred             HHHHHHcCCCC---CHHHHHHHHHhcCCCHHHHHHHHH
Confidence            86654332212   256777788888776655544433

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.47  E-value=1.1e-05  Score=78.16  Aligned_cols=162  Identities=18%  Similarity=0.271  Sum_probs=95.2

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccC-C-----------------CccEEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETN-E-----------------FSDVIW  166 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-~-----------------F~~~~w  166 (359)
                      -..++|.+.  ....|...+.++.+ ..+.++|++|+||||+|+.+++.+..... .                 +..+..
T Consensus        13 ~~divGq~~--i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~e   90 (472)
T PRK14962         13 FSEVVGQDH--VKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIE   90 (472)
T ss_pred             HHHccCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEE
Confidence            457999865  77777777877766 45899999999999999999887311000 0                 001222


Q ss_pred             EEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-----------------CCC--eEEE
Q 038454          167 VTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-----------------DNH--TFCW  227 (359)
Q Consensus       167 v~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------------~~g--~ilv  227 (359)
                      ++.+...+...+ +.+......                ....+ ++-++|+|++                 .++  .+++
T Consensus        91 l~aa~~~gid~i-R~i~~~~~~----------------~p~~~-~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Il  152 (472)
T PRK14962         91 LDAASNRGIDEI-RKIRDAVGY----------------RPMEG-KYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVL  152 (472)
T ss_pred             EeCcccCCHHHH-HHHHHHHhh----------------ChhcC-CeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEE
Confidence            222211112111 111111110                00112 5678999998                 234  3333


Q ss_pred             e-ec--------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCC-chhHHHHHHHh
Q 038454          228 G-LR--------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAG-LQLAIFTVVGC  290 (359)
Q Consensus       228 T-tr--------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plai~~~~~~  290 (359)
                      + +.        ...+..+.+.+++.++....+...+...+.   .-..+....|++.++| ++.++..+-.+
T Consensus       153 attn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi---~i~~eal~~Ia~~s~GdlR~aln~Le~l  222 (472)
T PRK14962        153 ATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI---EIDREALSFIAKRASGGLRDALTMLEQV  222 (472)
T ss_pred             EeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            4 32        234567899999999999988887643322   1224567778887754 56776666554

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=5.4e-06  Score=81.21  Aligned_cols=157  Identities=14%  Similarity=0.206  Sum_probs=95.2

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccC-------------------CCccEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETN-------------------EFSDVI  165 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~-------------------~F~~~~  165 (359)
                      -..+||.+.  .+..|..++..+.++ .+.++|+.|+||||+|+.+++.+. -..                   .|.-++
T Consensus        15 f~divGq~~--v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~-c~~~~~~~pCg~C~~C~~i~~g~~~d~~   91 (509)
T PRK14958         15 FQEVIGQAP--VVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLN-CEKGVSANPCNDCENCREIDEGRFPDLF   91 (509)
T ss_pred             HHHhcCCHH--HHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhc-CCCCCCcccCCCCHHHHHHhcCCCceEE
Confidence            457899966  888999999877655 578999999999999999988731 111                   111123


Q ss_pred             EEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEE
Q 038454          166 WVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFC  226 (359)
Q Consensus       166 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~il  226 (359)
                      .++......+.++ +.++..+....                ..+ +.-++|+|++                  .+. .+|
T Consensus        92 eidaas~~~v~~i-R~l~~~~~~~p----------------~~~-~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fI  153 (509)
T PRK14958         92 EVDAASRTKVEDT-RELLDNIPYAP----------------TKG-RFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFI  153 (509)
T ss_pred             EEcccccCCHHHH-HHHHHHHhhcc----------------ccC-CcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEE
Confidence            3332222222222 22222221110                112 5668889999                  234 555


Q ss_pred             Eeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          227 WGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       227 vTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                      ++|.         ...|..+.+.+++.++....+.+.+-..+.   .-..+....|++.++|.+.-+..
T Consensus       154 lattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi---~~~~~al~~ia~~s~GslR~al~  219 (509)
T PRK14958        154 LATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENV---EFENAALDLLARAANGSVRDALS  219 (509)
T ss_pred             EEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCcHHHHHH
Confidence            5443         223556899999999988877766533322   11245567788899998755443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.46  E-value=5.5e-06  Score=82.56  Aligned_cols=158  Identities=15%  Similarity=0.223  Sum_probs=96.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCC-------------------CccEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNE-------------------FSDVI  165 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~-------------------F~~~~  165 (359)
                      -..++|.+.  .+..|..++..+++ ..+.++|+.|+||||+|+.+++.+. -...                   |..++
T Consensus        15 FddIIGQe~--vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln-C~~~~~~~pCg~C~sCr~i~~g~~~Dvl   91 (709)
T PRK08691         15 FADLVGQEH--VVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN-CENAQHGEPCGVCQSCTQIDAGRYVDLL   91 (709)
T ss_pred             HHHHcCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc-ccCCCCCCCCcccHHHHHHhccCccceE
Confidence            467999966  88889998887765 4689999999999999999988631 1110                   10111


Q ss_pred             EEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHH-HhcCCcEEEEEecC------------------CCC-eE
Q 038454          166 WVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGK-LKAKKKFVLILDDI------------------DNH-TF  225 (359)
Q Consensus       166 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~~k~~LlVlDdv------------------~~g-~i  225 (359)
                      .++......+.                  +..+.+...... ..+ ++-++|+|++                  ... ++
T Consensus        92 EidaAs~~gVd------------------~IRelle~a~~~P~~g-k~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~f  152 (709)
T PRK08691         92 EIDAASNTGID------------------NIREVLENAQYAPTAG-KYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKF  152 (709)
T ss_pred             EEeccccCCHH------------------HHHHHHHHHHhhhhhC-CcEEEEEECccccCHHHHHHHHHHHHhCCCCcEE
Confidence            12111111111                  111111111100 123 6678899998                  233 66


Q ss_pred             EEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          226 CWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       226 lvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      |++|.         ...|..+.+.+++.++....+.+.+-..+.   .-..+....|++.++|.+.-+..+.
T Consensus       153 ILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi---~id~eAL~~Ia~~A~GslRdAlnLL  221 (709)
T PRK08691        153 ILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKI---AYEPPALQLLGRAAAGSMRDALSLL  221 (709)
T ss_pred             EEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCC---CcCHHHHHHHHHHhCCCHHHHHHHH
Confidence            66665         223456889999999999998887644332   1234677889999999886554443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.46  E-value=3.8e-06  Score=87.23  Aligned_cols=158  Identities=14%  Similarity=0.181  Sum_probs=93.3

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccc--cCC-CccEEE-EEeCCCcCHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEE--TNE-FSDVIW-VTVSQPLDLVKLQAEI  182 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~-F~~~~w-v~~~~~~~~~~~~~~i  182 (359)
                      .+++||+.  ++..++..|......-+.++|.+|+||||+|..+++++...  ... ....+| +.++.           
T Consensus       187 d~~iGr~~--ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~-----------  253 (852)
T TIGR03345       187 DPVLGRDD--EIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL-----------  253 (852)
T ss_pred             CcccCCHH--HHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh-----------
Confidence            57999976  89999999988777778899999999999999999884111  001 122232 22221           


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHh-cCCcEEEEEecC-----------------------CCC--eEEEeec------
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLK-AKKKFVLILDDI-----------------------DNH--TFCWGLR------  230 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv-----------------------~~g--~ilvTtr------  230 (359)
                         +..........+..+..+.+.+. .+++.+|++|++                       ..|  ++|-+|.      
T Consensus       254 ---l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G~l~~IgaTT~~e~~~  330 (852)
T TIGR03345       254 ---LQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARGELRTIAATTWAEYKK  330 (852)
T ss_pred             ---hhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCCCeEEEEecCHHHHhh
Confidence               00000011122233333333332 236889999988                       345  5555555      


Q ss_pred             --------ccceeeeecCCCChHHHHHHHHHhhcCCC-CCCCCchHHHHHHHHHHcCCc
Q 038454          231 --------SMGCEEVRVPPLSKEEALNLFLDKVGRNI-LHVPTLNEEIINSVVEECAGL  280 (359)
Q Consensus       231 --------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~-~~~~~~~~~~~~~i~~~c~g~  280 (359)
                              ....+.+.+++++.++..+++....-.-. ...-.-..+....+++.+.+.
T Consensus       331 ~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ry  389 (852)
T TIGR03345       331 YFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRY  389 (852)
T ss_pred             hhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccc
Confidence                    11235799999999999999755432111 111112245556666666543

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.46  E-value=7.1e-06  Score=72.22  Aligned_cols=148  Identities=14%  Similarity=0.209  Sum_probs=85.7

Q ss_pred             cccc-ccchHHHHHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          107 TTLV-GENTKKIVKKVWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       107 ~~~v-Gr~~~~~~~~l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      ++|+ |.. ...+..+..+... .....+.|+|.+|+|||+||+.+++.. . .... ...+++......      .+  
T Consensus        18 d~f~~~~~-~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~-~-~~~~-~~~~i~~~~~~~------~~--   85 (227)
T PRK08903         18 DNFVAGEN-AELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADA-S-YGGR-NARYLDAASPLL------AF--   85 (227)
T ss_pred             cccccCCc-HHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHH-H-hCCC-cEEEEehHHhHH------HH--
Confidence            3445 433 3344555555442 345689999999999999999999872 1 2222 244555433110      00  


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-------------------CCC-e-EEEeec-------------
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-------------------DNH-T-FCWGLR-------------  230 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-------------------~~g-~-ilvTtr-------------  230 (359)
                                          ... . ..-+||+||+                   ..+ . +++|++             
T Consensus        86 --------------------~~~-~-~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~  143 (227)
T PRK08903         86 --------------------DFD-P-EAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLR  143 (227)
T ss_pred             --------------------hhc-c-cCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHH
Confidence                                001 1 2335666777                   233 2 555554             


Q ss_pred             -c-cceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhh
Q 038454          231 -S-MGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCM  291 (359)
Q Consensus       231 -~-~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L  291 (359)
                       . ..+..+.+++++.++-..++.+.+-..+.   .-..+....+++.+.|.+..+..+...|
T Consensus       144 sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v---~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        144 TRLGWGLVYELKPLSDADKIAALKAAAAERGL---QLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHhcCeEEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence             0 11256899999998877776664422222   1234677788888999988887666554

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.45  E-value=1.6e-05  Score=77.65  Aligned_cols=167  Identities=19%  Similarity=0.224  Sum_probs=92.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCcc-EEEEEeCCCcCHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSD-VIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i~  183 (359)
                      -..++|.+.  .+..|...+..++. ..+.++|+.|+||||+|+.+++.+. -...... -.+..+...    .....+.
T Consensus        20 f~dliGq~~--vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Ln-c~~~~~~~~~~~~C~~C----~~C~~i~   92 (507)
T PRK06645         20 FAELQGQEV--LVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVN-CSALITENTTIKTCEQC----TNCISFN   92 (507)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc-CccccccCcCcCCCCCC----hHHHHHh
Confidence            457889865  77777777766654 6899999999999999999988731 1000000 000000000    0000110


Q ss_pred             HHhcC-----CCCCCccHHHHHHHHHHH-----HhcCCcEEEEEecC------------------CCC-eEEE-eec---
Q 038454          184 MALKL-----SLTEDEDKVSRARRLLGK-----LKAKKKFVLILDDI------------------DNH-TFCW-GLR---  230 (359)
Q Consensus       184 ~~l~~-----~~~~~~~~~~~~~~l~~~-----l~~~k~~LlVlDdv------------------~~g-~ilv-Ttr---  230 (359)
                      .....     +.......++. +.+.+.     +.+ ++-++|+|++                  .+. .+|+ ||+   
T Consensus        93 ~~~h~Dv~eidaas~~~vd~I-r~iie~a~~~P~~~-~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~k  170 (507)
T PRK06645         93 NHNHPDIIEIDAASKTSVDDI-RRIIESAEYKPLQG-KHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQK  170 (507)
T ss_pred             cCCCCcEEEeeccCCCCHHHH-HHHHHHHHhccccC-CcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHH
Confidence            00000     00000111111 111111     123 6778999998                  233 4444 444   


Q ss_pred             -----ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          231 -----SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       231 -----~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                           ...+..+++.+++.++..+.+...+...+.   .-..+....|++.++|.+--+
T Consensus       171 I~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi---~ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        171 IPATIISRCQRYDLRRLSFEEIFKLLEYITKQENL---KTDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             hhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence                 234567899999999999999888754332   122456677999999987544

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.44  E-value=1.1e-05  Score=68.90  Aligned_cols=137  Identities=18%  Similarity=0.228  Sum_probs=80.6

Q ss_pred             HHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCccccc--C----------------CCccEEEEEeCC-CcCHHHHH
Q 038454          120 KVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEET--N----------------EFSDVIWVTVSQ-PLDLVKLQ  179 (359)
Q Consensus       120 ~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~----------------~F~~~~wv~~~~-~~~~~~~~  179 (359)
                      .|.+.+..+.. ..+.++|+.|+||||+|+.+.+.+....  +                .+....++.... .... +..
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~-~~i   81 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKV-DQV   81 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCH-HHH
Confidence            34555556655 6799999999999999999988731110  0                111112222111 1111 111


Q ss_pred             HHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------c
Q 038454          180 AEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------S  231 (359)
Q Consensus       180 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~  231 (359)
                      +.+...+....                ..+ .+-++|+||+                  .+. .++++|+         .
T Consensus        82 ~~i~~~~~~~~----------------~~~-~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~  144 (188)
T TIGR00678        82 RELVEFLSRTP----------------QES-GRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIR  144 (188)
T ss_pred             HHHHHHHccCc----------------ccC-CeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHH
Confidence            12222221110                112 5667888888                  233 5555554         2


Q ss_pred             cceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH
Q 038454          232 MGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA  283 (359)
Q Consensus       232 ~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  283 (359)
                      ..+..+.+.+++.++..+.+.+.  +    .   ..+.+..|++.++|.|..
T Consensus       145 sr~~~~~~~~~~~~~~~~~l~~~--g----i---~~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       145 SRCQVLPFPPLSEEALLQWLIRQ--G----I---SEEAAELLLALAGGSPGA  187 (188)
T ss_pred             hhcEEeeCCCCCHHHHHHHHHHc--C----C---CHHHHHHHHHHcCCCccc
Confidence            23467999999999999888876  1    1   146788999999998853

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.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.44  E-value=8.5e-06  Score=80.33  Aligned_cols=168  Identities=14%  Similarity=0.216  Sum_probs=93.7

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|++.  .+..+..++..+.+ +.+.++|+.|+||||+|+.+++.+  ...+     |... ..++.-..++.+..
T Consensus        15 F~dIIGQe~--iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L--~C~~-----~~~~-~~Cg~C~sCr~i~~   84 (605)
T PRK05896         15 FKQIIGQEL--IKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI--NCLN-----PKDG-DCCNSCSVCESINT   84 (605)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh--cCCC-----CCCC-CCCcccHHHHHHHc
Confidence            467899966  88888888877654 578999999999999999998873  1101     1110 00011111111111


Q ss_pred             HhcC-----CCCCCccHHHHHHHHHHHH-----hcCCcEEEEEecC-----------------CC-C-eEEEee-c----
Q 038454          185 ALKL-----SLTEDEDKVSRARRLLGKL-----KAKKKFVLILDDI-----------------DN-H-TFCWGL-R----  230 (359)
Q Consensus       185 ~l~~-----~~~~~~~~~~~~~~l~~~l-----~~~k~~LlVlDdv-----------------~~-g-~ilvTt-r----  230 (359)
                      ....     ........+ .++.+.+..     .+ ++-++|+|++                 .+ . .+|++| .    
T Consensus        85 ~~h~DiieIdaas~igVd-~IReIi~~~~~~P~~~-~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KL  162 (605)
T PRK05896         85 NQSVDIVELDAASNNGVD-EIRNIIDNINYLPTTF-KYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKI  162 (605)
T ss_pred             CCCCceEEeccccccCHH-HHHHHHHHHHhchhhC-CcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhh
Confidence            1000     000001111 112222111     12 3446999998                 23 3 444444 3    


Q ss_pred             ----ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh-HHHHHH
Q 038454          231 ----SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL-AIFTVV  288 (359)
Q Consensus       231 ----~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-ai~~~~  288 (359)
                          ...|..+++.+++.++....+...+...+.   .-..+.+..+++.++|.+- |+..+-
T Consensus       163 l~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi---~Is~eal~~La~lS~GdlR~AlnlLe  222 (605)
T PRK05896        163 PLTIISRCQRYNFKKLNNSELQELLKSIAKKEKI---KIEDNAIDKIADLADGSLRDGLSILD  222 (605)
T ss_pred             hHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCcHHHHHHHHH
Confidence                234567999999999999888886643321   1124567889999999664 444433

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

Probab=98.43  E-value=1.7e-06  Score=69.82  Aligned_cols=57  Identities=21%  Similarity=0.291  Sum_probs=42.3

Q ss_pred             ccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          111 GENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       111 Gr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      |++.  .+..+...+..+..+.+.|+|.+|+|||++++.+++.+.   ..-..++++.....
T Consensus         2 ~~~~--~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~---~~~~~v~~~~~~~~   58 (151)
T cd00009           2 GQEE--AIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF---RPGAPFLYLNASDL   58 (151)
T ss_pred             chHH--HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh---cCCCCeEEEehhhh
Confidence            4544  778888888776678899999999999999999999831   22234666665543

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=98.43  E-value=4e-06  Score=86.19  Aligned_cols=134  Identities=19%  Similarity=0.244  Sum_probs=84.8

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCccccc--CCC-ccEEEEEeCCCcCHHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEET--NEF-SDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~F-~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      ++++||+.  ++..++..|......-+.++|++|+|||++|+.+++++....  ..+ ...+|. +    +...+.    
T Consensus       182 ~~~igr~~--ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l~----  250 (731)
T TIGR02639       182 DPLIGRED--ELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSLL----  250 (731)
T ss_pred             CcccCcHH--HHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHHh----
Confidence            57999976  899999988877777788999999999999999998842111  111 233432 1    111111    


Q ss_pred             HHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------------CCC--eEEEeec-------
Q 038454          184 MALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------------DNH--TFCWGLR-------  230 (359)
Q Consensus       184 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------------~~g--~ilvTtr-------  230 (359)
                      ..    .......+..+..+.+.+...++.+|++|++                        .+|  .+|-+|.       
T Consensus       251 a~----~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g~i~~IgaTt~~e~~~~  326 (731)
T TIGR02639       251 AG----TKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSGKLRCIGSTTYEEYKNH  326 (731)
T ss_pred             hh----ccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCCCeEEEEecCHHHHHHH
Confidence            00    0001233444555555544336789999988                        234  4444443       


Q ss_pred             -------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          231 -------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       231 -------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                             ....+.+.+++++.++..+++....
T Consensus       327 ~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       327 FEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             hhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence                   1123568999999999999998654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.38  E-value=3.9e-06  Score=87.30  Aligned_cols=133  Identities=17%  Similarity=0.252  Sum_probs=85.1

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccC--CC-ccEEEEEeCCCcCHHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETN--EF-SDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~--~F-~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      .+++||+.  ++..++..|......-+.++|++|+|||++|..+++.+....-  .. ...+|. +    +...++.   
T Consensus       179 ~~~igr~~--ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~a---  248 (821)
T CHL00095        179 DPVIGREK--EIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLLA---  248 (821)
T ss_pred             CCCCCcHH--HHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHhc---
Confidence            56899976  9999999998876677889999999999999999988421111  11 234442 1    2211111   


Q ss_pred             HHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-----------------------CCC--eEEEeec--------
Q 038454          184 MALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-----------------------DNH--TFCWGLR--------  230 (359)
Q Consensus       184 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------------------~~g--~ilvTtr--------  230 (359)
                         +...  ....+..+..+.+.+...++.+|++|++                       ..|  ++|.+|.        
T Consensus       249 ---g~~~--~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg~l~~IgaTt~~ey~~~i  323 (821)
T CHL00095        249 ---GTKY--RGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARGELQCIGATTLDEYRKHI  323 (821)
T ss_pred             ---cCCC--ccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCCCcEEEEeCCHHHHHHHH
Confidence               1111  1234445555555554447899999999                       234  5555554        


Q ss_pred             ------ccceeeeecCCCChHHHHHHHHHh
Q 038454          231 ------SMGCEEVRVPPLSKEEALNLFLDK  254 (359)
Q Consensus       231 ------~~~~~~~~l~~L~~~ea~~lf~~~  254 (359)
                            ......+.+...+.++...++...
T Consensus       324 e~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        324 EKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             hcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence                  112356788899999988887653

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.38  E-value=3.1e-05  Score=74.83  Aligned_cols=178  Identities=18%  Similarity=0.193  Sum_probs=107.3

Q ss_pred             ccccchHHHHHHHHHHhcCC-CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHHHh
Q 038454          109 LVGENTKKIVKKVWEDLMGD-KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       109 ~vGr~~~~~~~~l~~~l~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l  186 (359)
                      ++|............+..+. ....+.|+|.+|+|||+|++.+++.+  ...+.. .++|++.      .+++..+...+
T Consensus       108 v~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l--~~~~~~~~v~yi~~------~~f~~~~~~~~  179 (440)
T PRK14088        108 VVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYV--VQNEPDLRVMYITS------EKFLNDLVDSM  179 (440)
T ss_pred             ccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHH--HHhCCCCeEEEEEH------HHHHHHHHHHH
Confidence            44654433334444444433 24569999999999999999999983  222222 3566653      44556665555


Q ss_pred             cCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeec--------------
Q 038454          187 KLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLR--------------  230 (359)
Q Consensus       187 ~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr--------------  230 (359)
                      ...     .    ...+.+.+.. ..-+|++||+                     ..| .+++||.              
T Consensus       180 ~~~-----~----~~~f~~~~~~-~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~  249 (440)
T PRK14088        180 KEG-----K----LNEFREKYRK-KVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLV  249 (440)
T ss_pred             hcc-----c----HHHHHHHHHh-cCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHh
Confidence            321     1    1223333333 4568899999                     346 7888885              


Q ss_pred             -ccc-eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh------h-cCCCChhHHH
Q 038454          231 -SMG-CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC------M-RGVDEIHEWR  301 (359)
Q Consensus       231 -~~~-~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~------L-~~~~~~~~w~  301 (359)
                       +.. .-.+.+++.+.+.-..++.+.+.......   ..++...|++.+.|..-.+.-+-..      + ...-+.....
T Consensus       250 SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~~~~l---~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~  326 (440)
T PRK14088        250 SRFQMGLVAKLEPPDEETRKKIARKMLEIEHGEL---PEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAI  326 (440)
T ss_pred             hHHhcCceEeeCCCCHHHHHHHHHHHHHhcCCCC---CHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence             111 23578999999999999988874332212   2567788888888765444322211      1 2225666666


Q ss_pred             HHHHHH
Q 038454          302 NALNEL  307 (359)
Q Consensus       302 ~~l~~~  307 (359)
                      .++...
T Consensus       327 ~~L~~~  332 (440)
T PRK14088        327 LLLKDF  332 (440)
T ss_pred             HHHHHH
Confidence            677654

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.38  E-value=2.6e-05  Score=74.87  Aligned_cols=177  Identities=18%  Similarity=0.233  Sum_probs=107.0

Q ss_pred             ccccchHHHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHcCcccccCCC-ccEEEEEeCCCcCHHHHHHHHHHH
Q 038454          109 LVGENTKKIVKKVWEDLMGD--KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEF-SDVIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       109 ~vGr~~~~~~~~l~~~l~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      ++|............+....  ....+.|+|.+|+|||+|++++++.+.  .... ..++|++.      .++...+...
T Consensus       113 i~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~--~~~~~~~v~yi~~------~~~~~~~~~~  184 (405)
T TIGR00362       113 VVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEIL--ENNPNAKVVYVSS------EKFTNDFVNA  184 (405)
T ss_pred             ccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHH--HhCCCCcEEEEEH------HHHHHHHHHH
Confidence            45655433344444444332  235689999999999999999999831  1211 23556643      3444455554


Q ss_pred             hcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeec-------------
Q 038454          186 LKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLR-------------  230 (359)
Q Consensus       186 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr-------------  230 (359)
                      +...     .    ...+.+.+..  .-+|+|||+                     ..| .+++|+.             
T Consensus       185 ~~~~-----~----~~~~~~~~~~--~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l  253 (405)
T TIGR00362       185 LRNN-----K----MEEFKEKYRS--VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERL  253 (405)
T ss_pred             HHcC-----C----HHHHHHHHHh--CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhh
Confidence            4321     1    2233344432  348889999                     356 7888886             


Q ss_pred             --ccc-eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh-------hcCCCChhHH
Q 038454          231 --SMG-CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC-------MRGVDEIHEW  300 (359)
Q Consensus       231 --~~~-~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~-------L~~~~~~~~w  300 (359)
                        +.. ...+.+++.+.++-..++.+.+...+...   .+++...|++.+.|.+-.+.-+-..       ....-+.+..
T Consensus       254 ~SRl~~g~~v~i~~pd~~~r~~il~~~~~~~~~~l---~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~  330 (405)
T TIGR00362       254 RSRFEWGLVVDIEPPDLETRLAILQKKAEEEGLEL---PDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELA  330 (405)
T ss_pred             hhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence              111 13589999999999999998875433212   2577888899988877654332211       1222566677


Q ss_pred             HHHHHHH
Q 038454          301 RNALNEL  307 (359)
Q Consensus       301 ~~~l~~~  307 (359)
                      +.++...
T Consensus       331 ~~~L~~~  337 (405)
T TIGR00362       331 KEALKDL  337 (405)
T ss_pred             HHHHHHh
Confidence            7777765

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).

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=2.8e-05  Score=73.60  Aligned_cols=156  Identities=12%  Similarity=0.230  Sum_probs=92.3

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCccc-----ccCCCcc-EEEEEeCCCcCHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQE-----ETNEFSD-VIWVTVSQPLDLVKL  178 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~-----~~~~F~~-~~wv~~~~~~~~~~~  178 (359)
                      -..++|.+.  .++.+..++.++.. +.+.++|++|+||||+|..+++.+..     ....|.. ++-++.....+... 
T Consensus        16 ~~~iig~~~--~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-   92 (367)
T PRK14970         16 FDDVVGQSH--ITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDD-   92 (367)
T ss_pred             HHhcCCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHH-
Confidence            457889866  88889999887654 48999999999999999999887311     0111221 11111111111111 


Q ss_pred             HHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------
Q 038454          179 QAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------  230 (359)
Q Consensus       179 ~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------  230 (359)
                      ...++..+...                ...+ ++-++++|++                  ... .+|++|.         
T Consensus        93 i~~l~~~~~~~----------------p~~~-~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l  155 (367)
T PRK14970         93 IRNLIDQVRIP----------------PQTG-KYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTI  155 (367)
T ss_pred             HHHHHHHHhhc----------------cccC-CcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHH
Confidence            12222222110                0112 4457888887                  123 4444443         


Q ss_pred             ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          231 SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       231 ~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                      ...+..+++.+++.++....+...+...+...   ..+.+..++..++|.+-.+
T Consensus       156 ~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i---~~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        156 LSRCQIFDFKRITIKDIKEHLAGIAVKEGIKF---EDDALHIIAQKADGALRDA  206 (367)
T ss_pred             HhcceeEecCCccHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHhCCCCHHHH
Confidence            22345789999999999998888764433212   2467788888898866543

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.35  E-value=4.1e-05  Score=72.11  Aligned_cols=159  Identities=15%  Similarity=0.233  Sum_probs=95.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccc-cC------------------CCccEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEE-TN------------------EFSDVI  165 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~------------------~F~~~~  165 (359)
                      -..++|.+.  .++.|..++.++.. ..+.++|++|+||||+|+.++..+.-. ..                  +++ ..
T Consensus        13 ~~~iig~~~--~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~-~~   89 (355)
T TIGR02397        13 FEDVIGQEH--IVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLD-VI   89 (355)
T ss_pred             HhhccCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCC-EE
Confidence            457899866  88899888877754 468899999999999999998763100 00                  122 22


Q ss_pred             EEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-----------------CCC--eEE
Q 038454          166 WVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-----------------DNH--TFC  226 (359)
Q Consensus       166 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------------~~g--~il  226 (359)
                      +++......... .+.+...+....                ..+ ++-++|+|++                 .++  .+|
T Consensus        90 ~~~~~~~~~~~~-~~~l~~~~~~~p----------------~~~-~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lI  151 (355)
T TIGR02397        90 EIDAASNNGVDD-IREILDNVKYAP----------------SSG-KYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFI  151 (355)
T ss_pred             EeeccccCCHHH-HHHHHHHHhcCc----------------ccC-CceEEEEeChhhcCHHHHHHHHHHHhCCccceeEE
Confidence            332221111111 122222221100                112 4557788887                 223  444


Q ss_pred             Eeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          227 WGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       227 vTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      ++|.         ...+..+++.+++.++..+.+...+-..+...   ..+.+..+++.++|.|..+....
T Consensus       152 l~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i---~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       152 LATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKI---EDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             EEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHcCCChHHHHHHH
Confidence            5554         12345789999999999998888764333211   24677889999999987665444

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.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.34  E-value=1.2e-05  Score=76.73  Aligned_cols=175  Identities=14%  Similarity=0.231  Sum_probs=94.9

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEE-eCCCcCHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT-VSQPLDLVKLQAEIA  183 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i~  183 (359)
                      -..++|.+.  .++.|..++.+++++ .+.++|+.|+||||+|..+++.+. -........|.. ...+...=...+.+.
T Consensus        15 ~~eiiGq~~--~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~-c~~~~~~~~~~~~~~~~c~~c~~c~~~~   91 (397)
T PRK14955         15 FADITAQEH--ITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVN-CQRMIDDADYLQEVTEPCGECESCRDFD   91 (397)
T ss_pred             HhhccChHH--HHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhc-CCCCcCcccccccCCCCCCCCHHHHHHh
Confidence            467899865  788888888887665 588999999999999999988731 111110000100 000000001111111


Q ss_pred             HHhcCCC---CC-CccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eEEEee-c-----
Q 038454          184 MALKLSL---TE-DEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TFCWGL-R-----  230 (359)
Q Consensus       184 ~~l~~~~---~~-~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~ilvTt-r-----  230 (359)
                      .....+.   .. .....+.+..+.+.+..    ..+-++|+|++                  .+. .+|++| +     
T Consensus        92 ~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~  171 (397)
T PRK14955         92 AGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIP  171 (397)
T ss_pred             cCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhH
Confidence            1000000   00 00101122223333311    25568889988                  234 444444 4     


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                         ...+..+++.+++.++..+.+...+-..+.   .-..+.+..|++.++|.+--+..
T Consensus       172 ~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~---~i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        172 ATIASRCQRFNFKRIPLEEIQQQLQGICEAEGI---SVDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Confidence               112456899999999998888876533221   12356788899999998754443

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.34  E-value=3.1e-05  Score=75.26  Aligned_cols=176  Identities=17%  Similarity=0.219  Sum_probs=107.7

Q ss_pred             ccccchHHHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHcCcccccCCC--ccEEEEEeCCCcCHHHHHHHHHH
Q 038454          109 LVGENTKKIVKKVWEDLMGD--KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEF--SDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       109 ~vGr~~~~~~~~l~~~l~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      ++|............+..+.  ....+.|+|.+|+|||+|++.+++.+   ...+  ..++|++.      .++...+..
T Consensus       125 v~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~---~~~~~~~~v~yi~~------~~~~~~~~~  195 (450)
T PRK00149        125 VVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYI---LEKNPNAKVVYVTS------EKFTNDFVN  195 (450)
T ss_pred             ccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHH---HHhCCCCeEEEEEH------HHHHHHHHH
Confidence            45654433444444444432  23569999999999999999999983   2222  23556543      233444444


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeec------------
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLR------------  230 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr------------  230 (359)
                      .+...     .    ...+.+.+.  +.-+|+|||+                     ..| .+++||.            
T Consensus       196 ~~~~~-----~----~~~~~~~~~--~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~  264 (450)
T PRK00149        196 ALRNN-----T----MEEFKEKYR--SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEER  264 (450)
T ss_pred             HHHcC-----c----HHHHHHHHh--cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHH
Confidence            44321     1    123334444  3448889999                     356 7888886            


Q ss_pred             ---cc-ceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh-------hcCCCChhH
Q 038454          231 ---SM-GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC-------MRGVDEIHE  299 (359)
Q Consensus       231 ---~~-~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~-------L~~~~~~~~  299 (359)
                         +. ....+++++.+.++-..++...+...+.   .-.+++...|++.+.|..-.+.-+-..       ....-+...
T Consensus       265 l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~~~---~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~  341 (450)
T PRK00149        265 LRSRFEWGLTVDIEPPDLETRIAILKKKAEEEGI---DLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLEL  341 (450)
T ss_pred             HHhHhcCCeeEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHH
Confidence               11 1235899999999999999998754322   223567888999999877654332222       122256777


Q ss_pred             HHHHHHHH
Q 038454          300 WRNALNEL  307 (359)
Q Consensus       300 w~~~l~~~  307 (359)
                      .+.++...
T Consensus       342 ~~~~l~~~  349 (450)
T PRK00149        342 AKEALKDL  349 (450)
T ss_pred             HHHHHHHh
Confidence            77777765

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.34  E-value=2.8e-05  Score=77.51  Aligned_cols=172  Identities=11%  Similarity=0.180  Sum_probs=98.9

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccCCCc--cEEEEEeCCCcCHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETNEFS--DVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~--~~~wv~~~~~~~~~~~~~~i  182 (359)
                      -..++|.+.  .+..|.+++..++.. .+.++|+.|+||||+|+.+++.+. -.....  ...+-    .+..-.-.+.|
T Consensus        23 f~dliGq~~--~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~-c~~~~~~~~~~~~----~cg~c~~C~~i   95 (598)
T PRK09111         23 FDDLIGQEA--MVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALN-YEGPDGDGGPTID----LCGVGEHCQAI   95 (598)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhC-cCCccccCCCccc----cCcccHHHHHH
Confidence            457899866  888899988887654 699999999999999999998731 010000  00000    00000111112


Q ss_pred             HHHhcCC-----CCCCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eEEEee-c---
Q 038454          183 AMALKLS-----LTEDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TFCWGL-R---  230 (359)
Q Consensus       183 ~~~l~~~-----~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~ilvTt-r---  230 (359)
                      ...-+.+     .......+ .++.+.+.+..    .++-++|+|++                  .++ .+|++| .   
T Consensus        96 ~~g~h~Dv~e~~a~s~~gvd-~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~k  174 (598)
T PRK09111         96 MEGRHVDVLEMDAASHTGVD-DIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRK  174 (598)
T ss_pred             hcCCCCceEEecccccCCHH-HHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhh
Confidence            1111110     00011111 12222222221    25567899998                  234 555544 3   


Q ss_pred             -----ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          231 -----SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       231 -----~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                           ...|..+.+.+++.++....+.+.+-..+.   .-..+....|++.++|.+.-+....
T Consensus       175 ll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi---~i~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        175 VPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGV---EVEDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             hhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence                 234677999999999999998887643322   1224667889999999987665443

>PRK06620 hypothetical protein; Validated

Probab=98.32  E-value=2.5e-05  Score=67.94  Aligned_cols=137  Identities=14%  Similarity=0.111  Sum_probs=80.1

Q ss_pred             CcccccccchHHHHHHHHHHhcCC--Cc--cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          105 PTTTLVGENTKKIVKKVWEDLMGD--KV--TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~~~--~~--~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      ...-++|.........+..+-...  ++  +.+.|+|++|+|||+|++.+++. .  ..     .++.  ..+..     
T Consensus        15 fd~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~-~--~~-----~~~~--~~~~~-----   79 (214)
T PRK06620         15 PDEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNL-S--NA-----YIIK--DIFFN-----   79 (214)
T ss_pred             chhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhc-c--CC-----EEcc--hhhhc-----
Confidence            345566765544555555555421  22  67999999999999999998887 2  11     1211  00000     


Q ss_pred             HHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC----------------CCC-eEEEeecc------------
Q 038454          181 EIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI----------------DNH-TFCWGLRS------------  231 (359)
Q Consensus       181 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----------------~~g-~ilvTtr~------------  231 (359)
                                      .       +...  ..-+|++||+                .+| .+++|++.            
T Consensus        80 ----------------~-------~~~~--~~d~lliDdi~~~~~~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~S  134 (214)
T PRK06620         80 ----------------E-------EILE--KYNAFIIEDIENWQEPALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSS  134 (214)
T ss_pred             ----------------h-------hHHh--cCCEEEEeccccchHHHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHH
Confidence                            0       0111  2346677888                456 78888871            


Q ss_pred             -cc-eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          232 -MG-CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       232 -~~-~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                       .. +-.+++++++.++-..++.+.+...+.   .-.+++..-|++.+.|.--.+
T Consensus       135 Rl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l---~l~~ev~~~L~~~~~~d~r~l  186 (214)
T PRK06620        135 RIKSVLSILLNSPDDELIKILIFKHFSISSV---TISRQIIDFLLVNLPREYSKI  186 (214)
T ss_pred             HHhCCceEeeCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHccCCHHHH
Confidence             11 225788899988888777776542221   122466677777776554444

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.30  E-value=2.2e-05  Score=77.49  Aligned_cols=156  Identities=17%  Similarity=0.247  Sum_probs=92.9

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCccccc------------------CCCccEEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEET------------------NEFSDVIW  166 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~------------------~~F~~~~w  166 (359)
                      -..++|.+.  .+..|..++..++.. .+.++|+.|+||||+|+.+++.+.-..                  +.|...++
T Consensus        15 f~divGq~~--v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~e   92 (527)
T PRK14969         15 FSELVGQEH--VVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIE   92 (527)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeE
Confidence            457899866  888888888877654 578999999999999999987731000                  01111222


Q ss_pred             EEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-----------------C-CC-eEEE
Q 038454          167 VTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-----------------D-NH-TFCW  227 (359)
Q Consensus       167 v~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------------~-~g-~ilv  227 (359)
                      +..+....... .+.++..+....                .. +++-++|+|++                 . .. .+|+
T Consensus        93 i~~~~~~~vd~-ir~l~~~~~~~p----------------~~-~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL  154 (527)
T PRK14969         93 VDAASNTQVDA-MRELLDNAQYAP----------------TR-GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFIL  154 (527)
T ss_pred             eeccccCCHHH-HHHHHHHHhhCc----------------cc-CCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEE
Confidence            22221111111 112222111100                11 25678999998                 2 23 4554


Q ss_pred             ee-c--------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          228 GL-R--------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       228 Tt-r--------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                      +| .        ...|..+.+.+++.++..+.+.+.+...+.   ....+....|++.++|.+--+
T Consensus       155 ~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi---~~~~~al~~la~~s~Gslr~a  217 (527)
T PRK14969        155 ATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENI---PFDATALQLLARAAAGSMRDA  217 (527)
T ss_pred             EeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence            44 3        122567899999999999888776533222   123456688999999977533

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.30  E-value=2.2e-05  Score=78.91  Aligned_cols=178  Identities=16%  Similarity=0.172  Sum_probs=103.1

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCC---ccEEEEEeCCC---cCHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEF---SDVIWVTVSQP---LDLVKLQ  179 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~~~~~---~~~~~~~  179 (359)
                      -+.++|++.  .+..+...+.......+.|+|++|+||||||+.+++. ......+   ...-|+.+...   .+...+.
T Consensus       153 ~~~iiGqs~--~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~-~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~  229 (615)
T TIGR02903       153 FSEIVGQER--AIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEE-AKKLKHTPFAEDAPFVEVDGTTLRWDPREVT  229 (615)
T ss_pred             HHhceeCcH--HHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHh-hhhccCCcccCCCCeEEEechhccCCHHHHh
Confidence            457899977  7777777777666778999999999999999999876 3222222   12345544321   1222221


Q ss_pred             HHH---------------HHHhcCCCC-----------------CCccHHHHHHHHHHHHhcCCcEEEEEecC-------
Q 038454          180 AEI---------------AMALKLSLT-----------------EDEDKVSRARRLLGKLKAKKKFVLILDDI-------  220 (359)
Q Consensus       180 ~~i---------------~~~l~~~~~-----------------~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-------  220 (359)
                      ..+               +...+....                 -..=....+..+.+.+.. ++++++-|+.       
T Consensus       230 ~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~-~~v~~~~~~~~~~~~~~  308 (615)
T TIGR02903       230 NPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLED-KRVEFSSSYYDPDDPNV  308 (615)
T ss_pred             HHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhh-CeEEeecceeccCCccc
Confidence            111               111111000                 001112345667777776 7777765533       


Q ss_pred             -----------CCC-eEEE--eec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHc
Q 038454          221 -----------DNH-TFCW--GLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEEC  277 (359)
Q Consensus       221 -----------~~g-~ilv--Ttr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c  277 (359)
                                 .+. .+++  ||+         ...+..+.+.+++.++.+.++.+.+...+...   ..+..+.|.+.+
T Consensus       309 ~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~l---s~eal~~L~~ys  385 (615)
T TIGR02903       309 PKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHL---AAGVEELIARYT  385 (615)
T ss_pred             chhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCC---CHHHHHHHHHCC
Confidence                       122 2343  444         12335678999999999999998764322211   245556666666


Q ss_pred             CCchhHHHHHHHh
Q 038454          278 AGLQLAIFTVVGC  290 (359)
Q Consensus       278 ~g~Plai~~~~~~  290 (359)
                      ..-+.++..++..
T Consensus       386 ~~gRraln~L~~~  398 (615)
T TIGR02903       386 IEGRKAVNILADV  398 (615)
T ss_pred             CcHHHHHHHHHHH
Confidence            6557777766554

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.

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=5.4e-05  Score=75.12  Aligned_cols=163  Identities=13%  Similarity=0.139  Sum_probs=91.6

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .++.|..++.++++. .+.++|+.|+||||+|+.+++.+.- .+..+   +    .+++.=...+.|..
T Consensus        12 f~eivGq~~--i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c-~~~~~---~----~pCg~C~~C~~i~~   81 (584)
T PRK14952         12 FAEVVGQEH--VTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC-AQGPT---A----TPCGVCESCVALAP   81 (584)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc-ccCCC---C----CcccccHHHHHhhc
Confidence            457899865  888899999887655 4789999999999999999987310 01000   0    00000000111110


Q ss_pred             Hhc-------CCCCCCccHHHHHHHHHHHHh----cCCcEEEEEecC-----------------C-CC-eEE-Eeec---
Q 038454          185 ALK-------LSLTEDEDKVSRARRLLGKLK----AKKKFVLILDDI-----------------D-NH-TFC-WGLR---  230 (359)
Q Consensus       185 ~l~-------~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv-----------------~-~g-~il-vTtr---  230 (359)
                      .-+       .+....... +.++.+.+.+.    ..++-++|+|++                 . .. .+| +||.   
T Consensus        82 ~~~~~~dvieidaas~~gv-d~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~k  160 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGV-DDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEK  160 (584)
T ss_pred             ccCCCceEEEeccccccCH-HHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHh
Confidence            000       000000011 11112221111    125668899998                 2 33 444 4544   


Q ss_pred             -----ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh
Q 038454          231 -----SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL  282 (359)
Q Consensus       231 -----~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  282 (359)
                           ...|..+.+.+++.++..+.+.+.+...+.   .-..+....|++.++|.+-
T Consensus       161 ll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi---~i~~~al~~Ia~~s~GdlR  214 (584)
T PRK14952        161 VLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGV---VVDDAVYPLVIRAGGGSPR  214 (584)
T ss_pred             hHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHH
Confidence                 233677999999999999888876643322   1124566778888999774

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.28  E-value=3.2e-05  Score=79.65  Aligned_cols=150  Identities=13%  Similarity=0.148  Sum_probs=91.6

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccccCCC---cc------------------
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEETNEF---SD------------------  163 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~------------------  163 (359)
                      -..++|.+.  .++.|..++.++++. .+.++|..|+||||+|+.+++.+. -....   .|                  
T Consensus        14 f~eiiGqe~--v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~-C~~~~~~~pCg~C~sC~~~~~g~~~~~d   90 (824)
T PRK07764         14 FAEVIGQEH--VTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLN-CVEGPTSTPCGECDSCVALAPGGPGSLD   90 (824)
T ss_pred             HHHhcCcHH--HHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhC-cccCCCCCCCcccHHHHHHHcCCCCCCc
Confidence            357899865  888898888887664 589999999999999999988741 00110   00                  


Q ss_pred             EEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHH-----HhcCCcEEEEEecC------------------
Q 038454          164 VIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGK-----LKAKKKFVLILDDI------------------  220 (359)
Q Consensus       164 ~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-----l~~~k~~LlVlDdv------------------  220 (359)
                      +++++......+                     + .++.+.+.     ..+ +.-++|||++                  
T Consensus        91 v~eidaas~~~V---------------------d-~iR~l~~~~~~~p~~~-~~KV~IIDEad~lt~~a~NaLLK~LEEp  147 (824)
T PRK07764         91 VTEIDAASHGGV---------------------D-DARELRERAFFAPAES-RYKIFIIDEAHMVTPQGFNALLKIVEEP  147 (824)
T ss_pred             EEEecccccCCH---------------------H-HHHHHHHHHHhchhcC-CceEEEEechhhcCHHHHHHHHHHHhCC
Confidence            112211111111                     1 11122221     123 5667889998                  


Q ss_pred             CCC-eEEEee-c--------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          221 DNH-TFCWGL-R--------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       221 ~~g-~ilvTt-r--------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                      ... .+|++| .        ...|..|++.+++.++..+.+.+.+-..+.   ....+....|++.++|.+..+
T Consensus       148 P~~~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv---~id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        148 PEHLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGV---PVEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             CCCeEEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence            233 444444 3        234677999999999998888776533222   122455678899999988444

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.27  E-value=5.4e-06  Score=78.35  Aligned_cols=148  Identities=15%  Similarity=0.227  Sum_probs=84.5

Q ss_pred             cccccccchHHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          106 TTTLVGENTKKIVKKVWEDLM----G---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      ...+.|.+.  .++++.+.+.    .         ..++-+.++|++|+|||++|+.+++.   ....|     +.+.. 
T Consensus       121 ~~di~Gl~~--~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~---l~~~~-----~~v~~-  189 (364)
T TIGR01242       121 YEDIGGLEE--QIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE---TNATF-----IRVVG-  189 (364)
T ss_pred             HHHhCChHH--HHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh---CCCCE-----Eecch-
Confidence            346788866  5555555442    2         12456999999999999999999998   33333     22211 


Q ss_pred             cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC--------------------------------
Q 038454          173 LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI--------------------------------  220 (359)
Q Consensus       173 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--------------------------------  220 (359)
                         ..+....   ++       ........+.+......+.+|+||++                                
T Consensus       190 ---~~l~~~~---~g-------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~  256 (364)
T TIGR01242       190 ---SELVRKY---IG-------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGF  256 (364)
T ss_pred             ---HHHHHHh---hh-------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCC
Confidence               1111100   00       11122222333222235677888876                                


Q ss_pred             --CCC-eEEEeecc----------cc--eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch
Q 038454          221 --DNH-TFCWGLRS----------MG--CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ  281 (359)
Q Consensus       221 --~~g-~ilvTtr~----------~~--~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  281 (359)
                        ..+ .||.||..          .+  ...+.++..+.++..++|...+..........    ...+++.+.|..
T Consensus       257 ~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       257 DPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCC----HHHHHHHcCCCC
Confidence              124 67888761          11  13588999999999999998764433211112    356777776654

Many proteins may score above the trusted cutoff because an internal

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

Probab=98.27  E-value=2.4e-05  Score=79.93  Aligned_cols=134  Identities=19%  Similarity=0.203  Sum_probs=84.5

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCC---ccEEEEEeCCCcCHHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEF---SDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      .+++||+.  ++.+++..|......-+.++|++|+|||++|+.+++.+......|   ++.+|..     +...+    +
T Consensus       186 ~~liGR~~--ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~l----l  254 (758)
T PRK11034        186 DPLIGREK--ELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGSL----L  254 (758)
T ss_pred             CcCcCCCH--HHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHHH----h
Confidence            56999987  999999988876556678999999999999999998732211121   3444421     11111    1


Q ss_pred             HHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------------CCC--eEEEeec-------
Q 038454          184 MALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------------DNH--TFCWGLR-------  230 (359)
Q Consensus       184 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------------~~g--~ilvTtr-------  230 (359)
                      .  +..  ...+.+.....+.+.+...++.+|++|++                        ..|  ++|-+|.       
T Consensus       255 a--G~~--~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g~i~vIgATt~~E~~~~  330 (758)
T PRK11034        255 A--GTK--YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNI  330 (758)
T ss_pred             c--ccc--hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCCCeEEEecCChHHHHHH
Confidence            0  111  01233344444544444336779999998                        344  4555554       


Q ss_pred             -------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          231 -------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       231 -------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                             ....+.+.+++++.+++.+++....
T Consensus       331 ~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        331 FEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             hhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence                   1122568999999999999988654

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=3.8e-05  Score=76.19  Aligned_cols=172  Identities=15%  Similarity=0.202  Sum_probs=97.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .+..|...+.+++ ...+.++|+.|+||||+|+.+++.+. -......       ..++.-...+.|..
T Consensus        15 f~dIiGQe~--v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~-C~~~~~~-------~pCg~C~sC~~i~~   84 (624)
T PRK14959         15 FAEVAGQET--VKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALN-CETAPTG-------EPCNTCEQCRKVTQ   84 (624)
T ss_pred             HHHhcCCHH--HHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhcc-ccCCCCC-------CCCcccHHHHHHhc
Confidence            457889865  7777888787765 47788999999999999999998831 1000000       00000011111111


Q ss_pred             HhcC-----CCCCCccHHHHHHHHHHHHh----cCCcEEEEEecC------------------CCC-eEEEeec------
Q 038454          185 ALKL-----SLTEDEDKVSRARRLLGKLK----AKKKFVLILDDI------------------DNH-TFCWGLR------  230 (359)
Q Consensus       185 ~l~~-----~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv------------------~~g-~ilvTtr------  230 (359)
                      ....     ........ +.++.+.+.+.    .+++-++|+|++                  ... .+|++|.      
T Consensus        85 g~hpDv~eId~a~~~~I-d~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll  163 (624)
T PRK14959         85 GMHVDVVEIDGASNRGI-DDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFP  163 (624)
T ss_pred             CCCCceEEEecccccCH-HHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhh
Confidence            1000     00000011 11122222221    126678999998                  223 4555444      


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch-hHHHHHHHhh
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ-LAIFTVVGCM  291 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P-lai~~~~~~L  291 (359)
                         ...+..+++.+++.++....+...+...+.   .-..+.+..|++.++|.+ .|+..+...+
T Consensus       164 ~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi---~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        164 VTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGV---DYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             HHHHhhhhccccCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence               223567899999999999988886644322   123567788999999965 6666665443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.25  E-value=0.00024  Score=70.34  Aligned_cols=157  Identities=14%  Similarity=0.188  Sum_probs=95.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAK  210 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  210 (359)
                      ..+.|+|..|+|||.|++.+++........+ .++|++      ..+++..+...+...         ....+.+.+.  
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~-~V~Yit------aeef~~el~~al~~~---------~~~~f~~~y~--  376 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGT-RVRYVS------SEEFTNEFINSIRDG---------KGDSFRRRYR--  376 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCC-eEEEee------HHHHHHHHHHHHHhc---------cHHHHHHHhh--
Confidence            4589999999999999999999831111112 355654      344444544443321         1122333443  


Q ss_pred             CcEEEEEecC---------------------CCC-eEEEeec---------------ccc-eeeeecCCCChHHHHHHHH
Q 038454          211 KKFVLILDDI---------------------DNH-TFCWGLR---------------SMG-CEEVRVPPLSKEEALNLFL  252 (359)
Q Consensus       211 k~~LlVlDdv---------------------~~g-~ilvTtr---------------~~~-~~~~~l~~L~~~ea~~lf~  252 (359)
                      .-=+|||||+                     ..| .||+||+               ++. .-.+.|.+.+.+.-..++.
T Consensus       377 ~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~  456 (617)
T PRK14086        377 EMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILR  456 (617)
T ss_pred             cCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHH
Confidence            2457889999                     456 8999988               111 2357999999999999999


Q ss_pred             HhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhh-------cCCCChhHHHHHHHHHh
Q 038454          253 DKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCM-------RGVDEIHEWRNALNELR  308 (359)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L-------~~~~~~~~w~~~l~~~~  308 (359)
                      +.+.......   -.+++.-|++.+.+..-.+.-+-..|       ....+...-+.++..+.
T Consensus       457 kka~~r~l~l---~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~~~  516 (617)
T PRK14086        457 KKAVQEQLNA---PPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRDLI  516 (617)
T ss_pred             HHHHhcCCCC---CHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhh
Confidence            8875443222   25677778888776654443332222       22245566666666553

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.25  E-value=8e-05  Score=72.93  Aligned_cols=159  Identities=14%  Similarity=0.189  Sum_probs=95.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccc-cCC----------------Cc-cEEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEE-TNE----------------FS-DVIW  166 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~----------------F~-~~~w  166 (359)
                      -..++|.+.  .++.|...+..+..+ .+.++|+.|+||||+|+.+++.+.-. ...                +. .++.
T Consensus        13 fdeiiGqe~--v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~e   90 (535)
T PRK08451         13 FDELIGQES--VSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIE   90 (535)
T ss_pred             HHHccCcHH--HHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEE
Confidence            457899865  788888888877665 56899999999999999988763100 000                10 1122


Q ss_pred             EEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEE
Q 038454          167 VTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCW  227 (359)
Q Consensus       167 v~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilv  227 (359)
                      ++......+..+ ++++......                -..+ ++-++|+|++                  .+. .+|+
T Consensus        91 ldaas~~gId~I-Relie~~~~~----------------P~~~-~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL  152 (535)
T PRK08451         91 MDAASNRGIDDI-RELIEQTKYK----------------PSMA-RFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFIL  152 (535)
T ss_pred             eccccccCHHHH-HHHHHHHhhC----------------cccC-CeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEE
Confidence            221111112111 1111111100                0012 5668889998                  233 5555


Q ss_pred             eec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          228 GLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       228 Ttr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                      +|.         ...|..+++.+++.++....+...+...+.   .-..+.+..|++.++|.+--+..+
T Consensus       153 ~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi---~i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        153 ATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGV---SYEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             EECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCcHHHHHHH
Confidence            554         234567999999999999988876643322   123567788999999988555444

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=2.3e-05  Score=78.57  Aligned_cols=169  Identities=15%  Similarity=0.213  Sum_probs=97.0

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .++.|..++..+.+ ..+.++|+.|+||||+|+.+++.+. ......      -...++.-..++.+..
T Consensus        15 ~~eiiGq~~--~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~-c~~~~~------~~~~c~~c~~c~~i~~   85 (585)
T PRK14950         15 FAELVGQEH--VVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN-CTTNDP------KGRPCGTCEMCRAIAE   85 (585)
T ss_pred             HHHhcCCHH--HHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc-CCCCCC------CCCCCccCHHHHHHhc
Confidence            467899866  88888888877655 4578999999999999999988731 000000      0001111122233322


Q ss_pred             HhcCC-----CCCCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eEEEeec------
Q 038454          185 ALKLS-----LTEDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TFCWGLR------  230 (359)
Q Consensus       185 ~l~~~-----~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~ilvTtr------  230 (359)
                      ..+.+     .......+. ++.+.+.+..    .++-++|+|++                  ... .+|+++.      
T Consensus        86 ~~~~d~~~i~~~~~~~vd~-ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll  164 (585)
T PRK14950         86 GSAVDVIEMDAASHTSVDD-AREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVP  164 (585)
T ss_pred             CCCCeEEEEeccccCCHHH-HHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhh
Confidence            21110     000111111 2222222211    25668899998                  233 4444443      


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                         ...+..+.+.+++.++....+...+...+..   -..+.+..|++.++|.+..+...
T Consensus       165 ~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~---i~~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        165 ATILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN---LEPGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             HHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence               2234568899999999988888776443321   22467788999999988655443

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

Probab=98.21  E-value=6.4e-06  Score=78.26  Aligned_cols=69  Identities=19%  Similarity=0.167  Sum_probs=53.6

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      ..+++.+.  ..+.++..+...  +.|.++|++|+|||++|+.+++. ......|+.+.||.++...+..+++.
T Consensus       175 ~d~~i~e~--~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~-l~~~~~~~~v~~VtFHpsySYeDFI~  243 (459)
T PRK11331        175 NDLFIPET--TIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYL-LTGEKAPQRVNMVQFHQSYSYEDFIQ  243 (459)
T ss_pred             hcccCCHH--HHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHH-hcCCcccceeeEEeecccccHHHHhc
Confidence            34566644  788888888765  56888999999999999999988 33345677888999998888777654

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.20  E-value=3.4e-05  Score=73.47  Aligned_cols=45  Identities=18%  Similarity=0.327  Sum_probs=33.6

Q ss_pred             ccccccchHHHHHHHHHHh----cC---------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDL----MG---------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l----~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.|.+.  .++++.+.+    ..         ..++-|.++|++|+|||++|+.+++.
T Consensus       131 ~di~Gl~~--~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~  188 (389)
T PRK03992        131 EDIGGLEE--QIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE  188 (389)
T ss_pred             HHhCCcHH--HHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH
Confidence            46788876  555555443    11         24567999999999999999999987

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.19  E-value=8.5e-05  Score=68.77  Aligned_cols=47  Identities=11%  Similarity=0.036  Sum_probs=38.7

Q ss_pred             CcccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          105 PTTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-..++|.+.  ..+.+..++..+.. .++.++|++|+|||++|+.+++.
T Consensus        19 ~~~~~~~~~~--~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~   66 (316)
T PHA02544         19 TIDECILPAA--DKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNE   66 (316)
T ss_pred             cHHHhcCcHH--HHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHH
Confidence            3467899966  78888888877654 56666999999999999999987

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.18  E-value=7.7e-05  Score=72.23  Aligned_cols=154  Identities=13%  Similarity=0.229  Sum_probs=91.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCccccc--------------------CCCccE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEET--------------------NEFSDV  164 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------------------~~F~~~  164 (359)
                      -..++|.+.  .+..|..++..+.. ..+.++|+.|+||||+|+.+++.+.-..                    .+++ .
T Consensus        16 ~~diiGq~~--~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-~   92 (451)
T PRK06305         16 FSEILGQDA--VVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-V   92 (451)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-e
Confidence            467899866  88888888887765 5688999999999999999988631100                    0111 1


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eE
Q 038454          165 IWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TF  225 (359)
Q Consensus       165 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~i  225 (359)
                      +++.........++ +.+...+..                ....+ .+-++|+|++                  ... .+
T Consensus        93 ~~i~g~~~~gid~i-r~i~~~l~~----------------~~~~~-~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~  154 (451)
T PRK06305         93 LEIDGASHRGIEDI-RQINETVLF----------------TPSKS-RYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKF  154 (451)
T ss_pred             EEeeccccCCHHHH-HHHHHHHHh----------------hhhcC-CCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceE
Confidence            11111111111111 111111110                00113 5667889987                  223 55


Q ss_pred             EEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH
Q 038454          226 CWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA  283 (359)
Q Consensus       226 lvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  283 (359)
                      |++|.         ...+..+++.+++.++....+...+-..+.   .-..+.+..|++.++|.+--
T Consensus       155 Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~---~i~~~al~~L~~~s~gdlr~  218 (451)
T PRK06305        155 FLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGI---ETSREALLPIARAAQGSLRD  218 (451)
T ss_pred             EEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHH
Confidence            55553         223567999999999999888876533221   12346778899999997643

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

Probab=98.18  E-value=7.1e-05  Score=68.66  Aligned_cols=175  Identities=14%  Similarity=0.187  Sum_probs=111.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCC---ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDK---VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~---~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  182 (359)
                      .+.+.+|+.  ++..+...+.++.   +..|.|+|.+|.|||.+.+++.+. .  ..   ..+|+++-+.++...++..|
T Consensus         5 ~~~v~~Re~--qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~-~--n~---~~vw~n~~ecft~~~lle~I   76 (438)
T KOG2543|consen    5 EPNVPCRES--QIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRK-L--NL---ENVWLNCVECFTYAILLEKI   76 (438)
T ss_pred             ccCccchHH--HHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhh-c--CC---cceeeehHHhccHHHHHHHH
Confidence            467788866  8888888887653   345689999999999999999998 2  11   36899999999999999999


Q ss_pred             HHHhcC-CCCCC------ccHHHHHHHHHH--HHhc-CCcEEEEEecC---------------------C-CCeEEEeec
Q 038454          183 AMALKL-SLTED------EDKVSRARRLLG--KLKA-KKKFVLILDDI---------------------D-NHTFCWGLR  230 (359)
Q Consensus       183 ~~~l~~-~~~~~------~~~~~~~~~l~~--~l~~-~k~~LlVlDdv---------------------~-~g~ilvTtr  230 (359)
                      +.+.+. +.+..      .+.......+.+  .... ++.++|||||+                     . +.-.|+++-
T Consensus        77 L~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~  156 (438)
T KOG2543|consen   77 LNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSA  156 (438)
T ss_pred             HHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEec
Confidence            999963 22211      111222233333  1112 25899999999                     2 224444444


Q ss_pred             ---------ccce---eeeecCCCChHHHHHHHHHhhcCCCCC---CCCchHHHHHHHHHHcCCchhHHHHHHHh
Q 038454          231 ---------SMGC---EEVRVPPLSKEEALNLFLDKVGRNILH---VPTLNEEIINSVVEECAGLQLAIFTVVGC  290 (359)
Q Consensus       231 ---------~~~~---~~~~l~~L~~~ea~~lf~~~~~~~~~~---~~~~~~~~~~~i~~~c~g~Plai~~~~~~  290 (359)
                               ++++   -++.++.-+.+|..+++.+.-.+ ...   ...-+.-+..-....|+ -+-.+..+++.
T Consensus       157 ~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~-~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~  229 (438)
T KOG2543|consen  157 PSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPG-KRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISL  229 (438)
T ss_pred             cccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCcc-ccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHH
Confidence                     2444   34788889999999988765211 110   01112223344556676 55555555544

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.18  E-value=9.3e-05  Score=74.59  Aligned_cols=163  Identities=15%  Similarity=0.208  Sum_probs=91.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCC---ccEEE-EEeCCCcCHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEF---SDVIW-VTVSQPLDLVKLQA  180 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~w-v~~~~~~~~~~~~~  180 (359)
                      -..++|.+.  .+..|..++..+++ ..+.++|+.|+||||+|+.+++.+.-.....   .|..- -+.+..++.     
T Consensus        17 f~dIiGQe~--~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dv-----   89 (725)
T PRK07133         17 FDDIVGQDH--IVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDI-----   89 (725)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcE-----
Confidence            457899865  78888888887654 5678999999999999999987731000000   00000 000000000     


Q ss_pred             HHHHHhcCCCCCCccHHHHHHHHHHHHhc----CCcEEEEEecC-----------------CCC--e-EEEeec------
Q 038454          181 EIAMALKLSLTEDEDKVSRARRLLGKLKA----KKKFVLILDDI-----------------DNH--T-FCWGLR------  230 (359)
Q Consensus       181 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv-----------------~~g--~-ilvTtr------  230 (359)
                           +......... .+.++.+.+.+..    +++-++|+|++                 .++  . |++|+.      
T Consensus        90 -----ieidaasn~~-vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~  163 (725)
T PRK07133         90 -----IEMDAASNNG-VDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPL  163 (725)
T ss_pred             -----EEEeccccCC-HHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhH
Confidence                 0000000001 1112223222221    26668899998                 233  3 344544      


Q ss_pred             --ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          231 --SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       231 --~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                        ...|..+.+.+++.++....+...+-..+.   ....+.+..|++.++|.+--+
T Consensus       164 TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI---~id~eAl~~LA~lS~GslR~A  216 (725)
T PRK07133        164 TILSRVQRFNFRRISEDEIVSRLEFILEKENI---SYEKNALKLIAKLSSGSLRDA  216 (725)
T ss_pred             HHHhhceeEEccCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence              234678999999999999888876533222   112456778999998876533

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.18  E-value=9.9e-05  Score=74.05  Aligned_cols=155  Identities=13%  Similarity=0.208  Sum_probs=93.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcc--c------------------ccCCCccE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQ--E------------------ETNEFSDV  164 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~--~------------------~~~~F~~~  164 (359)
                      -..++|.+.  .+..|..++..+... .+.++|+.|+||||+|+.++..+.  .                  ...+|+ +
T Consensus        16 f~~viGq~~--~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n-~   92 (614)
T PRK14971         16 FESVVGQEA--LTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN-I   92 (614)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc-e
Confidence            457899865  888899999887654 588999999999999999887631  0                  011232 2


Q ss_pred             EEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eE
Q 038454          165 IWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TF  225 (359)
Q Consensus       165 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~i  225 (359)
                      ..++........++ +.++.++....                ..+ ++-++|+|++                  ..+ .+
T Consensus        93 ~~ld~~~~~~vd~I-r~li~~~~~~P----------------~~~-~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tif  154 (614)
T PRK14971         93 HELDAASNNSVDDI-RNLIEQVRIPP----------------QIG-KYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIF  154 (614)
T ss_pred             EEecccccCCHHHH-HHHHHHHhhCc----------------ccC-CcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEE
Confidence            22222222122221 12222221110                112 4557788888                  233 44


Q ss_pred             EE-eec--------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          226 CW-GLR--------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       226 lv-Ttr--------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                      |+ |+.        ...|..+++.+++.++....+.+.+...+.   .-..+.+..|+..++|..--+
T Consensus       155 IL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi---~i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        155 ILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGI---TAEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             EEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHH
Confidence            44 444        234567999999999999988876643322   112456788899999866544

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.17  E-value=9.7e-05  Score=73.86  Aligned_cols=170  Identities=14%  Similarity=0.232  Sum_probs=92.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEE-eCCCcCHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT-VSQPLDLVKLQAEIA  183 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i~  183 (359)
                      -..++|.+.  .+..|..++.++.+ ..+.++|+.|+||||+|+.+++.+. -...++.-.|.. +...++.-...+.+.
T Consensus        15 f~eivGQe~--i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~-c~~~~~~~~~~~~~~~~Cg~C~sC~~~~   91 (620)
T PRK14954         15 FADITAQEH--ITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVN-CQRMIDDPVYLQEVTEPCGECESCRDFD   91 (620)
T ss_pred             HHHhcCcHH--HHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhC-CCCcCCccccccccCCCCccCHHHHHHh
Confidence            457899865  88888888887765 4588999999999999999988731 111110000110 000000001111111


Q ss_pred             HHhcC-----CCCCCccHHHHHHHHHHHH-----hcCCcEEEEEecC-----------------CCC--eEEE-eec---
Q 038454          184 MALKL-----SLTEDEDKVSRARRLLGKL-----KAKKKFVLILDDI-----------------DNH--TFCW-GLR---  230 (359)
Q Consensus       184 ~~l~~-----~~~~~~~~~~~~~~l~~~l-----~~~k~~LlVlDdv-----------------~~g--~ilv-Ttr---  230 (359)
                      ..-..     ........++ ++.+.+.+     .+ .+-++|+|++                 .++  .+|+ |++   
T Consensus        92 ~g~~~n~~~~d~~s~~~vd~-Ir~l~e~~~~~P~~~-~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~k  169 (620)
T PRK14954         92 AGTSLNISEFDAASNNSVDD-IRQLRENVRYGPQKG-RYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHK  169 (620)
T ss_pred             ccCCCCeEEecccccCCHHH-HHHHHHHHHhhhhcC-CCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhh
Confidence            10000     0000011111 22222222     23 5557899988                 223  4444 444   


Q ss_pred             -----ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH
Q 038454          231 -----SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA  283 (359)
Q Consensus       231 -----~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  283 (359)
                           ...+..+++.+++.++....+.+.+-..+.   .-..+.+..|++.++|..--
T Consensus       170 Ll~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi---~I~~eal~~La~~s~Gdlr~  224 (620)
T PRK14954        170 IPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGI---QIDADALQLIARKAQGSMRD  224 (620)
T ss_pred             hhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHhCCCHHH
Confidence                 234567999999999988888776533221   12356778899999996553

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=0.00016  Score=70.61  Aligned_cols=156  Identities=16%  Similarity=0.216  Sum_probs=93.2

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCccc--ccC----------------CCccEEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQE--ETN----------------EFSDVIW  166 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~--~~~----------------~F~~~~w  166 (359)
                      -..++|.+.  .+..|..++..+.+. .+.++|+.|+||||+|+.++..+.-  ...                .|...++
T Consensus        15 f~diiGq~~--i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~e   92 (486)
T PRK14953         15 FKEVIGQEI--VVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIE   92 (486)
T ss_pred             HHHccChHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEE
Confidence            357889866  888888888876554 5678999999999999999876310  000                0111222


Q ss_pred             EEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh----cCCcEEEEEecC-----------------C-CC-
Q 038454          167 VTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK----AKKKFVLILDDI-----------------D-NH-  223 (359)
Q Consensus       167 v~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv-----------------~-~g-  223 (359)
                      +..+.....                      +..+.+.+...    .+++-++|+|++                 . +. 
T Consensus        93 idaas~~gv----------------------d~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~  150 (486)
T PRK14953         93 IDAASNRGI----------------------DDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRT  150 (486)
T ss_pred             EeCccCCCH----------------------HHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCe
Confidence            221111111                      11112222221    125668899998                 2 23 


Q ss_pred             eEEE-eec--------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          224 TFCW-GLR--------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       224 ~ilv-Ttr--------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      .+|+ |++        ...+..+.+.+++.++....+...+-..+.   ....+.+..|++.++|.+..+....
T Consensus       151 v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi---~id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        151 IFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKI---EYEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             EEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4444 444        223567899999999999888876543322   1234667788899999776554443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.15  E-value=0.00073  Score=65.34  Aligned_cols=154  Identities=14%  Similarity=0.210  Sum_probs=91.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAK  210 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  210 (359)
                      ..+.|+|++|+|||+|++.+++.+.   .....+++++      ...+...+...+...     .    ...+.+.+.  
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~---~~~~~v~yi~------~~~f~~~~~~~l~~~-----~----~~~f~~~~~--  201 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALR---ESGGKILYVR------SELFTEHLVSAIRSG-----E----MQRFRQFYR--  201 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHH---HcCCCEEEee------HHHHHHHHHHHHhcc-----h----HHHHHHHcc--
Confidence            5689999999999999999999831   1122355654      234444555444321     1    122333333  


Q ss_pred             CcEEEEEecC---------------------CCC-eEEEeec---------------ccc-eeeeecCCCChHHHHHHHH
Q 038454          211 KKFVLILDDI---------------------DNH-TFCWGLR---------------SMG-CEEVRVPPLSKEEALNLFL  252 (359)
Q Consensus       211 k~~LlVlDdv---------------------~~g-~ilvTtr---------------~~~-~~~~~l~~L~~~ea~~lf~  252 (359)
                      ..-+|++||+                     ..| .||+||.               +.. .-.+.+.+++.++-..++.
T Consensus       202 ~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~  281 (445)
T PRK12422        202 NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLE  281 (445)
T ss_pred             cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHH
Confidence            3458888998                     357 8888886               111 2457899999999999998


Q ss_pred             HhhcCCCCCCCCchHHHHHHHHHHcCCch-hHHHHHHHh--------hc-CCCChhHHHHHHHHH
Q 038454          253 DKVGRNILHVPTLNEEIINSVVEECAGLQ-LAIFTVVGC--------MR-GVDEIHEWRNALNEL  307 (359)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~~i~~~c~g~P-lai~~~~~~--------L~-~~~~~~~w~~~l~~~  307 (359)
                      +.+-..+...   ..++..-|+..+.|.- -....+-.+        +. ..-+.+.-+.++...
T Consensus       282 ~k~~~~~~~l---~~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~~~i~~~~~~~~l~~~  343 (445)
T PRK12422        282 RKAEALSIRI---EETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSHQLLYVDDIKALLHDV  343 (445)
T ss_pred             HHHHHcCCCC---CHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            8874432212   2456666777766543 222222222        11 225566666666654

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=98.15  E-value=0.00042  Score=60.49  Aligned_cols=158  Identities=19%  Similarity=0.233  Sum_probs=103.6

Q ss_pred             cCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeC-CCcCHHHHHHHHHHHhcCCCCCCccHH----HHH
Q 038454          126 MGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS-QPLDLVKLQAEIAMALKLSLTEDEDKV----SRA  200 (359)
Q Consensus       126 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~~~~~----~~~  200 (359)
                      ..++.+++.|+|.-|+|||.+.+.+...+.   +  +.++-+.+. ...+...+...+...+..+.  .....    ...
T Consensus        47 i~d~qg~~~vtGevGsGKTv~~Ral~~s~~---~--d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p--~~~~~~~~e~~~  119 (269)
T COG3267          47 IADGQGILAVTGEVGSGKTVLRRALLASLN---E--DQVAVVVIDKPTLSDATLLEAIVADLESQP--KVNVNAVLEQID  119 (269)
T ss_pred             HhcCCceEEEEecCCCchhHHHHHHHHhcC---C--CceEEEEecCcchhHHHHHHHHHHHhccCc--cchhHHHHHHHH
Confidence            345567999999999999999996555421   1  112223333 34577888888888888732  22333    333


Q ss_pred             HHHHHHHhcCCc-EEEEEecC--------------------CCC--eEEEeec---------------ccceee-eecCC
Q 038454          201 RRLLGKLKAKKK-FVLILDDI--------------------DNH--TFCWGLR---------------SMGCEE-VRVPP  241 (359)
Q Consensus       201 ~~l~~~l~~~k~-~LlVlDdv--------------------~~g--~ilvTtr---------------~~~~~~-~~l~~  241 (359)
                      +.+....+.+++ ..+++|+.                    ..+  +|+.-..               ...+.. |.++|
T Consensus       120 ~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P  199 (269)
T COG3267         120 RELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPP  199 (269)
T ss_pred             HHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCC
Confidence            444444444566 99999998                    222  3444333               112334 89999


Q ss_pred             CChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh
Q 038454          242 LSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC  290 (359)
Q Consensus       242 L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~  290 (359)
                      ++.++...++.....+.....+--..+....|.....|.|.+|..++..
T Consensus       200 ~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         200 LTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             cChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            9999999988888755543333344667788999999999999877643

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.11  E-value=7.2e-05  Score=78.22  Aligned_cols=134  Identities=14%  Similarity=0.193  Sum_probs=82.0

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCccccc--CC-CccEEEEEeCCCcCHHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEET--NE-FSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~-F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      .+++||+.  ++.+++..|.......+.++|++|+|||++|..+++++....  .. ....+|.-     ++..+.    
T Consensus       173 ~~~igr~~--ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l-----~~~~l~----  241 (852)
T TIGR03346       173 DPVIGRDE--EIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLAL-----DMGALI----  241 (852)
T ss_pred             CcCCCcHH--HHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEe-----eHHHHh----
Confidence            56999976  999999999887667788999999999999999998831110  00 12223321     111111    


Q ss_pred             HHhcCCCCCCccHHHHHHHHHHHHhc-CCcEEEEEecC-----------------------CCC--eEEEeec-------
Q 038454          184 MALKLSLTEDEDKVSRARRLLGKLKA-KKKFVLILDDI-----------------------DNH--TFCWGLR-------  230 (359)
Q Consensus       184 ~~l~~~~~~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv-----------------------~~g--~ilvTtr-------  230 (359)
                      .  +..  ...+.+..+..+.+.+.. +++.+|++|++                       ..|  .+|.+|.       
T Consensus       242 a--~~~--~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g~i~~IgaTt~~e~r~~  317 (852)
T TIGR03346       242 A--GAK--YRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARGELHCIGATTLDEYRKY  317 (852)
T ss_pred             h--cch--hhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcCceEEEEeCcHHHHHHH
Confidence            0  000  012233344444444432 36899999999                       124  4444444       


Q ss_pred             -------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          231 -------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       231 -------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                             ......+.++..+.++...++....
T Consensus       318 ~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       318 IEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             hhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence                   1122458899999999999887653

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.

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

Probab=98.10  E-value=0.00022  Score=67.17  Aligned_cols=172  Identities=16%  Similarity=0.224  Sum_probs=108.7

Q ss_pred             CCcccccccchHHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHH
Q 038454          104 LPTTTLVGENTKKIVKKVWEDLMG----DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQ  179 (359)
Q Consensus       104 ~~~~~~vGr~~~~~~~~l~~~l~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~  179 (359)
                      .++..++||+.  ++..+.+|+..    +..+.+-|.|.+|.|||.+...++.++...... .++++++...-.....++
T Consensus       147 ~~p~~l~gRe~--e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~-~~~v~inc~sl~~~~aiF  223 (529)
T KOG2227|consen  147 APPGTLKGREL--EMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKS-PVTVYINCTSLTEASAIF  223 (529)
T ss_pred             CCCCCccchHH--HHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhccc-ceeEEEeeccccchHHHH
Confidence            35678999976  77777777754    467789999999999999999999984222122 245777766555677777


Q ss_pred             HHHHHHhcCCCCCCccHHHHHHHHHHHHhcCC-cEEEEEecC-------------------CCC-eEEEee---------
Q 038454          180 AEIAMALKLSLTEDEDKVSRARRLLGKLKAKK-KFVLILDDI-------------------DNH-TFCWGL---------  229 (359)
Q Consensus       180 ~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k-~~LlVlDdv-------------------~~g-~ilvTt---------  229 (359)
                      ..|...+-..........+....+.+...+.+ -+|+|+|..                   -++ ++++.-         
T Consensus       224 ~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTd  303 (529)
T KOG2227|consen  224 KKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTD  303 (529)
T ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHH
Confidence            77777662222222233566677777776634 689999998                   222 222221         


Q ss_pred             c-----c--cce--eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCc
Q 038454          230 R-----S--MGC--EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGL  280 (359)
Q Consensus       230 r-----~--~~~--~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~  280 (359)
                      |     .  .++  ..+..+|-+.++-.++|....-....  .......++-++++|.|.
T Consensus       304 R~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t--~~~~~~Aie~~ArKvaa~  361 (529)
T KOG2227|consen  304 RFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEEST--SIFLNAAIELCARKVAAP  361 (529)
T ss_pred             HHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccc--cccchHHHHHHHHHhccC
Confidence            1     1  122  34788999999999999988643321  222223344444454443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.10  E-value=0.00021  Score=70.90  Aligned_cols=165  Identities=15%  Similarity=0.202  Sum_probs=94.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCcccc--cCCCccEEEEEeCCCcCHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRPQEE--TNEFSDVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F~~~~wv~~~~~~~~~~~~~~i  182 (359)
                      -..++|.+.  .+..|..++.++..+ .+.++|+.|+||||+|+.+++.+.-.  ...+.|      +...+.    +.|
T Consensus        15 f~diiGqe~--iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC------~~C~~C----~~i   82 (563)
T PRK06647         15 FNSLEGQDF--VVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPC------GECSSC----KSI   82 (563)
T ss_pred             HHHccCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCC------ccchHH----HHH
Confidence            457899866  888899999877654 68899999999999999999873110  000111      000000    111


Q ss_pred             HHHhcC-----CCCCCccHHHHHHHHHHH-----HhcCCcEEEEEecC------------------CCC-eEEEeec---
Q 038454          183 AMALKL-----SLTEDEDKVSRARRLLGK-----LKAKKKFVLILDDI------------------DNH-TFCWGLR---  230 (359)
Q Consensus       183 ~~~l~~-----~~~~~~~~~~~~~~l~~~-----l~~~k~~LlVlDdv------------------~~g-~ilvTtr---  230 (359)
                      ...-..     ........++ ++.+.+.     ..+ ++-++|+|++                  .+. .+|++|.   
T Consensus        83 ~~~~~~dv~~idgas~~~vdd-Ir~l~e~~~~~p~~~-~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~  160 (563)
T PRK06647         83 DNDNSLDVIEIDGASNTSVQD-VRQIKEEIMFPPASS-RYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVH  160 (563)
T ss_pred             HcCCCCCeEEecCcccCCHHH-HHHHHHHHHhchhcC-CCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChH
Confidence            000000     0000011111 1122211     123 6668889998                  233 4444443   


Q ss_pred             ------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          231 ------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       231 ------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                            ...+..+.+.+++.++..+.+...+...+.   .-..+.+..|++.++|.+-.+..+
T Consensus       161 kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi---~id~eAl~lLa~~s~GdlR~alsl  220 (563)
T PRK06647        161 KLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQI---KYEDEALKWIAYKSTGSVRDAYTL  220 (563)
T ss_pred             HhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHH
Confidence                  233567899999999998888877643322   123567778999999987544433

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

Probab=98.09  E-value=4e-05  Score=68.31  Aligned_cols=159  Identities=13%  Similarity=0.159  Sum_probs=96.3

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEE-EEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVI-WVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~-wv~~~~~~~~~~~~~~i~~  184 (359)
                      ...++|.+.  .+..|.+.+.....+....+|++|.|||+-|..++..+ --.+.|.+.+ =.++|......-+-..+  
T Consensus        35 ~de~~gQe~--vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L-~~~~~~~~rvl~lnaSderGisvvr~Ki--  109 (346)
T KOG0989|consen   35 FDELAGQEH--VVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL-NCEQLFPCRVLELNASDERGISVVREKI--  109 (346)
T ss_pred             HHhhcchHH--HHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHh-cCccccccchhhhcccccccccchhhhh--
Confidence            457888865  78888888888788999999999999999999998873 2235566533 34444432222000000  


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhc-CCc-EEEEEecC------------------CCC-e-EEEeec--------ccce
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKA-KKK-FVLILDDI------------------DNH-T-FCWGLR--------SMGC  234 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~-~k~-~LlVlDdv------------------~~g-~-ilvTtr--------~~~~  234 (359)
                               .+.............. -++ -++|||++                  ... + |+||+-        ...|
T Consensus       110 ---------k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC  180 (346)
T KOG0989|consen  110 ---------KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRC  180 (346)
T ss_pred             ---------cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhH
Confidence                     0000000000000000 022 46778888                  222 3 445543        3456


Q ss_pred             eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch
Q 038454          235 EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ  281 (359)
Q Consensus       235 ~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  281 (359)
                      ..+..++|..++..+-+...+-..+.   +-..+..+.|++.++|--
T Consensus       181 ~KfrFk~L~d~~iv~rL~~Ia~~E~v---~~d~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  181 QKFRFKKLKDEDIVDRLEKIASKEGV---DIDDDALKLIAKISDGDL  224 (346)
T ss_pred             HHhcCCCcchHHHHHHHHHHHHHhCC---CCCHHHHHHHHHHcCCcH
Confidence            77999999999999988888755443   223566788999998853

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.05  E-value=0.00031  Score=64.74  Aligned_cols=173  Identities=13%  Similarity=0.147  Sum_probs=98.9

Q ss_pred             ccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccc------------cCCCccEEEEEeCCCc
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEE------------TNEFSDVIWVTVSQPL  173 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~------------~~~F~~~~wv~~~~~~  173 (359)
                      ..++|.+.  .+..+...+..+++ +...++|+.|+||+++|..+++.+.-.            ...++-..|+.-....
T Consensus         4 ~~iiGq~~--~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~   81 (314)
T PRK07399          4 ANLIGQPL--AIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH   81 (314)
T ss_pred             HHhCCHHH--HHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc
Confidence            45788865  88888888888764 799999999999999999988763110            1112223444321000


Q ss_pred             CHHHHHHHHHHHhcC--CCCCCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCCeEEEee
Q 038454          174 DLVKLQAEIAMALKL--SLTEDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNHTFCWGL  229 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~--~~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g~ilvTt  229 (359)
                      +-..+-..-+...+.  ....... .+.++.+.+.+..    +++-++|+|++                  .+..+|++|
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~I~-id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~  160 (314)
T PRK07399         82 QGKLITASEAEEAGLKRKAPPQIR-LEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIA  160 (314)
T ss_pred             cccccchhhhhhccccccccccCc-HHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEE
Confidence            000000011111110  0000111 1223344444432    36678888888                  323444444


Q ss_pred             c---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          230 R---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       230 r---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      .         ...|..+.+.+++.++..+.+.......      ........++..++|.|..+..+.
T Consensus       161 ~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~------~~~~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        161 PSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEE------ILNINFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             CChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccc------cchhHHHHHHHHcCCCHHHHHHHH
Confidence            3         3456789999999999999998864211      111123678999999997665443

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.04  E-value=0.00022  Score=71.30  Aligned_cols=168  Identities=14%  Similarity=0.245  Sum_probs=91.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .+..|..++..+.+ ..+.++|+.|+||||+|+.+++.+. -.+..+.       ..++.-.....|..
T Consensus        15 f~~iiGq~~--v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~-c~~~~~~-------~~c~~c~~c~~i~~   84 (576)
T PRK14965         15 FSDLTGQEH--VSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN-CEQGLTA-------EPCNVCPPCVEITE   84 (576)
T ss_pred             HHHccCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhc-CCCCCCC-------CCCCccHHHHHHhc
Confidence            467899865  88888888887765 4678999999999999999988731 0011000       00000001111100


Q ss_pred             HhcC-----CCCCCccHHHHHHHHHHHHh----cCCcEEEEEecC------------------CCC-eEEE-eec-----
Q 038454          185 ALKL-----SLTEDEDKVSRARRLLGKLK----AKKKFVLILDDI------------------DNH-TFCW-GLR-----  230 (359)
Q Consensus       185 ~l~~-----~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv------------------~~g-~ilv-Ttr-----  230 (359)
                      .-..     +...... .+.++.+.+.+.    ..++-++|+|++                  .+. .+|+ ||.     
T Consensus        85 g~~~d~~eid~~s~~~-v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~  163 (576)
T PRK14965         85 GRSVDVFEIDGASNTG-VDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVP  163 (576)
T ss_pred             CCCCCeeeeeccCccC-HHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhh
Confidence            0000     0000001 111222222221    125567889998                  233 4544 444     


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch-hHHHHH
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ-LAIFTV  287 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P-lai~~~  287 (359)
                         ...|..+.+.+++.++....+...+-..+.   .-..+.+..|++.++|.. .++..+
T Consensus       164 ~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi---~i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        164 ITILSRCQRFDFRRIPLQKIVDRLRYIADQEGI---SISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             HHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence               223567899999999988888776533322   122456777888888865 344443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.03  E-value=8.3e-05  Score=67.68  Aligned_cols=46  Identities=20%  Similarity=0.298  Sum_probs=31.0

Q ss_pred             cccccch-HHHHHHHHHHhcCC------------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENT-KKIVKKVWEDLMGD------------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~-~~~~~~l~~~l~~~------------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|-+. ++.+.++..++...            ...-+.++|++|+|||++|+.+++.
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~   81 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQI   81 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHH
Confidence            4677665 44555555544211            1225889999999999999888776

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=98.03  E-value=7.8e-05  Score=67.08  Aligned_cols=46  Identities=24%  Similarity=0.367  Sum_probs=33.2

Q ss_pred             cccccch-HHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENT-KKIVKKVWEDLMG------------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~-~~~~~~l~~~l~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|.+. +..+.++..+...            +....+.++|++|+||||+|+.+++.
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~   65 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKL   65 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHH
Confidence            4777766 4455555555421            23456889999999999999999876

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.02  E-value=5.9e-05  Score=78.70  Aligned_cols=46  Identities=22%  Similarity=0.340  Sum_probs=41.0

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+++||+.  ++..++..|.......+.++|.+|+|||+||..+++.+
T Consensus       178 ~~vigr~~--ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDE--EIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHH--HHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence            57999976  89999999988777778899999999999999999884

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.01  E-value=0.00044  Score=69.52  Aligned_cols=170  Identities=15%  Similarity=0.204  Sum_probs=95.1

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .+..|..++..+.. ..+.++|+.|+||||+|+.+++.+  .........    ...+..-..++.+..
T Consensus        15 f~~liGq~~--i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L--~c~~~~~~~----~~~Cg~C~~C~~i~~   86 (620)
T PRK14948         15 FDELVGQEA--IATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSL--NCLNSDKPT----PEPCGKCELCRAIAA   86 (620)
T ss_pred             HhhccChHH--HHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHh--cCCCcCCCC----CCCCcccHHHHHHhc
Confidence            357888865  78888888887654 678999999999999999999883  111111000    001111122222222


Q ss_pred             HhcCC-----CCCCccHHHHHHHHHHHHhc----CCcEEEEEecC-----------------CCC--eEE-Eeec-----
Q 038454          185 ALKLS-----LTEDEDKVSRARRLLGKLKA----KKKFVLILDDI-----------------DNH--TFC-WGLR-----  230 (359)
Q Consensus       185 ~l~~~-----~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv-----------------~~g--~il-vTtr-----  230 (359)
                      ..+.+     ....... +.++.+.+....    +++-++|+|++                 .++  .+| +|+.     
T Consensus        87 g~h~D~~ei~~~~~~~v-d~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~ll  165 (620)
T PRK14948         87 GNALDVIEIDAASNTGV-DNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVL  165 (620)
T ss_pred             CCCccEEEEeccccCCH-HHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhh
Confidence            11110     0001111 122222222211    25568899998                 223  334 4443     


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                         ...|..+.+.+++.++....+...+...+..   -..+.+..|++.++|.+..+..+
T Consensus       166 pTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~---is~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        166 PTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIE---IEPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             HHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence               2346678899999999888877765432221   12356788999999987655443

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

Probab=97.97  E-value=7.4e-05  Score=71.66  Aligned_cols=25  Identities=24%  Similarity=0.404  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+-+.++|++|+|||++|+.+++.
T Consensus       216 ~p~gVLL~GPPGTGKT~LAraIA~e  240 (438)
T PTZ00361        216 PPKGVILYGPPGTGKTLLAKAVANE  240 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHh
Confidence            3567889999999999999999998

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.96  E-value=0.00061  Score=67.83  Aligned_cols=166  Identities=17%  Similarity=0.217  Sum_probs=92.7

Q ss_pred             cccccccchHHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .+..|.+++..++ ...+.++|+.|+||||+|+.+++.+. -.+.-+       ..+++.-...+.|..
T Consensus        15 f~~viGq~~--v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~-c~~~~~-------~~pC~~C~~C~~i~~   84 (559)
T PRK05563         15 FEDVVGQEH--ITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVN-CLNPPD-------GEPCNECEICKAITN   84 (559)
T ss_pred             HHhccCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CCCCCC-------CCCCCccHHHHHHhc
Confidence            467899866  8888888887765 45678899999999999999987631 001000       000011011111111


Q ss_pred             HhcCC-----CCCCccHHHHHHHHHHHHh----cCCcEEEEEecC-----------------C-CC-eEE-Eeec-----
Q 038454          185 ALKLS-----LTEDEDKVSRARRLLGKLK----AKKKFVLILDDI-----------------D-NH-TFC-WGLR-----  230 (359)
Q Consensus       185 ~l~~~-----~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv-----------------~-~g-~il-vTtr-----  230 (359)
                      ....+     ...... .+.++.+.....    ..+.-++|+|++                 . .. .+| .||.     
T Consensus        85 g~~~dv~eidaas~~~-vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~  163 (559)
T PRK05563         85 GSLMDVIEIDAASNNG-VDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIP  163 (559)
T ss_pred             CCCCCeEEeeccccCC-HHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCc
Confidence            10000     000011 112222222211    125668889998                 2 23 334 4444     


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHH
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIF  285 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~  285 (359)
                         ...+..+.+.+++.++..+.+...+-..+.   .-..+.+..|++.++|.+.-+.
T Consensus       164 ~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi---~i~~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        164 ATILSRCQRFDFKRISVEDIVERLKYILDKEGI---EYEDEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             HHHHhHheEEecCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHH
Confidence               223567899999999999888877643322   1124567788888888775443

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.96  E-value=5e-05  Score=60.52  Aligned_cols=85  Identities=26%  Similarity=0.199  Sum_probs=48.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAK  210 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  210 (359)
                      ..+.|+|++|+||||+++.+++.+   ......+++++.+...........  ...................+.......
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAREL---GPPGGGVIYIDGEDILEEVLDQLL--LIIVGGKKASGSGELRLRLALALARKL   77 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcc---CCCCCCEEEECCEEccccCHHHHH--hhhhhccCCCCCHHHHHHHHHHHHHhc
Confidence            578999999999999999999983   222233566655443222221111  111111112233344444555555542


Q ss_pred             CcEEEEEecC
Q 038454          211 KKFVLILDDI  220 (359)
Q Consensus       211 k~~LlVlDdv  220 (359)
                      +..++++|++
T Consensus        78 ~~~viiiDei   87 (148)
T smart00382       78 KPDVLILDEI   87 (148)
T ss_pred             CCCEEEEECC
Confidence            3499999998

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.

>CHL00181 cbbX CbbX; Provisional

Probab=97.96  E-value=0.00017  Score=65.75  Aligned_cols=46  Identities=22%  Similarity=0.273  Sum_probs=31.2

Q ss_pred             cccccch-HHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENT-KKIVKKVWEDLMG------------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~-~~~~~~l~~~l~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|-+. ++.+.++..++.-            +....+.++|++|+||||+|+.+++.
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~   82 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADI   82 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            4677655 4444455444321            12235889999999999999999876

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.95  E-value=0.00032  Score=65.05  Aligned_cols=57  Identities=16%  Similarity=0.194  Sum_probs=39.9

Q ss_pred             eEEEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          224 TFCWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       224 ~ilvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                      .+|++|.         ...|..+.+.+++.+++.+.+......       ...+.+..++..++|.|+....+
T Consensus       138 ~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~-------~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        138 VLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE-------SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             EEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc-------CChHHHHHHHHHcCCCHHHHHHH
Confidence            5566665         345678999999999999988765311       12345567889999999765444

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

Probab=97.95  E-value=0.00055  Score=62.53  Aligned_cols=154  Identities=16%  Similarity=0.226  Sum_probs=86.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      .++=|.+||++|.|||-||++|+++   ....|     +.+..+        ++.+..-      .....+.+.+.+.-+
T Consensus       184 PPKGVLLYGPPGTGKTLLAkAVA~~---T~AtF-----IrvvgS--------ElVqKYi------GEGaRlVRelF~lAr  241 (406)
T COG1222         184 PPKGVLLYGPPGTGKTLLAKAVANQ---TDATF-----IRVVGS--------ELVQKYI------GEGARLVRELFELAR  241 (406)
T ss_pred             CCCceEeeCCCCCcHHHHHHHHHhc---cCceE-----EEeccH--------HHHHHHh------ccchHHHHHHHHHHh
Confidence            5677999999999999999999999   33333     333321        1111111      122334455555555


Q ss_pred             cCCcEEEEEecC---------------------------------CCC--eEEEeec----------ccce--eeeecCC
Q 038454          209 AKKKFVLILDDI---------------------------------DNH--TFCWGLR----------SMGC--EEVRVPP  241 (359)
Q Consensus       209 ~~k~~LlVlDdv---------------------------------~~g--~ilvTtr----------~~~~--~~~~l~~  241 (359)
                      .+.+.+|.+|.+                                 ..|  |||..|.          +.|-  ..++++.
T Consensus       242 ekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfpl  321 (406)
T COG1222         242 EKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPL  321 (406)
T ss_pred             hcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChhhcCCCcccceeecCC
Confidence            556777777777                                 233  8888776          2222  3577775


Q ss_pred             CChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch----hHHHHHHHhh--cCC---CChhHHHHHHHHHh
Q 038454          242 LSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ----LAIFTVVGCM--RGV---DEIHEWRNALNELR  308 (359)
Q Consensus       242 L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P----lai~~~~~~L--~~~---~~~~~w~~~l~~~~  308 (359)
                      -+.+.-.++|.-++..-.....-++    +.+++.|.|.-    .|+.+=|+++  +..   -+.+.+..+.++..
T Consensus       322 Pd~~gR~~Il~IHtrkM~l~~dvd~----e~la~~~~g~sGAdlkaictEAGm~AiR~~R~~Vt~~DF~~Av~KV~  393 (406)
T COG1222         322 PDEEGRAEILKIHTRKMNLADDVDL----ELLARLTEGFSGADLKAICTEAGMFAIRERRDEVTMEDFLKAVEKVV  393 (406)
T ss_pred             CCHHHHHHHHHHHhhhccCccCcCH----HHHHHhcCCCchHHHHHHHHHHhHHHHHhccCeecHHHHHHHHHHHH
Confidence            5555555667666533332233333    34555565554    4455555554  222   44566666666654

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.92  E-value=0.00067  Score=59.33  Aligned_cols=51  Identities=22%  Similarity=0.341  Sum_probs=38.1

Q ss_pred             ccCCcccccccchHHHHHHHHH----HhcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          102 LILPTTTLVGENTKKIVKKVWE----DLMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       102 ~~~~~~~~vGr~~~~~~~~l~~----~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+.+.+.++|.+.  .++.|++    ++......-+.+||..|+|||+|++++.+.+
T Consensus        22 ~~~~l~~L~Gie~--Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   22 DPIRLDDLIGIER--QKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             CCCCHHHhcCHHH--HHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            3445578999876  4444443    4445566779999999999999999999884

>PRK08116 hypothetical protein; Validated

Probab=97.92  E-value=5.1e-05  Score=68.41  Aligned_cols=73  Identities=32%  Similarity=0.388  Sum_probs=44.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAK  210 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  210 (359)
                      ..+.++|.+|+|||.||.++++.+  ... -..+++++      ..+++..+........  ..+    ...+.+.+.. 
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l--~~~-~~~v~~~~------~~~ll~~i~~~~~~~~--~~~----~~~~~~~l~~-  178 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANEL--IEK-GVPVIFVN------FPQLLNRIKSTYKSSG--KED----ENEIIRSLVN-  178 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH--HHc-CCeEEEEE------HHHHHHHHHHHHhccc--ccc----HHHHHHHhcC-
Confidence            458999999999999999999984  222 23356664      4445555554443221  111    2223344443 


Q ss_pred             CcEEEEEecC
Q 038454          211 KKFVLILDDI  220 (359)
Q Consensus       211 k~~LlVlDdv  220 (359)
                      - =||||||+
T Consensus       179 ~-dlLviDDl  187 (268)
T PRK08116        179 A-DLLILDDL  187 (268)
T ss_pred             C-CEEEEecc
Confidence            3 38999998

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

Probab=97.90  E-value=0.00012  Score=69.55  Aligned_cols=25  Identities=20%  Similarity=0.376  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++-+.++|++|+|||+||+.+++.
T Consensus       178 ~pkgvLL~GppGTGKT~LAkalA~~  202 (398)
T PTZ00454        178 PPRGVLLYGPPGTGKTMLAKAVAHH  202 (398)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHh
Confidence            4577999999999999999999998

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.89  E-value=0.00014  Score=70.93  Aligned_cols=26  Identities=27%  Similarity=0.386  Sum_probs=23.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .++-+.++|++|+|||++|+.+++.+
T Consensus       215 ~p~GILLyGPPGTGKT~LAKAlA~eL  240 (512)
T TIGR03689       215 PPKGVLLYGPPGCGKTLIAKAVANSL  240 (512)
T ss_pred             CCcceEEECCCCCcHHHHHHHHHHhh
Confidence            35669999999999999999999983

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.

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

Probab=97.88  E-value=0.00056  Score=64.52  Aligned_cols=178  Identities=17%  Similarity=0.237  Sum_probs=99.0

Q ss_pred             cccccchHHHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc--cEEEEEeCCCcCHHHHHHHHH
Q 038454          108 TLVGENTKKIVKKVWEDLMGD--KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS--DVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~--~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      -++|-...........+-...  ....+.|+|..|.|||.|++++.+..   .....  .+++++      .+.....++
T Consensus        89 Fv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~---~~~~~~a~v~y~~------se~f~~~~v  159 (408)
T COG0593          89 FVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEA---LANGPNARVVYLT------SEDFTNDFV  159 (408)
T ss_pred             eeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHH---HhhCCCceEEecc------HHHHHHHHH
Confidence            345544333333333344333  36789999999999999999999983   33333  244432      333444444


Q ss_pred             HHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeec-----------
Q 038454          184 MALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLR-----------  230 (359)
Q Consensus       184 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr-----------  230 (359)
                      ..+..         .....+++.. .  -=++++||+                     ..| .|++|++           
T Consensus       160 ~a~~~---------~~~~~Fk~~y-~--~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~  227 (408)
T COG0593         160 KALRD---------NEMEKFKEKY-S--LDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLED  227 (408)
T ss_pred             HHHHh---------hhHHHHHHhh-c--cCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccH
Confidence            43332         1233344443 2  237778888                     556 8888887           


Q ss_pred             ----ccc-eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCC----chhHHHHHHHh---hcCCCChh
Q 038454          231 ----SMG-CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAG----LQLAIFTVVGC---MRGVDEIH  298 (359)
Q Consensus       231 ----~~~-~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g----~Plai~~~~~~---L~~~~~~~  298 (359)
                          +.. +-.+++.+.+.+....++.+.+...+...++   ++..-|++....    +.-|+..+..+   ....-+.+
T Consensus       228 rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~---ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~  304 (408)
T COG0593         228 RLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPD---EVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITID  304 (408)
T ss_pred             HHHHHHhceeEEeeCCCCHHHHHHHHHHHHHhcCCCCCH---HHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHH
Confidence                111 2468999999999999999977544433332   333334433332    23333222222   11124556


Q ss_pred             HHHHHHHHHhh
Q 038454          299 EWRNALNELRG  309 (359)
Q Consensus       299 ~w~~~l~~~~~  309 (359)
                      .-..++..+..
T Consensus       305 ~v~e~L~~~~~  315 (408)
T COG0593         305 LVKEILKDLLR  315 (408)
T ss_pred             HHHHHHHHhhc
Confidence            66666666554

>PRK08118 topology modulation protein; Reviewed

Probab=97.86  E-value=8.7e-06  Score=68.01  Aligned_cols=36  Identities=25%  Similarity=0.566  Sum_probs=28.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEE
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIW  166 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~w  166 (359)
                      +.|.|+|++|+||||||+.+++.+.-..-+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            358999999999999999999984323356777775

>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=97.85  E-value=0.0038  Score=58.91  Aligned_cols=175  Identities=15%  Similarity=0.185  Sum_probs=113.0

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHH-HHHHcCcccccCCCccEEEEEeCC---CcCHHHHHHHHHHHhcCCC-
Q 038454          116 KIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIM-RHINNRPQEETNEFSDVIWVTVSQ---PLDLVKLQAEIAMALKLSL-  190 (359)
Q Consensus       116 ~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~~~wv~~~~---~~~~~~~~~~i~~~l~~~~-  190 (359)
                      +.+++|..||....-..|.|.|+-|+||+.|+ .++.++ .+      .++.+++.+   ..+-..++..++.++|.-+ 
T Consensus         3 e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~-r~------~vL~IDC~~i~~ar~D~~~I~~lA~qvGY~Pv   75 (431)
T PF10443_consen    3 EAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKD-RK------NVLVIDCDQIVKARGDAAFIKNLASQVGYFPV   75 (431)
T ss_pred             hHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhC-CC------CEEEEEChHhhhccChHHHHHHHHHhcCCCcc
Confidence            36889999999988889999999999999999 777666 22      155555432   2334455555555544210 


Q ss_pred             -----------------------CCCccHHHHHHHHHHH----Hh-----------------------c--CCcEEEEEe
Q 038454          191 -----------------------TEDEDKVSRARRLLGK----LK-----------------------A--KKKFVLILD  218 (359)
Q Consensus       191 -----------------------~~~~~~~~~~~~l~~~----l~-----------------------~--~k~~LlVlD  218 (359)
                                             .-..+.+..+..+...    |+                       .  .++=++|+|
T Consensus        76 Fsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVVId  155 (431)
T PF10443_consen   76 FSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVVID  155 (431)
T ss_pred             hHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEEEc
Confidence                                   0012333333222211    11                       0  135689999


Q ss_pred             cC----------------------CCC--eEEEeec----------c---cceeeeecCCCChHHHHHHHHHhhcCCCCC
Q 038454          219 DI----------------------DNH--TFCWGLR----------S---MGCEEVRVPPLSKEEALNLFLDKVGRNILH  261 (359)
Q Consensus       219 dv----------------------~~g--~ilvTtr----------~---~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~  261 (359)
                      |+                      .++  +||+.|-          .   .-...+.|...+.+.|.++...........
T Consensus       156 nF~~k~~~~~~iy~~laeWAa~Lv~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~~~~~  235 (431)
T PF10443_consen  156 NFLHKAEENDFIYDKLAEWAASLVQNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDEDTED  235 (431)
T ss_pred             chhccCcccchHHHHHHHHHHHHHhcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhcccccc
Confidence            99                      333  7877775          1   122568999999999999999887443110


Q ss_pred             ------------CC-----CchHHHHHHHHHHcCCchhHHHHHHHhhcCCCCh
Q 038454          262 ------------VP-----TLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEI  297 (359)
Q Consensus       262 ------------~~-----~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~~~~  297 (359)
                                  .+     ..........+..+||=-.=+..+++.++...++
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p  288 (431)
T PF10443_consen  236 SSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESP  288 (431)
T ss_pred             cccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCH
Confidence                        00     1345566778899999999999999999886554

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 [].

>PRK12377 putative replication protein; Provisional

Probab=97.84  E-value=3.1e-05  Score=68.72  Aligned_cols=72  Identities=28%  Similarity=0.316  Sum_probs=44.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA  209 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  209 (359)
                      ...+.++|.+|+|||.||.++++.+   ......++++++.      +++..+-.....    .....    .+.+.+. 
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l---~~~g~~v~~i~~~------~l~~~l~~~~~~----~~~~~----~~l~~l~-  162 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRL---LAKGRSVIVVTVP------DVMSRLHESYDN----GQSGE----KFLQELC-  162 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH---HHcCCCeEEEEHH------HHHHHHHHHHhc----cchHH----HHHHHhc-
Confidence            4679999999999999999999984   2222335666543      444444433321    11111    2333332 


Q ss_pred             CCcEEEEEecC
Q 038454          210 KKKFVLILDDI  220 (359)
Q Consensus       210 ~k~~LlVlDdv  220 (359)
                       +--||||||+
T Consensus       163 -~~dLLiIDDl  172 (248)
T PRK12377        163 -KVDLLVLDEI  172 (248)
T ss_pred             -CCCEEEEcCC
Confidence             6779999998

>PRK08181 transposase; Validated

Probab=97.84  E-value=0.00042  Score=62.30  Aligned_cols=76  Identities=25%  Similarity=0.305  Sum_probs=45.5

Q ss_pred             HHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHH
Q 038454          123 EDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARR  202 (359)
Q Consensus       123 ~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  202 (359)
                      +|+...  ..+.++|++|+|||.||..+.+..  ....+ .+.|++      ..+++..+.....     ..+...    
T Consensus       101 ~~~~~~--~nlll~Gp~GtGKTHLa~Aia~~a--~~~g~-~v~f~~------~~~L~~~l~~a~~-----~~~~~~----  160 (269)
T PRK08181        101 SWLAKG--ANLLLFGPPGGGKSHLAAAIGLAL--IENGW-RVLFTR------TTDLVQKLQVARR-----ELQLES----  160 (269)
T ss_pred             HHHhcC--ceEEEEecCCCcHHHHHHHHHHHH--HHcCC-ceeeee------HHHHHHHHHHHHh-----CCcHHH----
Confidence            465533  569999999999999999999873  22222 355554      3445555533221     112222    


Q ss_pred             HHHHHhcCCcEEEEEecC
Q 038454          203 LLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       203 l~~~l~~~k~~LlVlDdv  220 (359)
                      ..+.+.  +.-||||||+
T Consensus       161 ~l~~l~--~~dLLIIDDl  176 (269)
T PRK08181        161 AIAKLD--KFDLLILDDL  176 (269)
T ss_pred             HHHHHh--cCCEEEEecc
Confidence            223332  4569999998

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

Probab=97.81  E-value=0.0016  Score=57.87  Aligned_cols=93  Identities=14%  Similarity=0.013  Sum_probs=55.4

Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhcC------C--CChhHHHHHHHHH
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRG------V--DEIHEWRNALNEL  307 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~------~--~~~~~w~~~l~~~  307 (359)
                      ..+++--+.+|-.+...+.+..-+.   .-..+.+.+|++...|-|--..-+-+..+.      .  -+..--..+++.+
T Consensus       175 ~~rlefY~~~eL~~Iv~r~a~~l~i---~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~V~~~~~I~~~ia~~aL~~L  251 (332)
T COG2255         175 IQRLEFYTVEELEEIVKRSAKILGI---EIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVKGDGDIDRDIADKALKML  251 (332)
T ss_pred             eeeeecCCHHHHHHHHHHHHHHhCC---CCChHHHHHHHHhccCCcHHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHh
Confidence            4578888889999988887733222   223577899999999999766655555432      1  2233334455554


Q ss_pred             hhcccccCCChhhHhhHHHHhhhc
Q 038454          308 RGLVRSFSGINADVLGRLEFSYLR  331 (359)
Q Consensus       308 ~~~~~~~~~~~~~~~~~l~~sy~~  331 (359)
                      .-....+...+..+..++.-.|+.
T Consensus       252 ~Vd~~GLd~~D~k~L~~li~~f~G  275 (332)
T COG2255         252 DVDELGLDEIDRKYLRALIEQFGG  275 (332)
T ss_pred             CcccccccHHHHHHHHHHHHHhCC
Confidence            433333444444555555555543

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=97.81  E-value=0.00037  Score=59.90  Aligned_cols=47  Identities=17%  Similarity=0.207  Sum_probs=40.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      -..+||-+.  .++.+.-...+++.+-+.|.||+|+||||-+..+++.+
T Consensus        26 l~dIVGNe~--tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~L   72 (333)
T KOG0991|consen   26 LQDIVGNED--TVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLAREL   72 (333)
T ss_pred             HHHhhCCHH--HHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHH
Confidence            357899865  78787777788999999999999999999999998873

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.80  E-value=0.00068  Score=62.81  Aligned_cols=36  Identities=25%  Similarity=0.279  Sum_probs=27.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV  169 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  169 (359)
                      ..+.++|.+|+|||.||..+++.+  ....+ .++|+++
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l--~~~g~-~V~y~t~  219 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL--LDRGK-SVIYRTA  219 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH--HHCCC-eEEEEEH
Confidence            779999999999999999999984  22333 3566654

>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=97.80  E-value=5.2e-05  Score=66.51  Aligned_cols=36  Identities=19%  Similarity=0.392  Sum_probs=30.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV  169 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  169 (359)
                      -.++|+|.+|+|||||+..+...   ....|+++++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~---~~~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYY---LRHKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHh---hcccCCEEEEEec
Confidence            46889999999999999999887   5678887777654

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

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.79  E-value=0.0017  Score=59.85  Aligned_cols=156  Identities=15%  Similarity=0.143  Sum_probs=86.8

Q ss_pred             HHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCcc-----EEEEEeCCCcCHHHHHHHHHHHhcCCC
Q 038454          117 IVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSD-----VIWVTVSQPLDLVKLQAEIAMALKLSL  190 (359)
Q Consensus       117 ~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-----~~wv~~~~~~~~~~~~~~i~~~l~~~~  190 (359)
                      ..+.+...+..+++ ..+.++|+.|+||+++|..+++.+. -.+...+     +-|+..+..+|+..+.      .....
T Consensus        12 ~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~Ll-C~~~~~~~~c~~c~~~~~g~HPD~~~i~------~~p~~   84 (319)
T PRK08769         12 AYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVL-ASGPDPAAAQRTRQLIAAGTHPDLQLVS------FIPNR   84 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHh-CCCCCCCCcchHHHHHhcCCCCCEEEEe------cCCCc
Confidence            56677777777664 4699999999999999999887631 0110100     0011001111100000      00000


Q ss_pred             CC----CccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eEEEeec---------ccce
Q 038454          191 TE----DEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TFCWGLR---------SMGC  234 (359)
Q Consensus       191 ~~----~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~  234 (359)
                      ..    ..-..+.++.+.+.+..    +++-++|+|++                  ..+ .+|++|.         ...|
T Consensus        85 ~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRC  164 (319)
T PRK08769         85 TGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRC  164 (319)
T ss_pred             ccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhh
Confidence            00    00112233334433321    25668889998                  233 5555555         3456


Q ss_pred             eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          235 EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       235 ~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      ..+.+.+++.+++.+.+...  +    .+   ...+..++..++|.|+....+.
T Consensus       165 q~i~~~~~~~~~~~~~L~~~--~----~~---~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        165 QRLEFKLPPAHEALAWLLAQ--G----VS---ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             eEeeCCCcCHHHHHHHHHHc--C----CC---hHHHHHHHHHcCCCHHHHHHHh
Confidence            78999999999999888753  1    11   2336678999999998765443

>CHL00176 ftsH cell division protein; Validated

Probab=97.79  E-value=0.00063  Score=68.49  Aligned_cols=47  Identities=21%  Similarity=0.204  Sum_probs=36.7

Q ss_pred             ccccccch-HHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENT-KKIVKKVWEDLMGD---------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.|.+. ++++.+++.++.+.         .++-|.++|++|+|||+||+.+++.
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e  239 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE  239 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46788766 55667777776543         2456999999999999999999987

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.79  E-value=0.00078  Score=66.37  Aligned_cols=47  Identities=17%  Similarity=0.230  Sum_probs=34.2

Q ss_pred             ccccccch-HHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENT-KKIVKKVWEDLMG---------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+. ++.+.+++.++.+         ..++-+.++|++|+|||+||+.+++.
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~  111 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE  111 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence            46778765 4445556655543         23456899999999999999999987

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.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.78  E-value=5e-05  Score=60.34  Aligned_cols=21  Identities=33%  Similarity=0.444  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|+|++|+|||++|+.+++.
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            679999999999999999998

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 ....

>PRK07261 topology modulation protein; Provisional

Probab=97.77  E-value=9.5e-05  Score=62.03  Aligned_cols=35  Identities=20%  Similarity=0.393  Sum_probs=25.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEE
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIW  166 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~w  166 (359)
                      .|.|+|++|+||||||+.+...+.-..-+.|...|
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~   36 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHF   36 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence            48999999999999999998763111223455555

>PRK06526 transposase; Provisional

Probab=97.76  E-value=0.00033  Score=62.53  Aligned_cols=24  Identities=25%  Similarity=0.281  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+.++|++|+|||+||..+.+.
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~  121 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIR  121 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHH
Confidence            456999999999999999999887

>PHA00729 NTP-binding motif containing protein

Probab=97.72  E-value=0.00017  Score=62.57  Aligned_cols=34  Identities=18%  Similarity=0.261  Sum_probs=28.1

Q ss_pred             HHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          120 KVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       120 ~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++..+..++...|.|+|.+|+||||||..+.+.
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            4455556666678999999999999999999987

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.71  E-value=0.00023  Score=66.26  Aligned_cols=102  Identities=13%  Similarity=0.138  Sum_probs=65.2

Q ss_pred             HHHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCcc-EEEEEeCCC-cCHHHHHHHHHHHhcCCCCCC
Q 038454          117 IVKKVWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSD-VIWVTVSQP-LDLVKLQAEIAMALKLSLTED  193 (359)
Q Consensus       117 ~~~~l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~  193 (359)
                      ...++++.+.. +.-.-+.|+|.+|+|||||++.+++.+  ..++-+. ++|+-+.+. .++.++.+.+...+.....+.
T Consensus       119 ~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i--~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de  196 (380)
T PRK12608        119 LSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAV--AANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDR  196 (380)
T ss_pred             hhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHH--HhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCC
Confidence            33456666653 333567999999999999999999873  2223344 467666654 578889888888777643222


Q ss_pred             ccHH-----HHHHHHHHHH-hcCCcEEEEEecC
Q 038454          194 EDKV-----SRARRLLGKL-KAKKKFVLILDDI  220 (359)
Q Consensus       194 ~~~~-----~~~~~l~~~l-~~~k~~LlVlDdv  220 (359)
                      ....     .......+++ ..+++++||+|++
T Consensus       197 ~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsl  229 (380)
T PRK12608        197 PPDEHIRVAELVLERAKRLVEQGKDVVILLDSL  229 (380)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence            2111     1222233333 2369999999999

>TIGR00763 lon ATP-dependent protease La

Probab=97.70  E-value=0.0029  Score=65.80  Aligned_cols=46  Identities=22%  Similarity=0.260  Sum_probs=34.3

Q ss_pred             cccccccchHHHHHHHHHHhc------CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLM------GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~------~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .++.+.+++.      ....+++.++|++|+|||++|+.+++.
T Consensus       319 ~~~~~G~~~--~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~  370 (775)
T TIGR00763       319 DEDHYGLKK--VKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA  370 (775)
T ss_pred             hhhcCChHH--HHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            345778765  6666665442      123458999999999999999999988

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.70  E-value=0.00016  Score=62.70  Aligned_cols=86  Identities=13%  Similarity=0.184  Sum_probs=53.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh-c-------C-CCCCCccHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL-K-------L-SLTEDEDKVSRA  200 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l-~-------~-~~~~~~~~~~~~  200 (359)
                      -.++.|+|.+|+|||+++.+++...   ...-..++|++... ++...+.+. +... .       . ......+.....
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~---~~~g~~v~yi~~e~-~~~~rl~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~~   86 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNA---ARQGKKVVYIDTEG-LSPERFKQI-AEDRPERALSNFIVFEVFDFDEQGVAI   86 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEEECCC-CCHHHHHHH-HHhChHHHhcCEEEEECCCHHHHHHHH
Confidence            4789999999999999999998772   22335688998865 665555443 2221 0       0 111111223335


Q ss_pred             HHHHHHHhcCCcEEEEEecC
Q 038454          201 RRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       201 ~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ..+.+.+...+.-+||+|.+
T Consensus        87 ~~l~~~~~~~~~~lvVIDSi  106 (209)
T TIGR02237        87 QKTSKFIDRDSASLVVVDSF  106 (209)
T ss_pred             HHHHHHHhhcCccEEEEeCc
Confidence            55555555435668999997

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.67  E-value=0.0013  Score=61.22  Aligned_cols=44  Identities=18%  Similarity=0.232  Sum_probs=33.8

Q ss_pred             cccc-cchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVG-ENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vG-r~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++| .+  ..++.|...+..+++ ....++|+.|+||||+|..+++.
T Consensus         6 ~i~~~q~--~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~   51 (329)
T PRK08058          6 QLTALQP--VVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKS   51 (329)
T ss_pred             HHHhhHH--HHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            3556 43  366777777776654 56799999999999999999876

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.66  E-value=0.00022  Score=60.12  Aligned_cols=71  Identities=34%  Similarity=0.458  Sum_probs=41.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA  209 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  209 (359)
                      ..-+.++|.+|+|||.||..+.+..  ....+. +.|++      ..+++..+    ..... .....    .+.+.+. 
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~--~~~g~~-v~f~~------~~~L~~~l----~~~~~-~~~~~----~~~~~l~-  107 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEA--IRKGYS-VLFIT------ASDLLDEL----KQSRS-DGSYE----ELLKRLK-  107 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHH--HHTT---EEEEE------HHHHHHHH----HCCHC-CTTHC----HHHHHHH-
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHh--ccCCcc-eeEee------cCceeccc----ccccc-ccchh----hhcCccc-
Confidence            4679999999999999999999873  223333 56664      33444443    32211 11222    2233343 


Q ss_pred             CCcEEEEEecC
Q 038454          210 KKKFVLILDDI  220 (359)
Q Consensus       210 ~k~~LlVlDdv  220 (359)
                       +-=||||||+
T Consensus       108 -~~dlLilDDl  117 (178)
T PF01695_consen  108 -RVDLLILDDL  117 (178)
T ss_dssp             -TSSCEEEETC
T ss_pred             -cccEeccccc
Confidence             4568889999

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.

>PRK09183 transposase/IS protein; Provisional

Probab=97.64  E-value=0.001  Score=59.73  Aligned_cols=24  Identities=25%  Similarity=0.338  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+.|+|++|+|||+||..+++.
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHH
Confidence            356889999999999999999876

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.62  E-value=0.00042  Score=69.40  Aligned_cols=46  Identities=15%  Similarity=0.190  Sum_probs=37.0

Q ss_pred             cccccccchHHHHHHHHHHhcCC-----CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGD-----KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~-----~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .+.++..|+...     ..+++.|+|++|+||||+++.++..
T Consensus        83 ldel~~~~~--ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        83 QHELAVHKK--KIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             HHHhcCcHH--HHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            457888855  777888888643     3357999999999999999999987

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.61  E-value=0.00055  Score=60.61  Aligned_cols=86  Identities=17%  Similarity=0.245  Sum_probs=49.0

Q ss_pred             HHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCc
Q 038454          117 IVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDE  194 (359)
Q Consensus       117 ~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~  194 (359)
                      .+..+..+..+  .+...+.++|.+|+|||+||.++++.+.  .. -..+++++      ..+++..+-.....   ...
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~--~~-g~~v~~it------~~~l~~~l~~~~~~---~~~  151 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELL--LR-GKSVLIIT------VADIMSAMKDTFSN---SET  151 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHH--hc-CCeEEEEE------HHHHHHHHHHHHhh---ccc
Confidence            34444444432  2345789999999999999999999842  22 22355553      34454444433321   111


Q ss_pred             cHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          195 DKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       195 ~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      +..    .+.+.+.  +.=||||||+
T Consensus       152 ~~~----~~l~~l~--~~dlLvIDDi  171 (244)
T PRK07952        152 SEE----QLLNDLS--NVDLLVIDEI  171 (244)
T ss_pred             cHH----HHHHHhc--cCCEEEEeCC
Confidence            222    2333343  3558888998

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.56  E-value=0.0033  Score=56.54  Aligned_cols=56  Identities=18%  Similarity=0.313  Sum_probs=37.3

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHH
Q 038454          116 KIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQ  179 (359)
Q Consensus       116 ~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~  179 (359)
                      +..+.+..++..+  ..|.+.|++|+|||+||+.+++.   ...   ...+++.....+..+++
T Consensus         9 ~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~---lg~---~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640         9 RVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARK---RDR---PVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHH---hCC---CEEEEeCCccCCHHHHh
Confidence            3556666666665  45679999999999999999876   222   24455555554544443

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).

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

Probab=97.56  E-value=0.0015  Score=57.21  Aligned_cols=47  Identities=21%  Similarity=0.381  Sum_probs=35.8

Q ss_pred             ccccccch-HHHHHHHHHHhcCC------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENT-KKIVKKVWEDLMGD------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~~------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.++|.+. ++.-.-|+..|.+.      -++.|..+|++|.|||.+|+++++.
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane  174 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANE  174 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcc
Confidence            46788765 22223455666664      4789999999999999999999998

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.56  E-value=0.00036  Score=61.59  Aligned_cols=89  Identities=16%  Similarity=0.214  Sum_probs=55.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCC----CccEEEEEeCCCcCHHHHHHHHHHHhcCCC------------CCC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNE----FSDVIWVTVSQPLDLVKLQAEIAMALKLSL------------TED  193 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------------~~~  193 (359)
                      -.++.|+|.+|+|||+||.+++... .....    -..++|++....++..++. +++...+...            ...
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~   96 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAYNS   96 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecCCH
Confidence            4689999999999999999997541 11111    2568999988777665443 3333333211            111


Q ss_pred             ccHHHHHHHHHHHHhcC-CcEEEEEecC
Q 038454          194 EDKVSRARRLLGKLKAK-KKFVLILDDI  220 (359)
Q Consensus       194 ~~~~~~~~~l~~~l~~~-k~~LlVlDdv  220 (359)
                      .+.......+.+.+... +.-|+|+|.+
T Consensus        97 ~~l~~~l~~l~~~l~~~~~~~liVIDSi  124 (235)
T cd01123          97 DHQLQLLEELEAILIESSRIKLVIVDSV  124 (235)
T ss_pred             HHHHHHHHHHHHHHhhcCCeeEEEEeCc
Confidence            12233445555666554 6779999997

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 .

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

Probab=97.55  E-value=0.015  Score=58.04  Aligned_cols=46  Identities=22%  Similarity=0.255  Sum_probs=35.8

Q ss_pred             cccccccchHHHHHHHHHHhc------CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLM------GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~------~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+-+|-+.  .+++|++.|.      .-.-++++++|++|+|||+|++.+++-
T Consensus       322 d~dHYGLek--VKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~a  373 (782)
T COG0466         322 DKDHYGLEK--VKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKA  373 (782)
T ss_pred             cccccCchh--HHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHH
Confidence            345566655  7777877773      124479999999999999999999987

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

Probab=97.53  E-value=0.002  Score=65.02  Aligned_cols=154  Identities=15%  Similarity=0.160  Sum_probs=92.5

Q ss_pred             cccccccch-HHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMGD---------KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL  175 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  175 (359)
                      -.++.|-+. +.++++++..|.++         -++=+.++|++|+|||-||++++-. ..       +=|++++..   
T Consensus       310 FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGE-Ag-------VPF~svSGS---  378 (774)
T KOG0731|consen  310 FKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGE-AG-------VPFFSVSGS---  378 (774)
T ss_pred             cccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcc-cC-------CceeeechH---
Confidence            346777776 88899999999885         2556999999999999999999988 22       223444432   


Q ss_pred             HHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-----------------------------------
Q 038454          176 VKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-----------------------------------  220 (359)
Q Consensus       176 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------------------------------  220 (359)
                           ++.+.+...      .....+.+...-+.+.++++.+|++                                   
T Consensus       379 -----EFvE~~~g~------~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~  447 (774)
T KOG0731|consen  379 -----EFVEMFVGV------GASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFET  447 (774)
T ss_pred             -----HHHHHhccc------chHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcC
Confidence                 111111110      0223344444444445666666665                                   


Q ss_pred             CCC-eEEEeec----------ccce--eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          221 DNH-TFCWGLR----------SMGC--EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       221 ~~g-~ilvTtr----------~~~~--~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                      ..+ -++-+|+          +.|-  ..+.++.-+.....++|.-++..-..  ..+..+..+ |+...-|.+=|.
T Consensus       448 ~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~--~~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  448 SKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKL--DDEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             CCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCC--CcchhhHHH-HHhcCCCCcHHH
Confidence            223 3333444          1221  34677777778888888887644322  234455555 888888877554

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

Probab=97.52  E-value=0.00059  Score=59.85  Aligned_cols=87  Identities=11%  Similarity=0.158  Sum_probs=53.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCC------ccEEEEEeCCCcCHHHHHHHHHHHhcCCC---------CCCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEF------SDVIWVTVSQPLDLVKLQAEIAMALKLSL---------TEDE  194 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F------~~~~wv~~~~~~~~~~~~~~i~~~l~~~~---------~~~~  194 (359)
                      -.++.|+|.+|+|||+||.+++...   ...-      ..++|++....++...+. .+....+...         ....
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~---~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~   94 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEA---QLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARPY   94 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHh---hcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeCC
Confidence            4689999999999999999987662   1122      457899887777765543 3333322110         0112


Q ss_pred             cHHHHHHHHHHHHh---cCCcEEEEEecC
Q 038454          195 DKVSRARRLLGKLK---AKKKFVLILDDI  220 (359)
Q Consensus       195 ~~~~~~~~l~~~l~---~~k~~LlVlDdv  220 (359)
                      +.++....+.+...   ..+.-|+|+|.+
T Consensus        95 ~~~~~~~~l~~~~~~~~~~~~~lvVIDsi  123 (226)
T cd01393          95 NGEQQLEIVEELERIMSSGRVDLVVVDSV  123 (226)
T ss_pred             CHHHHHHHHHHHHHHhhcCCeeEEEEcCc
Confidence            34444444444433   335569999997

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.

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.52  E-value=0.0082  Score=55.47  Aligned_cols=151  Identities=11%  Similarity=0.129  Sum_probs=83.7

Q ss_pred             HHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcc--cccCCCcc-----EEEEEeCCCcCHHHHHHHHHHHhcC
Q 038454          117 IVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQ--EETNEFSD-----VIWVTVSQPLDLVKLQAEIAMALKL  188 (359)
Q Consensus       117 ~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~~F~~-----~~wv~~~~~~~~~~~~~~i~~~l~~  188 (359)
                      .-..+...+..+. ...+.++|+.|+||+++|..+++.+.  .....-.|     +-++..+..+|+..+        . 
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i--------~-   80 (325)
T PRK06871         10 TYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHIL--------E-   80 (325)
T ss_pred             HHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEE--------c-
Confidence            4456677776665 46788999999999999999987631  00000000     001111111111100        0 


Q ss_pred             CCCCCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eEEEeec---------ccceee
Q 038454          189 SLTEDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TFCWGLR---------SMGCEE  236 (359)
Q Consensus       189 ~~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~~  236 (359)
                      +.....-..+.++.+.+.+..    +++-++|+|++                  .++ .+|++|.         ...|..
T Consensus        81 p~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~  160 (325)
T PRK06871         81 PIDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQT  160 (325)
T ss_pred             cccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceE
Confidence            000001112233334333321    35667889998                  333 5555554         345678


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                      +.+.+++.+++.+.+......        ....+...+..++|.|+.+
T Consensus       161 ~~~~~~~~~~~~~~L~~~~~~--------~~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        161 WLIHPPEEQQALDWLQAQSSA--------EISEILTALRINYGRPLLA  200 (325)
T ss_pred             EeCCCCCHHHHHHHHHHHhcc--------ChHHHHHHHHHcCCCHHHH
Confidence            999999999999888875311        1123566788999999644

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

Probab=97.52  E-value=0.002  Score=61.84  Aligned_cols=47  Identities=21%  Similarity=0.268  Sum_probs=39.4

Q ss_pred             ccccccch-HHHHHHHHHHhcCCC---------ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENT-KKIVKKVWEDLMGDK---------VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~~~---------~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+-|-|+ +.++++++++|.++.         ++=|.++|++|.|||-||++++-.
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGE  360 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGE  360 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcc
Confidence            44566666 788999999998751         466999999999999999999988

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.50  E-value=0.0028  Score=59.50  Aligned_cols=87  Identities=18%  Similarity=0.174  Sum_probs=51.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      ..++.++|+.|+||||++..++..+ ........+..++... .....+.++...+.++.+.....+..+....+ ..+.
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~-~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l-~~l~  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARC-VMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLAL-AELR  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHH-HHhc
Confidence            4689999999999999999999872 1121223455665433 23455666666777776443222323332222 3343


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                        ++-++++|..
T Consensus       215 --~~DlVLIDTa  224 (374)
T PRK14722        215 --NKHMVLIDTI  224 (374)
T ss_pred             --CCCEEEEcCC
Confidence              3456668987

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

Probab=97.50  E-value=0.0024  Score=62.22  Aligned_cols=70  Identities=24%  Similarity=0.421  Sum_probs=43.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      .++=|.+||++|+|||.||++++++   ..-.|     +.++.+        +|.....     ..+ +..++.+.+.-.
T Consensus       222 PprGvLlHGPPGCGKT~lA~AiAge---l~vPf-----~~isAp--------eivSGvS-----GES-EkkiRelF~~A~  279 (802)
T KOG0733|consen  222 PPRGVLLHGPPGCGKTSLANAIAGE---LGVPF-----LSISAP--------EIVSGVS-----GES-EKKIRELFDQAK  279 (802)
T ss_pred             CCCceeeeCCCCccHHHHHHHHhhh---cCCce-----Eeecch--------hhhcccC-----ccc-HHHHHHHHHHHh
Confidence            3567999999999999999999998   22233     333332        1222221     122 334444444444


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      +..++++++|++
T Consensus       280 ~~aPcivFiDeI  291 (802)
T KOG0733|consen  280 SNAPCIVFIDEI  291 (802)
T ss_pred             ccCCeEEEeecc
Confidence            448999999998

>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=97.50  E-value=0.00063  Score=58.31  Aligned_cols=88  Identities=20%  Similarity=0.254  Sum_probs=56.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCC---CCccHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLT---EDEDKVSRARRLLG  205 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~---~~~~~~~~~~~l~~  205 (359)
                      +++|.++|+.|+||||.+..++..+ ..+  -..+..++... .....+.++..++.++.+..   ...+..+......+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~-~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~   77 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL-KLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALE   77 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH-HHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH-hhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHH
Confidence            4789999999999999988888873 222  33477777653 34567788888999987532   22345555544444


Q ss_pred             HHhcCCcEEEEEecC
Q 038454          206 KLKAKKKFVLILDDI  220 (359)
Q Consensus       206 ~l~~~k~~LlVlDdv  220 (359)
                      ....++.=++++|-.
T Consensus        78 ~~~~~~~D~vlIDT~   92 (196)
T PF00448_consen   78 KFRKKGYDLVLIDTA   92 (196)
T ss_dssp             HHHHTTSSEEEEEE-
T ss_pred             HHhhcCCCEEEEecC
Confidence            444423346667765

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 ....

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

Probab=97.50  E-value=0.00033  Score=70.89  Aligned_cols=133  Identities=19%  Similarity=0.244  Sum_probs=86.7

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-----cEEEEEeCCCcCHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-----DVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-----~~~wv~~~~~~~~~~~~~  180 (359)
                      -++++||+.  ++.++++.|....-.--.++|.+|+|||++|.-++.++  +.+.-+     ..++ +    .++.    
T Consensus       169 lDPvIGRd~--EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rI--v~g~VP~~L~~~~i~-s----LD~g----  235 (786)
T COG0542         169 LDPVIGRDE--EIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRI--VNGDVPESLKDKRIY-S----LDLG----  235 (786)
T ss_pred             CCCCcChHH--HHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHH--hcCCCCHHHcCCEEE-E----ecHH----
Confidence            467999977  99999999976544445688999999999999888874  333222     1111 0    0111    


Q ss_pred             HHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------------CCC--eEE-Eeec---
Q 038454          181 EIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------------DNH--TFC-WGLR---  230 (359)
Q Consensus       181 ~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------------~~g--~il-vTtr---  230 (359)
                          .+.....-..+.++.+..+.+.+...++++|++|.+                        ..|  ++| .||-   
T Consensus       236 ----~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~EY  311 (786)
T COG0542         236 ----SLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDEY  311 (786)
T ss_pred             ----HHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHHHH
Confidence                111111123466777777777777646999999998                        234  344 3443   


Q ss_pred             ----------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          231 ----------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       231 ----------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                                ....+++.+...+.+++..++....
T Consensus       312 Rk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         312 RKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence                      2234678999999999999887543

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.49  E-value=0.0063  Score=56.05  Aligned_cols=49  Identities=24%  Similarity=0.261  Sum_probs=35.3

Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                      ++++++++.+|+..++..+.-.+-.......+...+++.-..+|+|--+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            6799999999999999888744432122334556677777789999754

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).

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

Probab=97.49  E-value=0.0016  Score=58.81  Aligned_cols=80  Identities=9%  Similarity=0.165  Sum_probs=45.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCccccc--CCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEET--NEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      -++|.++|++|.|||+|+++++++ ..++  +.+....-+.++..        ++.+....+  ...-......++.+.+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQk-LSIR~~~~y~~~~liEinsh--------sLFSKWFsE--SgKlV~kmF~kI~ELv  245 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQK-LSIRTNDRYYKGQLIEINSH--------SLFSKWFSE--SGKLVAKMFQKIQELV  245 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHh-heeeecCccccceEEEEehh--------HHHHHHHhh--hhhHHHHHHHHHHHHH
Confidence            478999999999999999999999 3333  33433333333221        122222211  1233445556666666


Q ss_pred             hcCCc-EEEEEecC
Q 038454          208 KAKKK-FVLILDDI  220 (359)
Q Consensus       208 ~~~k~-~LlVlDdv  220 (359)
                      ...+. +++.+|.|
T Consensus       246 ~d~~~lVfvLIDEV  259 (423)
T KOG0744|consen  246 EDRGNLVFVLIDEV  259 (423)
T ss_pred             hCCCcEEEEEeHHH
Confidence            65233 34455888

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.48  E-value=0.00047  Score=63.32  Aligned_cols=72  Identities=24%  Similarity=0.303  Sum_probs=45.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      ..+-+.++|..|+|||.||.++++.+  ....+. +.|+++      ..++..+-.....     .+..    ...+.+.
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l--~~~g~~-v~~~~~------~~l~~~lk~~~~~-----~~~~----~~l~~l~  216 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANEL--AKKGVS-STLLHF------PEFIRELKNSISD-----GSVK----EKIDAVK  216 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHH--HHcCCC-EEEEEH------HHHHHHHHHHHhc-----CcHH----HHHHHhc
Confidence            34679999999999999999999994  233333 455544      3455555444431     1122    2222332


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                        +-=||||||+
T Consensus       217 --~~dlLiIDDi  226 (306)
T PRK08939        217 --EAPVLMLDDI  226 (306)
T ss_pred             --CCCEEEEecC
Confidence              5669999999

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.47  E-value=0.00047  Score=60.50  Aligned_cols=85  Identities=20%  Similarity=0.235  Sum_probs=51.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH--------hcCC-CCCCccHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA--------LKLS-LTEDEDKVSRA  200 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~--------l~~~-~~~~~~~~~~~  200 (359)
                      -.++.|+|.+|+|||++|.+++...   ...-..++|++.. .++...+. ++...        +... .....+.....
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~---~~~~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   97 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEA---AKNGKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNIIIFEPSSFEEQSEAI   97 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH---HHCCCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeEEEeCCCHHHHHHHH
Confidence            4689999999999999999998873   1223458899877 55554443 22222        1111 11111222333


Q ss_pred             HHHHHHHhcCCcEEEEEecC
Q 038454          201 RRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       201 ~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ..+...+.. +.-++|+|.+
T Consensus        98 ~~~~~~~~~-~~~lvVIDsi  116 (225)
T PRK09361         98 RKAEKLAKE-NVGLIVLDSA  116 (225)
T ss_pred             HHHHHHHHh-cccEEEEeCc
Confidence            444444444 6779999997

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

Probab=97.47  E-value=0.027  Score=53.31  Aligned_cols=164  Identities=12%  Similarity=0.098  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHhcCCC---------ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH
Q 038454          115 KKIVKKVWEDLMGDK---------VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       115 ~~~~~~l~~~l~~~~---------~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      ++.+++|.+++....         -|=-.++|+||.|||+++.++++.+     .|+ ++=+.++...+-.+ ++.++..
T Consensus       211 ~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L-----~yd-IydLeLt~v~~n~d-Lr~LL~~  283 (457)
T KOG0743|consen  211 ERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYL-----NYD-IYDLELTEVKLDSD-LRHLLLA  283 (457)
T ss_pred             HHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhc-----CCc-eEEeeeccccCcHH-HHHHHHh
Confidence            556677777776531         2447899999999999999999983     344 33334443333333 4555443


Q ss_pred             hcCCCC-CCccHHHHHHHHHHHHh--------cCCc-----EEEEEecC--CCC--eEE-Eeec----------ccce--
Q 038454          186 LKLSLT-EDEDKVSRARRLLGKLK--------AKKK-----FVLILDDI--DNH--TFC-WGLR----------SMGC--  234 (359)
Q Consensus       186 l~~~~~-~~~~~~~~~~~l~~~l~--------~~k~-----~LlVlDdv--~~g--~il-vTtr----------~~~~--  234 (359)
                      .....- -.+|.+..+ .+.....        ...+     .|=.+|.+  ..|  ||+ .||.          +.|.  
T Consensus       284 t~~kSIivIEDIDcs~-~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmD  362 (457)
T KOG0743|consen  284 TPNKSILLIEDIDCSF-DLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMD  362 (457)
T ss_pred             CCCCcEEEEeeccccc-ccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcce
Confidence            321100 000000000 0000000        0011     22245666  333  655 4665          2222  


Q ss_pred             eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhc
Q 038454          235 EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMR  292 (359)
Q Consensus       235 ~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~  292 (359)
                      ..+.++-=+.+.-..|+.++.....      ...+..+|.+...|.-+.=..++..|-
T Consensus       363 mhI~mgyCtf~~fK~La~nYL~~~~------~h~L~~eie~l~~~~~~tPA~V~e~lm  414 (457)
T KOG0743|consen  363 MHIYMGYCTFEAFKTLASNYLGIEE------DHRLFDEIERLIEETEVTPAQVAEELM  414 (457)
T ss_pred             eEEEcCCCCHHHHHHHHHHhcCCCC------CcchhHHHHHHhhcCccCHHHHHHHHh
Confidence            2478888888888899888865432      124455555555565554445555543

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.46  E-value=8.3e-05  Score=58.33  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|+|.|++|+||||+|+.+++.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999987

...

>PRK06921 hypothetical protein; Provisional

Probab=97.44  E-value=0.0009  Score=60.25  Aligned_cols=39  Identities=21%  Similarity=0.304  Sum_probs=28.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV  169 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  169 (359)
                      ....+.++|.+|+|||.||.++++.+  ....-..++|++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l--~~~~g~~v~y~~~  154 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANEL--MRKKGVPVLYFPF  154 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH--hhhcCceEEEEEH
Confidence            45679999999999999999999983  2221233566654

>TIGR02012 tigrfam_recA protein RecA

Probab=97.44  E-value=0.0004  Score=63.80  Aligned_cols=83  Identities=14%  Similarity=0.207  Sum_probs=54.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCC-----CCCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSL-----TEDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-----~~~~~~~~~~~~l~  204 (359)
                      -+++-|+|++|+||||||.+++...   ...-..++|++....++..     .+.+++.+.     .+..+.++....+.
T Consensus        55 G~iteI~G~~GsGKTtLaL~~~~~~---~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~  126 (321)
T TIGR02012        55 GRIIEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAE  126 (321)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            4789999999999999999988772   2222447788776655543     244444321     11234455555555


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ..++.+..-++|+|.+
T Consensus       127 ~li~~~~~~lIVIDSv  142 (321)
T TIGR02012       127 TLVRSGAVDIIVVDSV  142 (321)
T ss_pred             HHhhccCCcEEEEcch
Confidence            5555546779999998

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.43  E-value=0.00034  Score=58.88  Aligned_cols=36  Identities=31%  Similarity=0.474  Sum_probs=28.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEE
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWV  167 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  167 (359)
                      ...+|.+.|++|+||||+|+.+++.+   ...+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            45689999999999999999999883   3345555555

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.42  E-value=0.0029  Score=52.50  Aligned_cols=39  Identities=13%  Similarity=0.194  Sum_probs=31.2

Q ss_pred             HHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          116 KIVKKVWEDLMGDKVT-KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       116 ~~~~~l~~~l~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +..+.|...+.+++.+ .+.++|+.|+||+++|..+++.+
T Consensus         4 ~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~l   43 (162)
T PF13177_consen    4 EIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARAL   43 (162)
T ss_dssp             HHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHH
Confidence            3677788888777654 68999999999999999998763

...

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

Probab=97.42  E-value=0.0016  Score=64.50  Aligned_cols=128  Identities=16%  Similarity=0.157  Sum_probs=75.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC--cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP--LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      ..-|.|.|..|+|||+||+++++.+  .++..-++.+|+++.-  ..+..+++.+-                 ..+.+.+
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~--~k~~~~hv~~v~Cs~l~~~~~e~iQk~l~-----------------~vfse~~  491 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYY--SKDLIAHVEIVSCSTLDGSSLEKIQKFLN-----------------NVFSEAL  491 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHh--ccccceEEEEEechhccchhHHHHHHHHH-----------------HHHHHHH
Confidence            4579999999999999999999984  2455555667776542  22333333222                 2223344


Q ss_pred             hcCCcEEEEEecC---------------------------------CCC---eEEEeec----------ccc-e-eeeec
Q 038454          208 KAKKKFVLILDDI---------------------------------DNH---TFCWGLR----------SMG-C-EEVRV  239 (359)
Q Consensus       208 ~~~k~~LlVlDdv---------------------------------~~g---~ilvTtr----------~~~-~-~~~~l  239 (359)
                      .. .+.++||||+                                 ..+   .+|.|..          ... . ..+.+
T Consensus       492 ~~-~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L  570 (952)
T KOG0735|consen  492 WY-APSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIAL  570 (952)
T ss_pred             hh-CCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEec
Confidence            44 7888899988                                 223   3455554          111 1 24688


Q ss_pred             CCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCc
Q 038454          240 PPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGL  280 (359)
Q Consensus       240 ~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~  280 (359)
                      +++...+-.++++.......   .........-+..+|+|.
T Consensus       571 ~ap~~~~R~~IL~~~~s~~~---~~~~~~dLd~ls~~TEGy  608 (952)
T KOG0735|consen  571 PAPAVTRRKEILTTIFSKNL---SDITMDDLDFLSVKTEGY  608 (952)
T ss_pred             CCcchhHHHHHHHHHHHhhh---hhhhhHHHHHHHHhcCCc
Confidence            88888887777766542221   111122333377777774

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.41  E-value=0.007  Score=59.99  Aligned_cols=176  Identities=13%  Similarity=0.079  Sum_probs=107.2

Q ss_pred             ccccccchHHHHHHHHHHhc----C-CCccEEEEEcCCCCcHHHHHHHHHcCccc-----ccCCCccEEEEEeCCCcCHH
Q 038454          107 TTLVGENTKKIVKKVWEDLM----G-DKVTKIGVWGMGGFGKTAIMRHINNRPQE-----ETNEFSDVIWVTVSQPLDLV  176 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~----~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-----~~~~F~~~~wv~~~~~~~~~  176 (359)
                      ..+-+|+.  +..+|-.++.    . +.-+.+-|.|.+|+|||..+..|.+.+..     .-..|+ .+.|+.-.-..+.
T Consensus       396 ~sLpcRe~--E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~  472 (767)
T KOG1514|consen  396 ESLPCREN--EFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPR  472 (767)
T ss_pred             ccccchhH--HHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHH
Confidence            34556654  6666665553    3 33458999999999999999999886321     123343 4555655666799


Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh---c-CCcEEEEEecC-------------------CCC-eEEEeec--
Q 038454          177 KLQAEIAMALKLSLTEDEDKVSRARRLLGKLK---A-KKKFVLILDDI-------------------DNH-TFCWGLR--  230 (359)
Q Consensus       177 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~---~-~k~~LlVlDdv-------------------~~g-~ilvTtr--  230 (359)
                      ++...|..++.....   .....+..+..++.   . .+..++++|++                   .++ +++|-+=  
T Consensus       473 ~~Y~~I~~~lsg~~~---~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaN  549 (767)
T KOG1514|consen  473 EIYEKIWEALSGERV---TWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIAN  549 (767)
T ss_pred             HHHHHHHHhcccCcc---cHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecc
Confidence            999999999987533   23334444444443   1 36788999998                   344 5544332  


Q ss_pred             ---------------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          231 ---------------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       231 ---------------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                                     ..|...+.+.|-++++-.++......+.+.-.+...+-++++|+.-.|-.-.|+.+.-
T Consensus       550 TmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~  622 (767)
T KOG1514|consen  550 TMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICR  622 (767)
T ss_pred             cccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHH
Confidence                           2344557778888887777776665443332223334445555555555555544443

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

Probab=97.41  E-value=0.00042  Score=63.71  Aligned_cols=83  Identities=17%  Similarity=0.211  Sum_probs=54.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCC-----CCCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSL-----TEDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-----~~~~~~~~~~~~l~  204 (359)
                      -+++-|+|++|+||||||.+++...   ...-..++|++....++..     .+.+++.+.     ....+.++....+.
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~---~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~  126 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEA---QKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIAD  126 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH---HHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHH
Confidence            4689999999999999999988762   2223457899877766643     233443321     11234555555555


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ..++.+.--++|+|.+
T Consensus       127 ~li~s~~~~lIVIDSv  142 (325)
T cd00983         127 SLVRSGAVDLIVVDSV  142 (325)
T ss_pred             HHHhccCCCEEEEcch
Confidence            5555546779999998

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.40  E-value=0.006  Score=60.51  Aligned_cols=46  Identities=24%  Similarity=0.387  Sum_probs=37.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..++|.+.  .+..+...+......-+.|+|.+|+|||++|+.+++.
T Consensus        64 f~~iiGqs~--~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        64 FDEIIGQEE--GIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HHHeeCcHH--HHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            356899876  7777777776666667889999999999999999764

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.

>cd01394 radB RadB

Probab=97.37  E-value=0.00076  Score=58.87  Aligned_cols=85  Identities=19%  Similarity=0.111  Sum_probs=48.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH----hcCC--CCCCccHH---HHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA----LKLS--LTEDEDKV---SRA  200 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~----l~~~--~~~~~~~~---~~~  200 (359)
                      -.++.|+|.+|+||||+|.+++...   ...-..++|++....+.  +-+++++..    +...  .....+..   ...
T Consensus        19 g~i~~i~G~~GsGKT~l~~~~a~~~---~~~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (218)
T cd01394          19 GTVTQVYGPPGTGKTNIAIQLAVET---AGQGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGRAI   93 (218)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHHHH
Confidence            4789999999999999999998772   12223477887655443  223333322    1100  00111222   223


Q ss_pred             HHHHHHHhcCCcEEEEEecC
Q 038454          201 RRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       201 ~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ..+...+.. +.-++|+|.+
T Consensus        94 ~~~~~~~~~-~~~lvvIDsi  112 (218)
T cd01394          94 QETETFADE-KVDLVVVDSA  112 (218)
T ss_pred             HHHHHHHhc-CCcEEEEech
Confidence            344444444 4668999987

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

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.36  E-value=0.006  Score=63.15  Aligned_cols=24  Identities=21%  Similarity=0.378  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++-|.++|++|+|||+||+.+++.
T Consensus       487 ~~giLL~GppGtGKT~lakalA~e  510 (733)
T TIGR01243       487 PKGVLLFGPPGTGKTLLAKAVATE  510 (733)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHh
Confidence            456899999999999999999998

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.

>PRK09354 recA recombinase A; Provisional

Probab=97.36  E-value=0.0006  Score=63.23  Aligned_cols=83  Identities=13%  Similarity=0.194  Sum_probs=55.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCC-----CCCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSL-----TEDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-----~~~~~~~~~~~~l~  204 (359)
                      -+++-|+|++|+||||||.+++...   ...-..++|++.-..++..     .+++++.+.     ....+.++....+.
T Consensus        60 G~IteI~G~~GsGKTtLal~~~~~~---~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~  131 (349)
T PRK09354         60 GRIVEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIAD  131 (349)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            4689999999999999999988762   2223458899887776653     344444321     11234555555555


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ..++....-++|+|.+
T Consensus       132 ~li~s~~~~lIVIDSv  147 (349)
T PRK09354        132 TLVRSGAVDLIVVDSV  147 (349)
T ss_pred             HHhhcCCCCEEEEeCh
Confidence            5555556779999998

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.36  E-value=0.016  Score=60.05  Aligned_cols=46  Identities=24%  Similarity=0.242  Sum_probs=36.0

Q ss_pred             cccccccchHHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+|.+.  .++.++.++..      ....++.++|++|+||||+|+.++..
T Consensus       321 ~~~~~g~~~--vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~  372 (784)
T PRK10787        321 DTDHYGLER--VKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKA  372 (784)
T ss_pred             hhhccCHHH--HHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            456788755  77777776642      24568999999999999999999987

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.35  E-value=0.0014  Score=53.74  Aligned_cols=40  Identities=23%  Similarity=0.373  Sum_probs=29.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLD  174 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~  174 (359)
                      ++.|+|.+|+||||++..++...   ...-..++|++......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcchH
Confidence            47899999999999999998872   22234577887765543

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.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.34  E-value=0.0031  Score=57.25  Aligned_cols=145  Identities=21%  Similarity=0.231  Sum_probs=89.1

Q ss_pred             cccccccchHHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH-HHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL-VKLQA  180 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~-~~~~~  180 (359)
                      -.+++|-..  +-..+-.|+.    .++..-+.|+|+.|.|||+|......+.++..++|   +-|........ .-.++
T Consensus        23 ~~~l~g~~~--~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~---l~v~Lng~~~~dk~al~   97 (408)
T KOG2228|consen   23 HINLFGVQD--EQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENF---LLVRLNGELQTDKIALK   97 (408)
T ss_pred             CcceeehHH--HHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeE---EEEEECccchhhHHHHH
Confidence            456888755  4444444443    35667789999999999999887776633344444   33444433222 23455


Q ss_pred             HHHHHhcCC----CCCCccHHHHHHHHHHHHhc-----CCcEEEEEecC-----------------------CCC-eEEE
Q 038454          181 EIAMALKLS----LTEDEDKVSRARRLLGKLKA-----KKKFVLILDDI-----------------------DNH-TFCW  227 (359)
Q Consensus       181 ~i~~~l~~~----~~~~~~~~~~~~~l~~~l~~-----~k~~LlVlDdv-----------------------~~g-~ilv  227 (359)
                      .|.+|+...    .....+..+....+...|..     +.++++|+|.+                       .|- -|-+
T Consensus        98 ~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~  177 (408)
T KOG2228|consen   98 GITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGV  177 (408)
T ss_pred             HHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEe
Confidence            566655432    22223444455566666654     35688899888                       344 5567


Q ss_pred             eec-------------cccee-eeecCCCChHHHHHHHHHhh
Q 038454          228 GLR-------------SMGCE-EVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       228 Ttr-------------~~~~~-~~~l~~L~~~ea~~lf~~~~  255 (359)
                      |||             +.... .+-+++++.++-..++++..
T Consensus       178 Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  178 TTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             eccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            888             22222 46677888899999988876

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.33  E-value=0.019  Score=53.00  Aligned_cols=151  Identities=10%  Similarity=0.088  Sum_probs=82.1

Q ss_pred             HHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcccccCCC-cc-----EEEEEeCCCcCHHHHHHHHHHHhcCC
Q 038454          117 IVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQEETNEF-SD-----VIWVTVSQPLDLVKLQAEIAMALKLS  189 (359)
Q Consensus       117 ~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~-----~~wv~~~~~~~~~~~~~~i~~~l~~~  189 (359)
                      ....+...+..++ ...+.++|+.|+||+++|..+++.+.=..... .|     +-++..+..+|+..+        ...
T Consensus        11 ~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i--------~p~   82 (319)
T PRK06090         11 VWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVI--------KPE   82 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEE--------ecC
Confidence            4456666666665 45799999999999999999877631000000 00     000000111110000        000


Q ss_pred             C-CCCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eEEE-eec--------ccceee
Q 038454          190 L-TEDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TFCW-GLR--------SMGCEE  236 (359)
Q Consensus       190 ~-~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~ilv-Ttr--------~~~~~~  236 (359)
                      . ...... +.++.+.+.+..    +++-++|+|++                  .++ .+|+ |++        ...|..
T Consensus        83 ~~~~~I~v-dqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~  161 (319)
T PRK06090         83 KEGKSITV-EQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQ  161 (319)
T ss_pred             cCCCcCCH-HHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccee
Confidence            0 001111 222333333321    24567888888                  333 4444 444        445778


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                      +.+.+++.+++.+.+....    .  +     .+..++..++|.|+....+
T Consensus       162 ~~~~~~~~~~~~~~L~~~~----~--~-----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        162 WVVTPPSTAQAMQWLKGQG----I--T-----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             EeCCCCCHHHHHHHHHHcC----C--c-----hHHHHHHHcCCCHHHHHHH
Confidence            9999999999999886531    1  1     2356789999999977554

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.33  E-value=0.004  Score=65.22  Aligned_cols=46  Identities=22%  Similarity=0.343  Sum_probs=34.0

Q ss_pred             cccccccchHHHHHHHHHHhc-------CC--CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLM-------GD--KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~-------~~--~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .+..+...+.       +.  ...++.++|++|+|||+||+.+++.
T Consensus       567 ~~~viGQ~~--ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~  621 (857)
T PRK10865        567 HHRVIGQNE--AVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANF  621 (857)
T ss_pred             CCeEeCCHH--HHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            356889876  6555555553       11  1247899999999999999999976

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

Probab=97.32  E-value=0.0061  Score=58.20  Aligned_cols=108  Identities=20%  Similarity=0.255  Sum_probs=64.6

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcCCCCCCcc
Q 038454          117 IVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKLSLTEDED  195 (359)
Q Consensus       117 ~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~  195 (359)
                      -..++...+..... ++.|.|+-++||||+++.+....   .+.   .++++..+.. +-.++ .               
T Consensus        25 ~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~---~~~---~iy~~~~d~~~~~~~l-~---------------   81 (398)
T COG1373          25 LLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGL---LEE---IIYINFDDLRLDRIEL-L---------------   81 (398)
T ss_pred             hhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhC---Ccc---eEEEEecchhcchhhH-H---------------
Confidence            44555555555544 99999999999999997777762   222   5555443321 11111 1               


Q ss_pred             HHHHHHHHHHHHhcCCcEEEEEecC--------------CCC--eEEEeec-------------ccceeeeecCCCChHH
Q 038454          196 KVSRARRLLGKLKAKKKFVLILDDI--------------DNH--TFCWGLR-------------SMGCEEVRVPPLSKEE  246 (359)
Q Consensus       196 ~~~~~~~l~~~l~~~k~~LlVlDdv--------------~~g--~ilvTtr-------------~~~~~~~~l~~L~~~e  246 (359)
                        +....+...-.. ++.+++||.|              +.|  ++++|+.             .-....+.+.|||..|
T Consensus        82 --d~~~~~~~~~~~-~~~yifLDEIq~v~~W~~~lk~l~d~~~~~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~E  158 (398)
T COG1373          82 --DLLRAYIELKER-EKSYIFLDEIQNVPDWERALKYLYDRGNLDVLITGSSSSLLSKEISESLAGRGKDLELYPLSFRE  158 (398)
T ss_pred             --HHHHHHHHhhcc-CCceEEEecccCchhHHHHHHHHHccccceEEEECCchhhhccchhhhcCCCceeEEECCCCHHH
Confidence              111122222222 6689999999              455  5777766             1112468999999998


Q ss_pred             HHHH
Q 038454          247 ALNL  250 (359)
Q Consensus       247 a~~l  250 (359)
                      -..+
T Consensus       159 fl~~  162 (398)
T COG1373         159 FLKL  162 (398)
T ss_pred             HHhh
Confidence            8653

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=97.32  E-value=0.0024  Score=57.20  Aligned_cols=90  Identities=20%  Similarity=0.253  Sum_probs=56.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccc--cCCC-ccEEEEEeCCCcCHHHHHHHHHHHhcCCC------------CCCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEE--TNEF-SDVIWVTVSQPLDLVKLQAEIAMALKLSL------------TEDE  194 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F-~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------------~~~~  194 (359)
                      -.+.=|+|.+|+|||.|+.+++-...-.  .+.. ..++|++-...|+..++. +|++..+.+.            ....
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~~  116 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDLE  116 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSHH
T ss_pred             CcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCHH
Confidence            3689999999999999999886441111  1222 358899988888888775 4565543311            1112


Q ss_pred             cHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          195 DKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       195 ~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      +....+..+...+...+--|||+|.+
T Consensus       117 ~l~~~L~~l~~~l~~~~ikLIVIDSI  142 (256)
T PF08423_consen  117 ELLELLEQLPKLLSESKIKLIVIDSI  142 (256)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETS
T ss_pred             HHHHHHHHHHhhccccceEEEEecch
Confidence            23334444445554546669999998

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 ....

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

Probab=97.31  E-value=0.005  Score=53.66  Aligned_cols=148  Identities=18%  Similarity=0.217  Sum_probs=76.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH-------HHHHHHH---HHHh-----------
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL-------VKLQAEI---AMAL-----------  186 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~-------~~~~~~i---~~~l-----------  186 (359)
                      .+++=+.++|++|.|||-||+.++++   .     ++-|+.+|...-+       ..+.+++   ++..           
T Consensus       179 aQPKGvlLygppgtGktLlaraVahh---t-----~c~firvsgselvqk~igegsrmvrelfvmarehapsiifmdeid  250 (404)
T KOG0728|consen  179 AQPKGVLLYGPPGTGKTLLARAVAHH---T-----DCTFIRVSGSELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEID  250 (404)
T ss_pred             CCCcceEEecCCCCchhHHHHHHHhh---c-----ceEEEEechHHHHHHHhhhhHHHHHHHHHHHHhcCCceEeeeccc
Confidence            35677999999999999999999998   1     2445666543111       1111111   1110           


Q ss_pred             --cCCC--CCCccHHHHHHHHHHHHhcCCcEEEEEecC--CCC-eEEEeec----------ccce--eeeecCCCChHHH
Q 038454          187 --KLSL--TEDEDKVSRARRLLGKLKAKKKFVLILDDI--DNH-TFCWGLR----------SMGC--EEVRVPPLSKEEA  247 (359)
Q Consensus       187 --~~~~--~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--~~g-~ilvTtr----------~~~~--~~~~l~~L~~~ea  247 (359)
                        +..-  .......+..+...+.|..       ||++  .+. +||..|.          +.+.  ..++.++-+.+.-
T Consensus       251 sigs~r~e~~~ggdsevqrtmlellnq-------ldgfeatknikvimatnridild~allrpgridrkiefp~p~e~ar  323 (404)
T KOG0728|consen  251 SIGSSRVESGSGGDSEVQRTMLELLNQ-------LDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEAR  323 (404)
T ss_pred             ccccccccCCCCccHHHHHHHHHHHHh-------ccccccccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHH
Confidence              1100  0011122333444444443       4555  455 7777665          1222  3578888887777


Q ss_pred             HHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh
Q 038454          248 LNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC  290 (359)
Q Consensus       248 ~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~  290 (359)
                      .+++.-+...-+....-++..+++++.-..|.--.+...=|+.
T Consensus       324 ~~ilkihsrkmnl~rgi~l~kiaekm~gasgaevk~vcteagm  366 (404)
T KOG0728|consen  324 LDILKIHSRKMNLTRGINLRKIAEKMPGASGAEVKGVCTEAGM  366 (404)
T ss_pred             HHHHHHhhhhhchhcccCHHHHHHhCCCCccchhhhhhhhhhH
Confidence            7777655433222233445666666554444444444444444

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.30  E-value=0.015  Score=54.08  Aligned_cols=152  Identities=15%  Similarity=0.151  Sum_probs=83.3

Q ss_pred             HHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcc--cccCCCcc-----EEEEEeCCCcCHHHHHHHHHHHhcC
Q 038454          117 IVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQ--EETNEFSD-----VIWVTVSQPLDLVKLQAEIAMALKL  188 (359)
Q Consensus       117 ~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~~F~~-----~~wv~~~~~~~~~~~~~~i~~~l~~  188 (359)
                      .-+.+...+..++ ...+.++|+.|+||+++|..++..+.  .....-.|     +-++..+..+|+..+        ..
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i--------~p   81 (334)
T PRK07993         10 DYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTL--------TP   81 (334)
T ss_pred             HHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEE--------ec
Confidence            4556777776654 56788999999999999999877631  00000000     001111111111100        00


Q ss_pred             CCCCCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eEEEeec---------ccceee
Q 038454          189 SLTEDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TFCWGLR---------SMGCEE  236 (359)
Q Consensus       189 ~~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~~  236 (359)
                      ......-..+.++.+.+.+..    +++-++|+|++                  ..+ -+|++|.         ...|+.
T Consensus        82 ~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~  161 (334)
T PRK07993         82 EKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRL  161 (334)
T ss_pred             ccccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcccc
Confidence            000000112223334333321    36668888988                  233 4444444         345678


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                      +.+.+++.+++.+.+.... +       ...+.+..++..++|.|...
T Consensus       162 ~~~~~~~~~~~~~~L~~~~-~-------~~~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        162 HYLAPPPEQYALTWLSREV-T-------MSQDALLAALRLSAGAPGAA  201 (334)
T ss_pred             ccCCCCCHHHHHHHHHHcc-C-------CCHHHHHHHHHHcCCCHHHH
Confidence            9999999999998886542 1       11244677899999999744

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.30  E-value=0.0024  Score=56.53  Aligned_cols=86  Identities=13%  Similarity=0.142  Sum_probs=53.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCC------------------
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSL------------------  190 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------------------  190 (359)
                      .-.++.|.|.+|+|||+||.++....  . ..-..++||+...  +..++.+.+. +++.+.                  
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~--~-~~ge~~lyvs~ee--~~~~i~~~~~-~~g~~~~~~~~~g~l~~~d~~~~~   93 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNG--L-QMGEPGIYVALEE--HPVQVRRNMA-QFGWDVRKYEEEGKFAIVDAFTGG   93 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH--H-HcCCcEEEEEeeC--CHHHHHHHHH-HhCCCHHHHhhcCCEEEEeccccc
Confidence            34789999999999999999976651  1 2234588888765  4445544432 222110                  


Q ss_pred             ------------CCCccHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          191 ------------TEDEDKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       191 ------------~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                                  ....+.......+.+.+...+.-++|+|.+
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSl  135 (237)
T TIGR03877        94 IGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSV  135 (237)
T ss_pred             cccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcCh
Confidence                        012355566666666665434457999997

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.

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

Probab=97.29  E-value=0.014  Score=56.28  Aligned_cols=121  Identities=17%  Similarity=0.251  Sum_probs=72.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      +...+.+.|++|+|||+||..++..     ..|+.+--++-..      +             -..++......+.+.+.
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~-----S~FPFvKiiSpe~------m-------------iG~sEsaKc~~i~k~F~  592 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALS-----SDFPFVKIISPED------M-------------IGLSESAKCAHIKKIFE  592 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhh-----cCCCeEEEeChHH------c-------------cCccHHHHHHHHHHHHH
Confidence            4567889999999999999999977     5676433332111      1             01222333333333332


Q ss_pred             c---CCcEEEEEecC-----------------------------CCC-eEEE--eec------ccc---e--eeeecCCC
Q 038454          209 A---KKKFVLILDDI-----------------------------DNH-TFCW--GLR------SMG---C--EEVRVPPL  242 (359)
Q Consensus       209 ~---~k~~LlVlDdv-----------------------------~~g-~ilv--Ttr------~~~---~--~~~~l~~L  242 (359)
                      +   ..-..||+||+                             ..| |.+|  ||.      .|+   |  ..|.++.+
T Consensus       593 DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl  672 (744)
T KOG0741|consen  593 DAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNL  672 (744)
T ss_pred             HhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCcc
Confidence            2   15678999998                             455 5443  333      222   2  46899999


Q ss_pred             Ch-HHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHc
Q 038454          243 SK-EEALNLFLDKVGRNILHVPTLNEEIINSVVEEC  277 (359)
Q Consensus       243 ~~-~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c  277 (359)
                      +. ++..+.++..-.-    .+.....++++...+|
T Consensus       673 ~~~~~~~~vl~~~n~f----sd~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  673 TTGEQLLEVLEELNIF----SDDEVRAIAEQLLSKK  704 (744)
T ss_pred             CchHHHHHHHHHccCC----CcchhHHHHHHHhccc
Confidence            87 7777777664311    2334556666666666

>PHA02244 ATPase-like protein

Probab=97.28  E-value=0.0039  Score=58.12  Aligned_cols=46  Identities=20%  Similarity=0.183  Sum_probs=33.8

Q ss_pred             cccccccch--HHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENT--KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~--~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..++|...  ......+..++..+.  .|.|+|++|+|||+||+++++.
T Consensus        95 d~~~ig~sp~~~~~~~ri~r~l~~~~--PVLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244         95 DTTKIASNPTFHYETADIAKIVNANI--PVFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             CCcccCCCHHHHHHHHHHHHHHhcCC--CEEEECCCCCCHHHHHHHHHHH
Confidence            456667655  334556666666553  4788999999999999999987

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.26  E-value=0.014  Score=56.09  Aligned_cols=86  Identities=19%  Similarity=0.169  Sum_probs=47.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA  209 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  209 (359)
                      +++.++|++|+||||++..++..+. ....-..+..|+..... ...+.+......++.+.....+..+....+.+ +. 
T Consensus       222 ~~i~~vGptGvGKTTt~~kLA~~~~-~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~-~~-  298 (424)
T PRK05703        222 GVVALVGPTGVGKTTTLAKLAARYA-LLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQ-LR-  298 (424)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHH-hC-
Confidence            6899999999999999998877631 01222346666654321 12233444444455543333334444433332 22 


Q ss_pred             CCcEEEEEecC
Q 038454          210 KKKFVLILDDI  220 (359)
Q Consensus       210 ~k~~LlVlDdv  220 (359)
                       ..-++++|..
T Consensus       299 -~~DlVlIDt~  308 (424)
T PRK05703        299 -DCDVILIDTA  308 (424)
T ss_pred             -CCCEEEEeCC
Confidence             3467788875

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.26  E-value=0.0017  Score=58.10  Aligned_cols=80  Identities=29%  Similarity=0.357  Sum_probs=50.0

Q ss_pred             HHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHH
Q 038454          120 KVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSR  199 (359)
Q Consensus       120 ~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~  199 (359)
                      .+..++.  +..-+.++|.+|+|||.||.++.+.+  .+..+. +.+++      ..+++..+.......        ..
T Consensus        97 ~~~~~~~--~~~nl~l~G~~G~GKThLa~Ai~~~l--~~~g~s-v~f~~------~~el~~~Lk~~~~~~--------~~  157 (254)
T COG1484          97 SLVEFFE--RGENLVLLGPPGVGKTHLAIAIGNEL--LKAGIS-VLFIT------APDLLSKLKAAFDEG--------RL  157 (254)
T ss_pred             HHHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHH--HHcCCe-EEEEE------HHHHHHHHHHHHhcC--------ch
Confidence            3444555  56779999999999999999999994  233343 45553      445555555544431        11


Q ss_pred             HHHHHHHHhcCCcEEEEEecC
Q 038454          200 ARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       200 ~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ...+.+.+.  +-=||||||+
T Consensus       158 ~~~l~~~l~--~~dlLIiDDl  176 (254)
T COG1484         158 EEKLLRELK--KVDLLIIDDI  176 (254)
T ss_pred             HHHHHHHhh--cCCEEEEecc
Confidence            223333332  4559999998

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.25  E-value=0.0021  Score=61.73  Aligned_cols=57  Identities=18%  Similarity=0.167  Sum_probs=36.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKL  188 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~  188 (359)
                      .+.+|.++|.+|+||||+|..++..+.  ...+ .+..|+... .+...+.+..+..+++.
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~--~~g~-kV~lV~~D~~R~aa~eQL~~la~~~gv  151 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFK--KKGL-KVGLVAADTYRPAAYDQLKQLAEKIGV  151 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH--HcCC-eEEEecCCCCCHHHHHHHHHHHHHcCC
Confidence            467999999999999999999998742  2233 233344322 12234455556666554

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

Probab=97.24  E-value=0.013  Score=60.55  Aligned_cols=45  Identities=16%  Similarity=0.316  Sum_probs=33.2

Q ss_pred             ccccccchHHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMG-------D--KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .++.+...+..       .  ...++.++|++|+|||+||+.++..
T Consensus       454 ~~v~GQ~~--ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~  507 (731)
T TIGR02639       454 AKIFGQDE--AIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEA  507 (731)
T ss_pred             cceeCcHH--HHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHH
Confidence            45778765  56666555531       1  2346889999999999999999987

>PRK04296 thymidine kinase; Provisional

Probab=97.22  E-value=0.00052  Score=58.62  Aligned_cols=83  Identities=12%  Similarity=0.073  Sum_probs=45.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCC--CccHHHHHHHHHHHHh
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTE--DEDKVSRARRLLGKLK  208 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~~l~~~l~  208 (359)
                      .++.|+|..|.||||+|..++.+. . ... ..++.+.  ..++.......++..++.....  .....+....+.+  .
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~-~-~~g-~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~--~   75 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNY-E-ERG-MKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE--E   75 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHH-H-HcC-CeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh--h
Confidence            478899999999999999998883 1 122 2233332  1112222233445555543221  1233444444444  3


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      .++.-+||+|.+
T Consensus        76 ~~~~dvviIDEa   87 (190)
T PRK04296         76 GEKIDCVLIDEA   87 (190)
T ss_pred             CCCCCEEEEEcc
Confidence            324458999997

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.22  E-value=0.0038  Score=60.95  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++-|.++|++|+|||.+|+.+++.
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e  282 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIAND  282 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Confidence            3567999999999999999999998

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.19  E-value=0.0061  Score=56.41  Aligned_cols=44  Identities=20%  Similarity=0.295  Sum_probs=33.4

Q ss_pred             ccccchHHHHHHHHHHhc-CCCcc-EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          109 LVGENTKKIVKKVWEDLM-GDKVT-KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       109 ~vGr~~~~~~~~l~~~l~-~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ++|-+.  ....+..+.. .++.+ .+.++|++|+||||+|..+++.+
T Consensus         3 ~~~~~~--~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l   48 (325)
T COG0470           3 LVPWQE--AVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKEL   48 (325)
T ss_pred             cccchh--HHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHH
Confidence            445543  6677777776 34344 59999999999999999999873

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.18  E-value=0.0019  Score=58.68  Aligned_cols=86  Identities=20%  Similarity=0.233  Sum_probs=48.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCccccc-CCCccEEEEEeCCC-cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEET-NEFSDVIWVTVSQP-LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      .++++++|++|+||||++..++..+ ... +.+ .+..|+.... ....+.+......++.+.....+..... ...+.+
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~-~~~~g~~-~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~-~~l~~~  270 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARF-VLEHGNK-KVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELR-KALDRL  270 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-HHHcCCC-eEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHH-HHHHHc
Confidence            4699999999999999999998873 122 223 3556665432 1233344444555555443333444433 333333


Q ss_pred             hcCCcEEEEEecC
Q 038454          208 KAKKKFVLILDDI  220 (359)
Q Consensus       208 ~~~k~~LlVlDdv  220 (359)
                      .  ..=++++|..
T Consensus       271 ~--~~d~vliDt~  281 (282)
T TIGR03499       271 R--DKDLILIDTA  281 (282)
T ss_pred             c--CCCEEEEeCC
Confidence            3  3457777753

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=97.17  E-value=0.0013  Score=58.99  Aligned_cols=88  Identities=18%  Similarity=0.269  Sum_probs=54.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHH---
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKV---  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~---  197 (359)
                      -..++|.|.+|+|||||++.+++.   ...+|. .++++-+++.. ...++.+.+...=..       ...+.....   
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~---i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  145 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINN---IAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARAR  145 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHH---HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            357999999999999999999998   333453 45666676654 455666666543111       111111111   


Q ss_pred             --HHHHHHHHHHhc--CCcEEEEEecC
Q 038454          198 --SRARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       198 --~~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                        ...-.+.++++.  ++++|+++||+
T Consensus       146 ~~~~a~~~AEyfr~~~g~~Vl~~~Dsl  172 (274)
T cd01133         146 VALTGLTMAEYFRDEEGQDVLLFIDNI  172 (274)
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeCh
Confidence              122334455532  48999999998

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.16  E-value=0.002  Score=59.39  Aligned_cols=90  Identities=18%  Similarity=0.187  Sum_probs=56.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccc--cCC-CccEEEEEeCCCcCHHHHHHHHHHHhcCCCC---------CCccHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEE--TNE-FSDVIWVTVSQPLDLVKLQAEIAMALKLSLT---------EDEDKV  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~-F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~---------~~~~~~  197 (359)
                      -.++-|+|.+|+|||+|+.+++-..+..  ... =..++|++....|+..++.+ ++..++.+..         ...+.+
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l~~i~~~~~~~~e  174 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVLDNILYARAYTSE  174 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhcCcEEEecCCCHH
Confidence            4689999999999999999876431101  111 13589999988888887754 5666654321         111233


Q ss_pred             HH---HHHHHHHHhcCCcEEEEEecC
Q 038454          198 SR---ARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       198 ~~---~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      +.   +..+...+...+--|||+|.+
T Consensus       175 ~~~~~l~~l~~~i~~~~~~LvVIDSi  200 (313)
T TIGR02238       175 HQMELLDYLAAKFSEEPFRLLIVDSI  200 (313)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEEcc
Confidence            33   334444444435568999997

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.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.16  E-value=0.0012  Score=65.49  Aligned_cols=71  Identities=21%  Similarity=0.314  Sum_probs=52.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      .-++..++|++|+||||||.-++++     ..|. ++=+++|+..+...+-..|...+....               .+.
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkq-----aGYs-VvEINASDeRt~~~v~~kI~~avq~~s---------------~l~  383 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQ-----AGYS-VVEINASDERTAPMVKEKIENAVQNHS---------------VLD  383 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHh-----cCce-EEEecccccccHHHHHHHHHHHHhhcc---------------ccc
Confidence            3579999999999999999999988     3343 667888888777777666666554321               121


Q ss_pred             -cCCcEEEEEecC
Q 038454          209 -AKKKFVLILDDI  220 (359)
Q Consensus       209 -~~k~~LlVlDdv  220 (359)
                       +.++..||+|.+
T Consensus       384 adsrP~CLViDEI  396 (877)
T KOG1969|consen  384 ADSRPVCLVIDEI  396 (877)
T ss_pred             cCCCcceEEEecc
Confidence             137888999998

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.15  E-value=0.013  Score=61.44  Aligned_cols=46  Identities=15%  Similarity=0.257  Sum_probs=34.7

Q ss_pred             cccccccchHHHHHHHHHHhc-------CC--CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLM-------GD--KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~-------~~--~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .++.+.+.+.       ++  ...++.++|++|+|||.||+.++..
T Consensus       565 ~~~v~GQ~~--Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~  619 (852)
T TIGR03345       565 AERVIGQDH--ALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL  619 (852)
T ss_pred             cCeEcChHH--HHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            457889876  6666666552       11  2347899999999999999999877

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.

>PRK04132 replication factor C small subunit; Provisional

Probab=97.15  E-value=0.016  Score=59.93  Aligned_cols=131  Identities=13%  Similarity=0.131  Sum_probs=82.6

Q ss_pred             Ec--CCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCc
Q 038454          136 WG--MGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKK  212 (359)
Q Consensus       136 ~G--~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~  212 (359)
                      .|  |.++||||+|..+++++  ..+.++ .++-++.++..+...+ +.++..+....+               +.+.+.
T Consensus       570 ~G~lPh~lGKTT~A~ala~~l--~g~~~~~~~lElNASd~rgid~I-R~iIk~~a~~~~---------------~~~~~~  631 (846)
T PRK04132        570 GGNLPTVLHNTTAALALAREL--FGENWRHNFLELNASDERGINVI-REKVKEFARTKP---------------IGGASF  631 (846)
T ss_pred             cCCCCCcccHHHHHHHHHHhh--hcccccCeEEEEeCCCcccHHHH-HHHHHHHHhcCC---------------cCCCCC
Confidence            36  77999999999999983  122332 3666777765555433 333333221111               011145


Q ss_pred             EEEEEecC-----------------CC-C-eEEEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCC
Q 038454          213 FVLILDDI-----------------DN-H-TFCWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPT  264 (359)
Q Consensus       213 ~LlVlDdv-----------------~~-g-~ilvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~  264 (359)
                      -++|+|++                 .+ . .+|+++.         ...|..+.+.+++.++..+.+...+...+..   
T Consensus       632 KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~---  708 (846)
T PRK04132        632 KIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE---  708 (846)
T ss_pred             EEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCC---
Confidence            78999999                 22 3 6666555         3457789999999999998887765332221   


Q ss_pred             chHHHHHHHHHHcCCchhHHHHH
Q 038454          265 LNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       265 ~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                      -..+....|++.|+|.+..+..+
T Consensus       709 i~~e~L~~Ia~~s~GDlR~AIn~  731 (846)
T PRK04132        709 LTEEGLQAILYIAEGDMRRAINI  731 (846)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHH
Confidence            12567889999999988554433

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.14  E-value=0.018  Score=56.23  Aligned_cols=87  Identities=20%  Similarity=0.206  Sum_probs=47.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      ..+|+|+|.+|+||||++..++..+. .......+..++... .....+.+......++.......+...+...+ +.+.
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la-~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL-~~l~  427 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFA-AQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLL-ERLR  427 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHH-HHhc
Confidence            47899999999999999999887631 111123355555422 11223333334444444332222333333333 3333


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                        ..-+|++|..
T Consensus       428 --~~DLVLIDTa  437 (559)
T PRK12727        428 --DYKLVLIDTA  437 (559)
T ss_pred             --cCCEEEecCC
Confidence              3558888887

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

Probab=97.13  E-value=0.011  Score=57.87  Aligned_cols=70  Identities=21%  Similarity=0.400  Sum_probs=44.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      -+.=|.++|++|+|||-||++|+|.   ..-.|     +++..+    ++    +..-     -. ..+..++.+.+.-+
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANE---ag~NF-----isVKGP----EL----lNkY-----VG-ESErAVR~vFqRAR  601 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANE---AGANF-----ISVKGP----EL----LNKY-----VG-ESERAVRQVFQRAR  601 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhh---ccCce-----EeecCH----HH----HHHH-----hh-hHHHHHHHHHHHhh
Confidence            3556899999999999999999998   33444     444432    11    1110     11 22333444444444


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      ...+++|.||.+
T Consensus       602 ~saPCVIFFDEi  613 (802)
T KOG0733|consen  602 ASAPCVIFFDEI  613 (802)
T ss_pred             cCCCeEEEecch
Confidence            458999999998

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.11  E-value=0.00067  Score=62.94  Aligned_cols=47  Identities=11%  Similarity=0.217  Sum_probs=38.2

Q ss_pred             cccccccchHHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG------DKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...++|.+.  .++++++++..      ...+++.++|++|+||||||..+++.+
T Consensus        50 ~~~~~G~~~--~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       50 DHDFFGMEE--AIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             chhccCcHH--HHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            347999866  77888877743      245889999999999999999999884

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.10  E-value=0.004  Score=55.00  Aligned_cols=86  Identities=15%  Similarity=0.171  Sum_probs=53.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----------------
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----------------  191 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----------------  191 (359)
                      .-.++.|+|.+|+|||+|+.++....  ... =..++|++..+.  ..++.+.+ .+++....                 
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~--~~~-g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGA--LKQ-GKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHH--HhC-CCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            35789999999999999999996651  122 235888888654  44554443 23332110                 


Q ss_pred             ---CCccHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          192 ---EDEDKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       192 ---~~~~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                         .....+.....+.+.+...+.-++|+|.+
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~  129 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSL  129 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecH
Confidence               11233456666666665435568999987

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

Probab=97.09  E-value=0.024  Score=57.78  Aligned_cols=103  Identities=16%  Similarity=0.284  Sum_probs=57.6

Q ss_pred             cccccccchHHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLV  176 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  176 (359)
                      ...++|.+.  .+..+.+.+..         ....+....|+.|+|||.||++++..+   .+.=+..+-++.|+...- 
T Consensus       490 ~~rViGQd~--AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~L---fg~e~aliR~DMSEy~Ek-  563 (786)
T COG0542         490 KKRVIGQDE--AVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEAL---FGDEQALIRIDMSEYMEK-  563 (786)
T ss_pred             hcceeChHH--HHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHh---cCCCccceeechHHHHHH-
Confidence            356888876  77777666632         134577889999999999999999873   221133344433332111 


Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcE-EEEEecC
Q 038454          177 KLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKF-VLILDDI  220 (359)
Q Consensus       177 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~-LlVlDdv  220 (359)
                         +.+.+-+|.+ +. .-.-+.--.|-+..+. ++| +|.||++
T Consensus       564 ---HsVSrLIGaP-PG-YVGyeeGG~LTEaVRr-~PySViLlDEI  602 (786)
T COG0542         564 ---HSVSRLIGAP-PG-YVGYEEGGQLTEAVRR-KPYSVILLDEI  602 (786)
T ss_pred             ---HHHHHHhCCC-CC-CceeccccchhHhhhc-CCCeEEEechh
Confidence               1122223332 21 1111113345555666 656 8888999

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.07  E-value=0.0024  Score=60.00  Aligned_cols=89  Identities=16%  Similarity=0.217  Sum_probs=49.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      ++++|+++|++|+||||++..++..+  ....+ .+..++.... ....+-+......++.+.....+.......+...-
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L--~~~Gk-kVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk  316 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF--HGKKK-TVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFK  316 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH--HHcCC-cEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHH
Confidence            45799999999999999999998873  22222 2445554322 22333344444455544332334444444333322


Q ss_pred             hcCCcEEEEEecC
Q 038454          208 KAKKKFVLILDDI  220 (359)
Q Consensus       208 ~~~k~~LlVlDdv  220 (359)
                      ...+.=++++|-.
T Consensus       317 ~~~~~DvVLIDTa  329 (436)
T PRK11889        317 EEARVDYILIDTA  329 (436)
T ss_pred             hccCCCEEEEeCc
Confidence            2112346677765

>PRK06696 uridine kinase; Validated

Probab=97.07  E-value=0.00088  Score=58.76  Aligned_cols=38  Identities=16%  Similarity=0.332  Sum_probs=30.6

Q ss_pred             HHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          117 IVKKVWEDLM---GDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       117 ~~~~l~~~l~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+++|.+.+.   .+++.+|+|.|.+|+||||||+.++..+
T Consensus         6 ~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          6 LIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             HHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            4555665553   4567899999999999999999999873

>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=97.06  E-value=0.0027  Score=53.23  Aligned_cols=23  Identities=26%  Similarity=0.280  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ++.++|++|+||||++..++..+
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998873

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.

>PRK06547 hypothetical protein; Provisional

Probab=97.04  E-value=0.00089  Score=56.12  Aligned_cols=34  Identities=24%  Similarity=0.322  Sum_probs=28.4

Q ss_pred             HHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          120 KVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       120 ~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+...+..+...+|+|.|++|+||||+|+.+.+.
T Consensus         5 ~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547          5 LIAARLCGGGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4444555677889999999999999999999876

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.02  E-value=0.043  Score=51.16  Aligned_cols=66  Identities=18%  Similarity=0.232  Sum_probs=44.1

Q ss_pred             CcEEEEEecC------------------CCC-eE-EEeec--------ccceeeeecCCCChHHHHHHHHHhhcCCCCCC
Q 038454          211 KKFVLILDDI------------------DNH-TF-CWGLR--------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHV  262 (359)
Q Consensus       211 k~~LlVlDdv------------------~~g-~i-lvTtr--------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~  262 (359)
                      ++-++|+|++                  .++ .+ ++|++        ...|..+.+.+++.++..+.+...-      .
T Consensus       132 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~------~  205 (342)
T PRK06964        132 GARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG------V  205 (342)
T ss_pred             CceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC------C
Confidence            5568888998                  344 44 44554        3356789999999999999887641      1


Q ss_pred             CCchHHHHHHHHHHcCCchhHHHHH
Q 038454          263 PTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       263 ~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                      ++     ...++..++|.|+....+
T Consensus       206 ~~-----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        206 AD-----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             Ch-----HHHHHHHcCCCHHHHHHH
Confidence            11     223577889999755433

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

Probab=97.01  E-value=0.019  Score=56.61  Aligned_cols=46  Identities=20%  Similarity=0.286  Sum_probs=32.8

Q ss_pred             cccccch-HHHHHHHHHHhcC----------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENT-KKIVKKVWEDLMG----------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~-~~~~~~l~~~l~~----------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+-|-+. +.++++.+.|-..          ..++=|..+|++|+|||++|+++++.
T Consensus       435 dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne  491 (693)
T KOG0730|consen  435 DIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANE  491 (693)
T ss_pred             hccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhh
Confidence            4444544 4445544444332          35678999999999999999999998

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.00  E-value=0.0016  Score=54.43  Aligned_cols=81  Identities=20%  Similarity=0.196  Sum_probs=45.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcC-
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAK-  210 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~-  210 (359)
                      ++.|.|.+|+|||++|.++...      ....++++.-...++.+ +...|...-... +......+....+.+.+... 
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~------~~~~~~y~at~~~~d~e-m~~rI~~H~~~R-~~~w~t~E~~~~l~~~l~~~~   72 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE------LGGPVTYIATAEAFDDE-MAERIARHRKRR-PAHWRTIETPRDLVSALKELD   72 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh------cCCCeEEEEccCcCCHH-HHHHHHHHHHhC-CCCceEeecHHHHHHHHHhcC
Confidence            3689999999999999998765      11246677666666543 333333322111 11222223333444444321 


Q ss_pred             CcEEEEEecC
Q 038454          211 KKFVLILDDI  220 (359)
Q Consensus       211 k~~LlVlDdv  220 (359)
                      +.-.+++|.+
T Consensus        73 ~~~~VLIDcl   82 (169)
T cd00544          73 PGDVVLIDCL   82 (169)
T ss_pred             CCCEEEEEcH
Confidence            2337888887

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.99  E-value=0.0053  Score=56.88  Aligned_cols=89  Identities=17%  Similarity=0.251  Sum_probs=55.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCC----CccEEEEEeCCCcCHHHHHHHHHHHhcCCCC------------CC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNE----FSDVIWVTVSQPLDLVKLQAEIAMALKLSLT------------ED  193 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------------~~  193 (359)
                      -.++-|+|.+|+|||+++.+++... .....    =..++||+....++..++.+ ++..++....            ..
T Consensus       102 g~vtei~G~~GsGKT~l~~~~~~~~-~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~~~~~~l~~i~~~~~~~~  179 (317)
T PRK04301        102 QSITEFYGEFGSGKTQICHQLAVNV-QLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGLDPDEVLDNIHVARAYNS  179 (317)
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHh-ccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCCChHhhhccEEEEeCCCH
Confidence            4789999999999999999998662 11111    13689999988888777644 3444443211            01


Q ss_pred             ccHHHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          194 EDKVSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       194 ~~~~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      .........+...+.. .+--|||+|.+
T Consensus       180 ~~~~~~~~~l~~~i~~~~~~~lvVIDSi  207 (317)
T PRK04301        180 DHQMLLAEKAEELIKEGENIKLVIVDSL  207 (317)
T ss_pred             HHHHHHHHHHHHHHhccCceeEEEEECc
Confidence            1112233444444443 24459999997

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.99  E-value=0.01  Score=61.48  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+-|.++|++|+|||+||+.+++.
T Consensus       212 ~~giLL~GppGtGKT~laraia~~  235 (733)
T TIGR01243       212 PKGVLLYGPPGTGKTLLAKAVANE  235 (733)
T ss_pred             CceEEEECCCCCChHHHHHHHHHH
Confidence            467899999999999999999987

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.

>PTZ00494 tuzin-like protein; Provisional

Probab=96.98  E-value=0.37  Score=46.11  Aligned_cols=82  Identities=15%  Similarity=0.118  Sum_probs=60.5

Q ss_pred             cccCCcccccccch-HHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHH
Q 038454          101 GLILPTTTLVGENT-KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQ  179 (359)
Q Consensus       101 ~~~~~~~~~vGr~~-~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~  179 (359)
                      ..+.....+|.|+. +.-+.+++..+....++++.+.|.-|.||++|.+....+ +.     -..++|.+...   ++.+
T Consensus       365 ~a~a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrk-E~-----~paV~VDVRg~---EDtL  435 (664)
T PTZ00494        365 LAAAAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRV-EG-----VALVHVDVGGT---EDTL  435 (664)
T ss_pred             ccccccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHH-cC-----CCeEEEEecCC---cchH
Confidence            33444667888876 444566777777778999999999999999999988877 22     13677888754   4557


Q ss_pred             HHHHHHhcCCCC
Q 038454          180 AEIAMALKLSLT  191 (359)
Q Consensus       180 ~~i~~~l~~~~~  191 (359)
                      +++.+.|+.+.-
T Consensus       436 rsVVKALgV~nv  447 (664)
T PTZ00494        436 RSVVRALGVSNV  447 (664)
T ss_pred             HHHHHHhCCCCh
Confidence            888889987543

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.97  E-value=0.0033  Score=58.51  Aligned_cols=90  Identities=12%  Similarity=0.130  Sum_probs=56.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcc--cccCCC-ccEEEEEeCCCcCHHHHHHHHHHHhcCCCC---------CCccHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQ--EETNEF-SDVIWVTVSQPLDLVKLQAEIAMALKLSLT---------EDEDKV  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~--~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~---------~~~~~~  197 (359)
                      -.++-|+|.+|+|||+|+..++-...  ...+.- ..++|++....|+..++ .++++.++.+..         ...+.+
T Consensus       123 g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~~~~~l~~i~~~~~~~~e  201 (342)
T PLN03186        123 GSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLNGADVLENVAYARAYNTD  201 (342)
T ss_pred             ceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCChhhhccceEEEecCCHH
Confidence            46889999999999999998874411  111111 25899999998888776 455666654321         112233


Q ss_pred             HHH---HHHHHHHhcCCcEEEEEecC
Q 038454          198 SRA---RRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       198 ~~~---~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ...   ..+...+...+--|||+|.+
T Consensus       202 ~~~~ll~~~~~~~~~~~~~LIVIDSI  227 (342)
T PLN03186        202 HQSELLLEAASMMAETRFALMIVDSA  227 (342)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEeCc
Confidence            332   22323344436679999997

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.97  E-value=0.0058  Score=56.41  Aligned_cols=90  Identities=17%  Similarity=0.188  Sum_probs=54.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccc--cC-CCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC------------CCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEE--TN-EFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT------------EDE  194 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~-~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~------------~~~  194 (359)
                      -.++-|+|.+|+|||+++.+++......  .+ .=..++||+....++..++. +++..++....            ...
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~~~~~~~~i~i~~~~~~~  173 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLDPDEVLKNIYVARAYNSN  173 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhhceEEEecCCHH
Confidence            4789999999999999999998662110  00 01268999998888877654 34444443210            001


Q ss_pred             cHHHHHHHHHHHHhcC--CcEEEEEecC
Q 038454          195 DKVSRARRLLGKLKAK--KKFVLILDDI  220 (359)
Q Consensus       195 ~~~~~~~~l~~~l~~~--k~~LlVlDdv  220 (359)
                      ........+.+.+...  ..-++|+|.+
T Consensus       174 ~~~~lld~l~~~i~~~~~~~~lVVIDSi  201 (310)
T TIGR02236       174 HQMLLVEKAEDLIKELNNPVKLLIVDSL  201 (310)
T ss_pred             HHHHHHHHHHHHHHhcCCCceEEEEecc
Confidence            1112334455555441  2458999987

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.

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

Probab=96.96  E-value=0.025  Score=49.53  Aligned_cols=26  Identities=27%  Similarity=0.455  Sum_probs=24.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.++=|.++|++|+|||.||++++++
T Consensus       187 dpprgvllygppg~gktml~kava~~  212 (408)
T KOG0727|consen  187 DPPRGVLLYGPPGTGKTMLAKAVANH  212 (408)
T ss_pred             CCCcceEEeCCCCCcHHHHHHHHhhc
Confidence            56788999999999999999999998

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

Probab=96.95  E-value=0.0063  Score=54.24  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++=|.++|.+|.|||-||++|+|+
T Consensus       218 pPKGVIlyG~PGTGKTLLAKAVANq  242 (440)
T KOG0726|consen  218 PPKGVILYGEPGTGKTLLAKAVANQ  242 (440)
T ss_pred             CCCeeEEeCCCCCchhHHHHHHhcc
Confidence            4567889999999999999999999

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=96.95  E-value=0.0058  Score=54.99  Aligned_cols=87  Identities=15%  Similarity=0.221  Sum_probs=56.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH-hcC----CCCCCccHHHHHHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA-LKL----SLTEDEDKVSRARRL  203 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~-l~~----~~~~~~~~~~~~~~l  203 (359)
                      .-+++=|+|+.|+||||+|.+++-.   ....-..++|++.-..+++..+.. ++.. +..    ...........+..+
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~---aq~~g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~~~  134 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVAN---AQKPGGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAEKL  134 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHH---hhcCCCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHHHH
Confidence            3478999999999999999998876   233333789999998888877643 3333 222    111122223333333


Q ss_pred             HHHHhcCCcEEEEEecC
Q 038454          204 LGKLKAKKKFVLILDDI  220 (359)
Q Consensus       204 ~~~l~~~k~~LlVlDdv  220 (359)
                      .+.... +--|+|+|.+
T Consensus       135 ~~~~~~-~i~LvVVDSv  150 (279)
T COG0468         135 ARSGAE-KIDLLVVDSV  150 (279)
T ss_pred             HHhccC-CCCEEEEecC
Confidence            333333 4679999998

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.94  E-value=0.0013  Score=53.09  Aligned_cols=42  Identities=19%  Similarity=0.364  Sum_probs=27.2

Q ss_pred             cccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          110 VGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       110 vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ||...  .+.++.+.+..  .....|.|+|..|+||+++|+.+++.
T Consensus         1 vG~S~--~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~   44 (138)
T PF14532_consen    1 VGKSP--AMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRY   44 (138)
T ss_dssp             --SCH--HHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHT
T ss_pred             CCCCH--HHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhh
Confidence            45555  44444444421  23356899999999999999998887

>PRK14974 cell division protein FtsY; Provisional

Probab=96.93  E-value=0.0093  Score=55.38  Aligned_cols=89  Identities=22%  Similarity=0.228  Sum_probs=49.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCC---CCccHHHHHHHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLT---EDEDKVSRARRLL  204 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~---~~~~~~~~~~~l~  204 (359)
                      ++.+|.++|++|+||||++..++..+  ....+. ++.++... .....+.+......++.+..   ...+....+....
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l--~~~g~~-V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai  215 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYL--KKNGFS-VVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAI  215 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH--HHcCCe-EEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHH
Confidence            46899999999999999988888763  223343 33444321 12333445666677765322   1223333332222


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      +.......-++++|..
T Consensus       216 ~~~~~~~~DvVLIDTa  231 (336)
T PRK14974        216 EHAKARGIDVVLIDTA  231 (336)
T ss_pred             HHHHhCCCCEEEEECC
Confidence            2222212338888887

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.93  E-value=0.024  Score=55.06  Aligned_cols=87  Identities=18%  Similarity=0.201  Sum_probs=47.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      ..+++++|+.|+||||++..++..+. ....-..+..++... .....+-+....+.++.......+..+....+ ..+.
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~-~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL-~~L~  333 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCV-MRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLAL-SELR  333 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHH-HhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHH-Hhcc
Confidence            37999999999999999999997731 121112344555432 22344455555666655432222222222222 2233


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      +  .-.+++|..
T Consensus       334 d--~d~VLIDTa  343 (484)
T PRK06995        334 N--KHIVLIDTI  343 (484)
T ss_pred             C--CCeEEeCCC
Confidence            2  346666765

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.93  E-value=0.0038  Score=56.07  Aligned_cols=40  Identities=23%  Similarity=0.391  Sum_probs=29.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      -.++.|.|.+|+|||++|.+++....  .. =..++|++...+
T Consensus        36 gs~~lI~G~pGtGKT~l~~qf~~~~a--~~-Ge~vlyis~Ee~   75 (259)
T TIGR03878        36 YSVINITGVSDTGKSLMVEQFAVTQA--SR-GNPVLFVTVESP   75 (259)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH--hC-CCcEEEEEecCC
Confidence            47899999999999999999876521  22 235778887643

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

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.92  E-value=0.0056  Score=56.97  Aligned_cols=90  Identities=16%  Similarity=0.138  Sum_probs=56.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCccc--ccCC-CccEEEEEeCCCcCHHHHHHHHHHHhcCCCC---------CCccHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQE--ETNE-FSDVIWVTVSQPLDLVKLQAEIAMALKLSLT---------EDEDKV  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~-F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~---------~~~~~~  197 (359)
                      -.++-|+|.+|+|||+|+.+++-..+.  ..+. -..++|++....|+..++.+ +++.++.+..         ...+.+
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~~e  204 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYTYE  204 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCCHH
Confidence            468889999999999999988643111  1122 23589999999889888754 5566654321         112333


Q ss_pred             HH---HHHHHHHHhcCCcEEEEEecC
Q 038454          198 SR---ARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       198 ~~---~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      +.   +..+...+...+--|||+|.+
T Consensus       205 ~~~~~l~~l~~~i~~~~~~LvVIDSi  230 (344)
T PLN03187        205 HQYNLLLGLAAKMAEEPFRLLIVDSV  230 (344)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEeCc
Confidence            33   233333443334568999998

>PRK10867 signal recognition particle protein; Provisional

Probab=96.91  E-value=0.0038  Score=59.92  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=21.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.+|.++|++|+||||++..++..
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~  123 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKY  123 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            3689999999999999988888775

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.91  E-value=0.00075  Score=56.46  Aligned_cols=23  Identities=22%  Similarity=0.180  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++.|.|.+|+||||+|..+...
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~   24 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQ   24 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHH
Confidence            36899999999999999999876

>TIGR00959 ffh signal recognition particle protein

Probab=96.90  E-value=0.0056  Score=58.72  Aligned_cols=25  Identities=28%  Similarity=0.262  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.++.++|.+|+||||+|..++..
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~  122 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYY  122 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            3679999999999999998888766

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.90  E-value=0.08  Score=50.06  Aligned_cols=70  Identities=17%  Similarity=0.195  Sum_probs=46.5

Q ss_pred             HHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe-CCCcCHHHHHHHHHHHh
Q 038454          117 IVKKVWEDLMG---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV-SQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       117 ~~~~l~~~l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~-~~~~~~~~~~~~i~~~l  186 (359)
                      ..++|++.|..         ..+.+|..+|.-|.||||.|-.+++.+.+  ..+. +.-|+. ...+...+-++.+..+.
T Consensus        78 V~eELv~llG~~~~~~~l~~~~P~vImmvGLQGsGKTTt~~KLA~~lkk--~~~k-vllVaaD~~RpAA~eQL~~La~q~  154 (451)
T COG0541          78 VYEELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAKYLKK--KGKK-VLLVAADTYRPAAIEQLKQLAEQV  154 (451)
T ss_pred             HHHHHHHHhCCCCcccccCCCCCeEEEEEeccCCChHhHHHHHHHHHHH--cCCc-eEEEecccCChHHHHHHHHHHHHc
Confidence            44566666652         24678999999999999999999988422  2232 333332 23345666778888887


Q ss_pred             cCC
Q 038454          187 KLS  189 (359)
Q Consensus       187 ~~~  189 (359)
                      +.+
T Consensus       155 ~v~  157 (451)
T COG0541         155 GVP  157 (451)
T ss_pred             CCc
Confidence            764

>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=96.89  E-value=0.00066  Score=53.55  Aligned_cols=21  Identities=43%  Similarity=0.779  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |+|.|.+|+||||+|+.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999988

...

>PRK04328 hypothetical protein; Provisional

Probab=96.89  E-value=0.0039  Score=55.66  Aligned_cols=41  Identities=12%  Similarity=0.070  Sum_probs=30.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      .-.++.|.|.+|+|||+||.++... . . ..-..++|++..+.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~-~-~-~~ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWN-G-L-QMGEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH-H-H-hcCCcEEEEEeeCC
Confidence            3478999999999999999997765 1 1 22345788887663

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.87  E-value=0.00098  Score=54.12  Aligned_cols=24  Identities=33%  Similarity=0.441  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .-|+|.|++|+||||+++.+.+.+
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHH
Confidence            468999999999999999999883

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.87  E-value=0.0051  Score=56.82  Aligned_cols=90  Identities=12%  Similarity=0.134  Sum_probs=54.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc--ccccC-CCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC---------CCccHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP--QEETN-EFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT---------EDEDKV  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~--~~~~~-~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~---------~~~~~~  197 (359)
                      -.++.|+|.+|+|||+|+..++...  ....+ .-..++|++....++..++ .++++.++....         ...+.+
T Consensus        96 g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~~~~~l~~i~~~~~~~~~  174 (316)
T TIGR02239        96 GSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLNPEDVLDNVAYARAYNTD  174 (316)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCChHHhhccEEEEecCChH
Confidence            5789999999999999999987531  10111 1124789998887777764 444555443221         011223


Q ss_pred             HH---HHHHHHHHhcCCcEEEEEecC
Q 038454          198 SR---ARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       198 ~~---~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      +.   +..+...+...+--|||+|.+
T Consensus       175 ~~~~~l~~~~~~~~~~~~~LvVIDSI  200 (316)
T TIGR02239       175 HQLQLLQQAAAMMSESRFALLIVDSA  200 (316)
T ss_pred             HHHHHHHHHHHhhccCCccEEEEECc
Confidence            32   333333344435668999997

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).

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.86  E-value=0.01  Score=52.21  Aligned_cols=26  Identities=23%  Similarity=0.432  Sum_probs=23.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++..+|+|.|++|+|||||++.+...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999999987

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.86  E-value=0.0053  Score=64.49  Aligned_cols=46  Identities=20%  Similarity=0.321  Sum_probs=35.1

Q ss_pred             cccccccchHHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG-------D--KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .++.+...+..       .  ...++.++|++|+|||++|+.++..
T Consensus       564 ~~~v~GQ~~--av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~  618 (852)
T TIGR03346       564 HERVVGQDE--AVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF  618 (852)
T ss_pred             hcccCCChH--HHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            356899876  66666666642       1  1357889999999999999999987

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.85  E-value=0.0018  Score=54.78  Aligned_cols=22  Identities=27%  Similarity=0.209  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|.|+|++|+||||+|+.++..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~   22 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVEN   22 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999987

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.85  E-value=0.001  Score=57.70  Aligned_cols=28  Identities=32%  Similarity=0.353  Sum_probs=24.7

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..+..+|+|.|.+|+|||||++.++..+
T Consensus         3 ~~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          3 MKKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3456899999999999999999999873

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

Probab=96.84  E-value=0.0016  Score=57.09  Aligned_cols=86  Identities=16%  Similarity=0.209  Sum_probs=53.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCC---------------CCC--
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLS---------------LTE--  192 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~---------------~~~--  192 (359)
                      -.++.|.|.+|+|||+|+.++......  +.=..++||+...++  .++.+.+- +++.+               ...  
T Consensus        19 gs~~li~G~~GsGKT~l~~q~l~~~~~--~~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~~   93 (226)
T PF06745_consen   19 GSVVLISGPPGSGKTTLALQFLYNGLK--NFGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPERI   93 (226)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHH--HHT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGGS
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHhhh--hcCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEecccccc
Confidence            479999999999999999997765111  101247888875543  44433322 23210               000  


Q ss_pred             ---CccHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          193 ---DEDKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       193 ---~~~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                         ..+.......+.+.+...+...+|+|.+
T Consensus        94 ~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsl  124 (226)
T PF06745_consen   94 GWSPNDLEELLSKIREAIEELKPDRVVIDSL  124 (226)
T ss_dssp             T-TSCCHHHHHHHHHHHHHHHTSSEEEEETH
T ss_pred             cccccCHHHHHHHHHHHHHhcCCCEEEEECH
Confidence               2456777777777776545579999998

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 ....

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=96.83  E-value=0.00064  Score=55.66  Aligned_cols=25  Identities=32%  Similarity=0.401  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..+|.++|.+|+||||||+++.+.+
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L   26 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRL   26 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999999983

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 ....

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=96.82  E-value=0.004  Score=57.16  Aligned_cols=83  Identities=13%  Similarity=0.158  Sum_probs=52.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -+++-|+|+.|+||||||.++...+   ...-..++|++....++...     +..++.+..     .....++.+....
T Consensus        53 G~ivEi~G~~ssGKttLaL~~ia~~---q~~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~e  124 (322)
T PF00154_consen   53 GRIVEIYGPESSGKTTLALHAIAEA---QKQGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIAE  124 (322)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH---HHTT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHHH
T ss_pred             CceEEEeCCCCCchhhhHHHHHHhh---hcccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHHH
Confidence            4689999999999999999998772   22234588999887766543     344443221     1234555666666


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ..++.+..-++|+|.|
T Consensus       125 ~lirsg~~~lVVvDSv  140 (322)
T PF00154_consen  125 QLIRSGAVDLVVVDSV  140 (322)
T ss_dssp             HHHHTTSESEEEEE-C
T ss_pred             HHhhcccccEEEEecC
Confidence            6666655669999998

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.82  E-value=0.0035  Score=51.20  Aligned_cols=22  Identities=32%  Similarity=0.555  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|.|+|.+|+||||||+.+...
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            5789999999999999999887

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=96.81  E-value=0.022  Score=56.81  Aligned_cols=65  Identities=18%  Similarity=0.225  Sum_probs=43.6

Q ss_pred             cccccccchHHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKL  178 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~  178 (359)
                      +..-+|.++  .++++++++.-      -+-+++..+|++|+|||++|+.++.-+  .+..|    -++++.-.|..++
T Consensus       410 deDHYgm~d--VKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL--nRkFf----RfSvGG~tDvAeI  480 (906)
T KOG2004|consen  410 DEDHYGMED--VKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL--NRKFF----RFSVGGMTDVAEI  480 (906)
T ss_pred             cccccchHH--HHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh--CCceE----EEeccccccHHhh
Confidence            445566655  67777777732      245899999999999999999999874  23322    2455554444443

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.81  E-value=0.0027  Score=53.44  Aligned_cols=23  Identities=22%  Similarity=0.473  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .|.|.|.+|+||||+|+.+.+.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999983

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.81  E-value=0.00098  Score=57.08  Aligned_cols=23  Identities=30%  Similarity=0.482  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ||+|.|.+|+||||+|+.+...+
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L   23 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQIL   23 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999999874

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK08233 hypothetical protein; Provisional

Probab=96.80  E-value=0.001  Score=56.04  Aligned_cols=25  Identities=20%  Similarity=0.339  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..+|+|.|.+|+||||||..++..+
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4789999999999999999999874

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.80  E-value=0.0079  Score=53.30  Aligned_cols=86  Identities=15%  Similarity=0.130  Sum_probs=52.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-----CcCHHHHHHHHHHHhcCCC------CCC-ccHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-----PLDLVKLQAEIAMALKLSL------TED-EDKV  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-----~~~~~~~~~~i~~~l~~~~------~~~-~~~~  197 (359)
                      -.+++|+|.+|+|||||++.+..-.   . .-.+.+++.-.+     .....+...+++...+...      +.. +...
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~L~---~-pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ  114 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILGLE---E-PTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ  114 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHcCc---C-CCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence            4789999999999999999998862   2 222333333211     2223445566666666422      111 2222


Q ss_pred             HHHHHHHHHHhcCCcEEEEEecC
Q 038454          198 SRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       198 ~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ...-.+.+.|.- ++-|+|.|..
T Consensus       115 rQRi~IARALal-~P~liV~DEp  136 (268)
T COG4608         115 RQRIGIARALAL-NPKLIVADEP  136 (268)
T ss_pred             hhhHHHHHHHhh-CCcEEEecCc
Confidence            333445566666 8999999987

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.79  E-value=0.018  Score=53.41  Aligned_cols=25  Identities=28%  Similarity=0.290  Sum_probs=22.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -...+.++|+.|+||||+|..++..
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~   44 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQA   44 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHH
Confidence            3457899999999999999999877

>PTZ00035 Rad51 protein; Provisional

Probab=96.79  E-value=0.0096  Score=55.50  Aligned_cols=89  Identities=13%  Similarity=0.176  Sum_probs=53.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccc---cC-CCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC---------CCccH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEE---TN-EFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT---------EDEDK  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~-~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~---------~~~~~  196 (359)
                      -.++.|+|.+|+|||+|+..++-. ...   .+ .=..++|++....++..++ .++++.++....         ...+.
T Consensus       118 G~iteI~G~~GsGKT~l~~~l~~~-~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~~~~~~~~  195 (337)
T PTZ00035        118 GSITELFGEFRTGKTQLCHTLCVT-CQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIAYARAYNH  195 (337)
T ss_pred             CeEEEEECCCCCchhHHHHHHHHH-hccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceEEEccCCH
Confidence            478999999999999999988754 111   11 1124679988777777664 444555544211         11222


Q ss_pred             HHHHH---HHHHHHhcCCcEEEEEecC
Q 038454          197 VSRAR---RLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~---~l~~~l~~~k~~LlVlDdv  220 (359)
                      ++...   .+...+...+--|||+|.+
T Consensus       196 e~~~~~l~~~~~~l~~~~~~lvVIDSi  222 (337)
T PTZ00035        196 EHQMQLLSQAAAKMAEERFALLIVDSA  222 (337)
T ss_pred             HHHHHHHHHHHHHhhccCccEEEEECc
Confidence            33333   3333343435669999997

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.78  E-value=0.0062  Score=56.99  Aligned_cols=88  Identities=15%  Similarity=0.135  Sum_probs=53.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      +.+++.++|+.|+||||++..++..+  .... ..+.+++.... ....+-++.....++.+.....+..+....+. .+
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l--~~~g-~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~-~l  280 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQL--LKQN-RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQ-YM  280 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHcC-CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHH-HH
Confidence            46799999999999999999998763  1222 24666766433 23345566666666654333345555544343 33


Q ss_pred             h-cCCcEEEEEecC
Q 038454          208 K-AKKKFVLILDDI  220 (359)
Q Consensus       208 ~-~~k~~LlVlDdv  220 (359)
                      . .+..-++++|-.
T Consensus       281 ~~~~~~D~VLIDTA  294 (407)
T PRK12726        281 TYVNCVDHILIDTV  294 (407)
T ss_pred             HhcCCCCEEEEECC
Confidence            3 114567777876

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.78  E-value=0.08  Score=54.48  Aligned_cols=45  Identities=22%  Similarity=0.354  Sum_probs=31.9

Q ss_pred             ccccccchHHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .+..+.+.+.  ......|.|+|..|+|||++|+.+++.
T Consensus       376 ~~liG~S~--~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~  422 (686)
T PRK15429        376 GEIIGRSE--AMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNL  422 (686)
T ss_pred             cceeecCH--HHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            36888876  4444433332  122356999999999999999999886

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.77  E-value=0.0061  Score=59.39  Aligned_cols=161  Identities=18%  Similarity=0.266  Sum_probs=89.3

Q ss_pred             cccccccchHHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -+++||.+.  ....|...+..++ ..-....|+-|+||||+|+-++.-+  ...+     | ....+++.=...+.|..
T Consensus        15 F~evvGQe~--v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~Akal--NC~~-----~-~~~ePC~~C~~Ck~I~~   84 (515)
T COG2812          15 FDDVVGQEH--VVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKAL--NCEN-----G-PTAEPCGKCISCKEINE   84 (515)
T ss_pred             HHHhcccHH--HHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHh--cCCC-----C-CCCCcchhhhhhHhhhc
Confidence            356799866  7788888887765 3567889999999999999988762  1110     0 00111111111122221


Q ss_pred             Hh-----cCCCCCCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eE-EEeec-----
Q 038454          185 AL-----KLSLTEDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TF-CWGLR-----  230 (359)
Q Consensus       185 ~l-----~~~~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~i-lvTtr-----  230 (359)
                      .-     ..+.. .....+-.+.+.+...-    .+.-+.|+|.|                  .+. .+ +.||-     
T Consensus        85 g~~~DviEiDaA-Sn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip  163 (515)
T COG2812          85 GSLIDVIEIDAA-SNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIP  163 (515)
T ss_pred             CCcccchhhhhh-hccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCc
Confidence            10     00000 01112223333333321    35568899999                  334 44 44554     


Q ss_pred             ---ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCc
Q 038454          231 ---SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGL  280 (359)
Q Consensus       231 ---~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~  280 (359)
                         ...|+.|.+..++.++-...+...+...+.   ....+...-|++...|.
T Consensus       164 ~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I---~~e~~aL~~ia~~a~Gs  213 (515)
T COG2812         164 NTILSRCQRFDFKRLDLEEIAKHLAAILDKEGI---NIEEDALSLIARAAEGS  213 (515)
T ss_pred             hhhhhccccccccCCCHHHHHHHHHHHHHhcCC---ccCHHHHHHHHHHcCCC
Confidence               345678999999999888888877644322   12234445555555553

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.77  E-value=0.0073  Score=52.80  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +|+|.|.+|+||||||+.+...+
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999873

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.77  E-value=0.0057  Score=64.00  Aligned_cols=46  Identities=17%  Similarity=0.300  Sum_probs=34.1

Q ss_pred             cccccccchHHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG-------D--KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .+..+...+..       .  ....+.++|++|+|||+||+.+++.
T Consensus       508 ~~~v~GQ~~--ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~  562 (821)
T CHL00095        508 HKRIIGQDE--AVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASY  562 (821)
T ss_pred             cCcCcChHH--HHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHH
Confidence            356888866  66666665531       1  1345779999999999999999987

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.76  E-value=0.025  Score=57.49  Aligned_cols=46  Identities=24%  Similarity=0.246  Sum_probs=32.0

Q ss_pred             cccccch-HHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENT-KKIVKKVWEDLMGD---------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~-~~~~~~l~~~l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.|.+. .+.+.+++.++.+.         -.+-|.++|++|+|||++|+.+++.
T Consensus       153 di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~  208 (644)
T PRK10733        153 DVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE  208 (644)
T ss_pred             HHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence            3455443 44455666655431         1345999999999999999999987

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.75  E-value=0.0028  Score=54.46  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.|.|+.|+||||++..+...
T Consensus         2 GlilI~GptGSGKTTll~~ll~~   24 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDY   24 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999988877

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.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.73  E-value=0.0043  Score=50.46  Aligned_cols=44  Identities=25%  Similarity=0.315  Sum_probs=33.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLS  189 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~  189 (359)
                      +|.|.|++|+||||+|+.+++++   .-.|     |      +...+++++++..+.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~---gl~~-----v------saG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL---GLKL-----V------SAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh---CCce-----e------eccHHHHHHHHHcCCC
Confidence            68999999999999999999983   1111     1      3346788888887764

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.73  E-value=0.0094  Score=52.48  Aligned_cols=48  Identities=15%  Similarity=0.124  Sum_probs=32.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  182 (359)
                      -.++.|.|.+|+||||||.+++...  .... ..++|++...  +..++++.+
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~--~~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGF--LQNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH--HhCC-CcEEEEeCCC--CHHHHHHHH
Confidence            4689999999999999987776652  1222 2356666333  455665555

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.73  E-value=0.033  Score=51.84  Aligned_cols=43  Identities=23%  Similarity=0.292  Sum_probs=29.0

Q ss_pred             ccccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          109 LVGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       109 ~vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|.+.  .+.++.+.+..  .....|.|+|..|+||+++|+.+.+.
T Consensus         1 liG~S~--~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~   45 (329)
T TIGR02974         1 LIGESN--AFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYL   45 (329)
T ss_pred             CCcCCH--HHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHh
Confidence            466665  34443333321  22355899999999999999998876

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

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.73  E-value=0.02  Score=49.82  Aligned_cols=48  Identities=21%  Similarity=0.340  Sum_probs=35.1

Q ss_pred             CcccccccchHHHHHHHHH----HhcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          105 PTTTLVGENTKKIVKKVWE----DLMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~----~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .-..++|.+.  ..+.|++    ++..-...-|.+||.-|+|||+|++++.+.+
T Consensus        58 ~L~~l~Gvd~--qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~  109 (287)
T COG2607          58 DLADLVGVDR--QKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEY  109 (287)
T ss_pred             CHHHHhCchH--HHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHH
Confidence            3457889876  4444443    3333455679999999999999999999883

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.72  E-value=0.0014  Score=52.95  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|.+.|++|+||||+|+.+...
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999876

...

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

Probab=96.72  E-value=0.0058  Score=62.83  Aligned_cols=45  Identities=18%  Similarity=0.271  Sum_probs=33.9

Q ss_pred             ccccccchHHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMG---------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .++.|...+..         .....+.++|++|+|||+||+.++..
T Consensus       458 ~~ViGQ~~--ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~  511 (758)
T PRK11034        458 MLVFGQDK--AIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA  511 (758)
T ss_pred             ceEeCcHH--HHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHH
Confidence            45788866  66666665531         12457899999999999999999987

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.72  E-value=0.0041  Score=52.65  Aligned_cols=44  Identities=18%  Similarity=0.130  Sum_probs=30.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      ++.|.|.+|+|||+||.+++....  +.. ..++|++...  +..++.+
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~--~~g-~~v~~~s~e~--~~~~~~~   44 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGL--ARG-EPGLYVTLEE--SPEELIE   44 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH--HCC-CcEEEEECCC--CHHHHHH
Confidence            368999999999999999877621  222 3477887654  3444433

A related protein is found in archaea.

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

Probab=96.71  E-value=0.44  Score=43.04  Aligned_cols=69  Identities=16%  Similarity=0.328  Sum_probs=45.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA  209 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  209 (359)
                      -+-|.++|++|.||+-||++|+.. ..  .     -|+++|..        .+.+...      ...+.+...+.+.-+.
T Consensus       166 wrgiLLyGPPGTGKSYLAKAVATE-An--S-----TFFSvSSS--------DLvSKWm------GESEkLVknLFemARe  223 (439)
T KOG0739|consen  166 WRGILLYGPPGTGKSYLAKAVATE-AN--S-----TFFSVSSS--------DLVSKWM------GESEKLVKNLFEMARE  223 (439)
T ss_pred             ceeEEEeCCCCCcHHHHHHHHHhh-cC--C-----ceEEeehH--------HHHHHHh------ccHHHHHHHHHHHHHh
Confidence            467999999999999999999987 22  2     23344432        1111111      1335566666666666


Q ss_pred             CCcEEEEEecC
Q 038454          210 KKKFVLILDDI  220 (359)
Q Consensus       210 ~k~~LlVlDdv  220 (359)
                      +++.+|.+|.+
T Consensus       224 ~kPSIIFiDEi  234 (439)
T KOG0739|consen  224 NKPSIIFIDEI  234 (439)
T ss_pred             cCCcEEEeehh
Confidence            68888888888

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.70  E-value=0.0078  Score=56.99  Aligned_cols=89  Identities=12%  Similarity=0.099  Sum_probs=53.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCccccc-CCCccEEEEEeCCC-cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEET-NEFSDVIWVTVSQP-LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGK  206 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~  206 (359)
                      ...+|.++|+.|+||||.+..++..+.... ..-..+..++.... ......++..++.++.+.....+.......+.+ 
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~-  251 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQ-  251 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHH-
Confidence            357999999999999999999987732111 11123555655432 223344666677676654333444444333333 


Q ss_pred             HhcCCcEEEEEecC
Q 038454          207 LKAKKKFVLILDDI  220 (359)
Q Consensus       207 l~~~k~~LlVlDdv  220 (359)
                      + . +.-++++|..
T Consensus       252 ~-~-~~DlVLIDTa  263 (388)
T PRK12723        252 S-K-DFDLVLVDTI  263 (388)
T ss_pred             h-C-CCCEEEEcCC
Confidence            2 2 5668888987

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.70  E-value=0.0019  Score=63.23  Aligned_cols=44  Identities=14%  Similarity=0.268  Sum_probs=37.4

Q ss_pred             cccccchHHHHHHHHHHh------cCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENTKKIVKKVWEDL------MGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l------~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|.+.  .++++++.+      .+..-+++.++|++|+||||||+.+++-
T Consensus        77 d~yGlee--~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~  126 (644)
T PRK15455         77 EFYGMEE--AIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSL  126 (644)
T ss_pred             cccCcHH--HHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHH
Confidence            5789866  888888877      3456689999999999999999999987

>PRK06762 hypothetical protein; Provisional

Probab=96.68  E-value=0.0013  Score=54.65  Aligned_cols=24  Identities=38%  Similarity=0.545  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+|.|.|++|+||||+|+.+.+.
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999987

>PRK05973 replicative DNA helicase; Provisional

Probab=96.68  E-value=0.015  Score=51.26  Aligned_cols=47  Identities=11%  Similarity=0.062  Sum_probs=31.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAE  181 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  181 (359)
                      -.++.|.|.+|+|||+++.+++...  ..+. ..++|++....  ..++...
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~~--a~~G-e~vlyfSlEes--~~~i~~R  110 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVEA--MKSG-RTGVFFTLEYT--EQDVRDR  110 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHH--HhcC-CeEEEEEEeCC--HHHHHHH
Confidence            3689999999999999999988762  1222 34667666543  3444444

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.67  E-value=0.02  Score=50.30  Aligned_cols=40  Identities=28%  Similarity=0.277  Sum_probs=29.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      -.++.|.|.+|+||||||.+++....  . .-..++|++....
T Consensus        20 G~~~~i~G~~G~GKT~l~~~~~~~~~--~-~g~~~~~is~e~~   59 (229)
T TIGR03881        20 GFFVAVTGEPGTGKTIFCLHFAYKGL--R-DGDPVIYVTTEES   59 (229)
T ss_pred             CeEEEEECCCCCChHHHHHHHHHHHH--h-cCCeEEEEEccCC
Confidence            47899999999999999998776521  1 2235788876443

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.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.66  E-value=0.0041  Score=51.35  Aligned_cols=30  Identities=30%  Similarity=0.432  Sum_probs=25.8

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          125 LMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       125 l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +...+..+|-++|++|.||||+|.+++..+
T Consensus        18 ~~~~~~~viW~TGLSGsGKSTiA~ale~~L   47 (197)
T COG0529          18 LKGQKGAVIWFTGLSGSGKSTIANALEEKL   47 (197)
T ss_pred             HhCCCCeEEEeecCCCCCHHHHHHHHHHHH
Confidence            344556899999999999999999999983

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.66  E-value=0.0015  Score=45.73  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +|+|.|.+|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999873

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.64  E-value=0.011  Score=50.31  Aligned_cols=42  Identities=14%  Similarity=0.210  Sum_probs=28.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCC-------ccEEEEEeCCC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEF-------SDVIWVTVSQP  172 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-------~~~~wv~~~~~  172 (359)
                      .++.|.|.+|+||||++..++..+..-...|       ..++|++....
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            5899999999999999999988742211111       25788876655

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.64  E-value=0.042  Score=47.13  Aligned_cols=24  Identities=25%  Similarity=0.419  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|.|++|+|||||.+.+..-
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~L   51 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNGL   51 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            468999999999999999988764

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.64  E-value=0.0055  Score=58.15  Aligned_cols=85  Identities=13%  Similarity=0.118  Sum_probs=44.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      ..++.++|++|+||||++..++..+ .....+ .+..++... .......+...+..++.+.....+    ...+.+.+.
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~-~~~~G~-~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~----~~~l~~~l~  296 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY-FLHMGK-SVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKD----IKKFKETLA  296 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-HHhcCC-eEEEecccchhhhHHHHHHHHHHhcCCCeeehHH----HHHHHHHHH
Confidence            4689999999999999999998762 112222 233333322 122333444444555543321111    223444443


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      ....-++++|-.
T Consensus       297 ~~~~D~VLIDTa  308 (432)
T PRK12724        297 RDGSELILIDTA  308 (432)
T ss_pred             hCCCCEEEEeCC
Confidence            323345777753

>PTZ00301 uridine kinase; Provisional

Probab=96.63  E-value=0.0015  Score=56.67  Aligned_cols=24  Identities=33%  Similarity=0.545  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|.|.+|+||||||+.+.+.
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~   26 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSE   26 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHH
Confidence            468999999999999999988876

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.63  E-value=0.0095  Score=56.96  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.+|.++|++|+||||++..++..
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~  123 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYY  123 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3689999999999999999998876

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.

>PRK12678 transcription termination factor Rho; Provisional

Probab=96.63  E-value=0.0029  Score=61.86  Aligned_cols=89  Identities=21%  Similarity=0.162  Sum_probs=48.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEE-EEEeCCCcC-HHHHHHHHHHHhcCCCCCCcc-----HHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVI-WVTVSQPLD-LVKLQAEIAMALKLSLTEDED-----KVSRARR  202 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~-wv~~~~~~~-~~~~~~~i~~~l~~~~~~~~~-----~~~~~~~  202 (359)
                      -.-.+|+|.+|+|||||++.+++.+  ..++-++.+ .+-+.+... +.++.+.+-..+-....+...     .....-.
T Consensus       416 GQR~LIvgpp~aGKTtLL~~IAn~i--~~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~~~~a~~ai~  493 (672)
T PRK12678        416 GQRGLIVSPPKAGKTTILQNIANAI--TTNNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIE  493 (672)
T ss_pred             CCEeEEeCCCCCCHHHHHHHHHHHH--hhcCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHHHHHHHHHHH
Confidence            3568999999999999999999973  223334433 444555433 333333321111111111111     1122233


Q ss_pred             HHHHHhc-CCcEEEEEecC
Q 038454          203 LLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       203 l~~~l~~-~k~~LlVlDdv  220 (359)
                      +.+++.. ++.+||++|++
T Consensus       494 ~Ae~fre~G~dVlillDSl  512 (672)
T PRK12678        494 RAKRLVELGKDVVVLLDSI  512 (672)
T ss_pred             HHHHHHHcCCCEEEEEeCc
Confidence            3445533 59999999999

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=96.63  E-value=0.0071  Score=52.52  Aligned_cols=85  Identities=20%  Similarity=0.408  Sum_probs=51.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhc-------CCCCCCccHHH----
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALK-------LSLTEDEDKVS----  198 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~-------~~~~~~~~~~~----  198 (359)
                      ..++|.|.+|+|||+|+..+.+. .    .-+.++++.+++. ....++.+++...-.       ....+......    
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~-~----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~   90 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANN-Q----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAP   90 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH-C----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhc-c----cccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhh
Confidence            57999999999999999999988 2    2344578888765 355666666644311       11111111111    


Q ss_pred             -HHHHHHHHHhc-CCcEEEEEecC
Q 038454          199 -RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       199 -~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                       ..-.+.++++. ++++|+++||+
T Consensus        91 ~~a~t~AEyfrd~G~dVlli~Dsl  114 (215)
T PF00006_consen   91 YTALTIAEYFRDQGKDVLLIIDSL  114 (215)
T ss_dssp             HHHHHHHHHHHHTTSEEEEEEETH
T ss_pred             ccchhhhHHHhhcCCceeehhhhh
Confidence             11222344432 49999999997

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.62  E-value=0.0019  Score=56.70  Aligned_cols=22  Identities=27%  Similarity=0.536  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|.|++|+||||+|+.+++.
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999887

>TIGR00235 udk uridine kinase

Probab=96.62  E-value=0.0018  Score=56.05  Aligned_cols=25  Identities=40%  Similarity=0.531  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|+|++|+|||||++.++..
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999886

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK14527 adenylate kinase; Provisional

Probab=96.61  E-value=0.0034  Score=53.58  Aligned_cols=25  Identities=20%  Similarity=0.210  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|.|+|++|+||||+|+.+++.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~   29 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQE   29 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999999877

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.60  E-value=0.015  Score=52.50  Aligned_cols=88  Identities=19%  Similarity=0.220  Sum_probs=47.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhcCCC---CCCccHHHHH-HHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALKLSL---TEDEDKVSRA-RRL  203 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~---~~~~~~~~~~-~~l  203 (359)
                      +.+++.++|++|+||||++..++..+.  ... ..+.+++.... ....+-+.......+.+.   ....+..... ..+
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~--~~g-~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l  147 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLK--KQG-KSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAI  147 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH--hcC-CEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHH
Confidence            458999999999999999999987731  222 23556654321 112233444455554321   1122232222 333


Q ss_pred             HHHHhcCCcEEEEEecC
Q 038454          204 LGKLKAKKKFVLILDDI  220 (359)
Q Consensus       204 ~~~l~~~k~~LlVlDdv  220 (359)
                      ...... ..-++++|-.
T Consensus       148 ~~~~~~-~~D~ViIDT~  163 (272)
T TIGR00064       148 QKAKAR-NIDVVLIDTA  163 (272)
T ss_pred             HHHHHC-CCCEEEEeCC
Confidence            333333 4557777876

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.60  E-value=0.0058  Score=57.66  Aligned_cols=85  Identities=19%  Similarity=0.210  Sum_probs=49.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCC-ccHHHHHHHHHHHHh
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTED-EDKVSRARRLLGKLK  208 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~l~~~l~  208 (359)
                      -.++.|.|.+|+|||||+.+++...   ...-..++|++..+.  ..++ ..-+..++...... ...+.....+.+.+.
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~---a~~g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~  155 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARL---AKRGGKVLYVSGEES--PEQI-KLRADRLGISTENLYLLAETNLEDILASIE  155 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHHH
Confidence            3689999999999999999998773   222235778876543  3332 22234455422110 000111233333443


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      ..+.-+||+|.+
T Consensus       156 ~~~~~lVVIDSI  167 (372)
T cd01121         156 ELKPDLVIIDSI  167 (372)
T ss_pred             hcCCcEEEEcch
Confidence            336778999997

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.

>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=96.59  E-value=0.04  Score=46.44  Aligned_cols=85  Identities=20%  Similarity=0.247  Sum_probs=49.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEE---eCCCcCHHHHH------HHHHHHhcCCC------CCCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT---VSQPLDLVKLQ------AEIAMALKLSL------TEDE  194 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~---~~~~~~~~~~~------~~i~~~l~~~~------~~~~  194 (359)
                      -.+++|.|..|.|||||++.++...    ....+.+++.   +.. .+.....      .+++..++...      ..-+
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~----~~~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS   99 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLL----KPSSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELS   99 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCC
Confidence            3689999999999999999998862    2233444432   211 1221211      12344444321      1122


Q ss_pred             cHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          195 DKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       195 ~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ......-.+.+.+.. .+-++++|+-
T Consensus       100 ~G~~qrl~laral~~-~p~llllDEP  124 (180)
T cd03214         100 GGERQRVLLARALAQ-EPPILLLDEP  124 (180)
T ss_pred             HHHHHHHHHHHHHhc-CCCEEEEeCC
Confidence            333444455666666 7889999997

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.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.59  E-value=0.0078  Score=61.55  Aligned_cols=83  Identities=13%  Similarity=0.142  Sum_probs=56.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -+++-|+|.+|+|||||+.+++.. ..  ..=..++|++....++..     .+++++.+..     ...+.+.....+.
T Consensus        60 GsiteI~G~~GsGKTtLal~~~~~-a~--~~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~i~  131 (790)
T PRK09519         60 GRVIEIYGPESSGKTTVALHAVAN-AQ--AAGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  131 (790)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH-HH--HcCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHHHH
Confidence            478999999999999999887665 21  122347899887776642     5666665322     2334455555566


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ..+..++--|||+|.+
T Consensus       132 ~lv~~~~~~LVVIDSI  147 (790)
T PRK09519        132 MLIRSGALDIVVIDSV  147 (790)
T ss_pred             HHhhcCCCeEEEEcch
Confidence            6565556779999998

>PRK07667 uridine kinase; Provisional

Probab=96.58  E-value=0.0029  Score=54.11  Aligned_cols=25  Identities=20%  Similarity=0.384  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|.|.+|+||||+|..+...
T Consensus        16 ~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667         16 NRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4479999999999999999999987

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.57  E-value=0.0017  Score=54.97  Aligned_cols=25  Identities=28%  Similarity=0.251  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.++|.|.|++|+||||+|+.++..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~   26 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEK   26 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999876

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.

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.57  E-value=0.0075  Score=54.35  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=19.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +.|.|.|.+|+||||+|+.+...+
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~   25 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYL   25 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHH
Confidence            468999999999999999999884

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.57  E-value=0.012  Score=56.21  Aligned_cols=86  Identities=12%  Similarity=0.209  Sum_probs=52.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHH----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKV----  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~----  197 (359)
                      -..++|+|..|+|||||++.+++.   .  ..+.++++-+++.. ...++...++..-+.       ...+.....    
T Consensus       162 GqrigI~G~sG~GKSTLL~~I~~~---~--~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a  236 (444)
T PRK08972        162 GQRMGLFAGSGVGKSVLLGMMTRG---T--TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKG  236 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccC---C--CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHH
Confidence            467999999999999999999876   1  22455666666654 445666665544221       111111111    


Q ss_pred             -HHHHHHHHHHhc-CCcEEEEEecC
Q 038454          198 -SRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 -~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                       ...-.+.+++++ ++++||++||+
T Consensus       237 ~~~A~tiAEyfrd~G~~VLl~~Dsl  261 (444)
T PRK08972        237 CETATTIAEYFRDQGLNVLLLMDSL  261 (444)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEEcCh
Confidence             112234455533 59999999999

>PRK06217 hypothetical protein; Validated

Probab=96.57  E-value=0.0041  Score=52.72  Aligned_cols=23  Identities=26%  Similarity=0.414  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .|.|.|.+|+||||||+.+...+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999883

>PRK03839 putative kinase; Provisional

Probab=96.57  E-value=0.0017  Score=54.89  Aligned_cols=22  Identities=27%  Similarity=0.525  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|.|++|+||||+++.+++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999998

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.56  E-value=0.0045  Score=49.75  Aligned_cols=42  Identities=24%  Similarity=0.235  Sum_probs=30.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          133 IGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      |.++|++|+|||+||+.+++.+   ..   ...-+.++...+..++..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~~---~~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---GR---PVIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---TC---EEEEEE-TTTSTHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---hc---ceEEEEecccccccccee
Confidence            6899999999999999999882   11   234466777777776643

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.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.56  E-value=0.0089  Score=57.35  Aligned_cols=87  Identities=16%  Similarity=0.253  Sum_probs=49.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh-----cCCCCCCccHH------H
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL-----KLSLTEDEDKV------S  198 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l-----~~~~~~~~~~~------~  198 (359)
                      -..++|+|.+|+|||||++.++.. .   ....++++..-....++.++....+...     ..-........      .
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l-~---~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~  240 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARA-D---AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPL  240 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC-C---CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHH
Confidence            357999999999999999988866 2   1223455544334445555544444332     11111111111      1


Q ss_pred             HHHHHHHHHhc-CCcEEEEEecC
Q 038454          199 RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       199 ~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ..-.+.+++++ ++++|+++||+
T Consensus       241 ~a~~iAEyfrd~G~~Vll~~Dsl  263 (450)
T PRK06002        241 TATAIAEYFRDRGENVLLIVDSV  263 (450)
T ss_pred             HHHHHHHHHHHcCCCEEEeccch
Confidence            22234455543 59999999999

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.56  E-value=0.007  Score=50.81  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..+|+|+|++|+||||+|+.++..+
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999883

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.55  E-value=0.02  Score=51.40  Aligned_cols=90  Identities=18%  Similarity=0.213  Sum_probs=56.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccc--cCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccH---
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEE--TNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDK---  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~---  196 (359)
                      -..++|.|.+|+|||+|+..+.++ ...  +++-+.++++-+++.. ...++...+...=..       ...+....   
T Consensus        69 GQR~gIfgg~GvGKt~L~~~i~~~-~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~  147 (276)
T cd01135          69 GQKIPIFSGSGLPHNELAAQIARQ-AGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERI  147 (276)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHh-hhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHH
Confidence            356899999999999999999887 321  1234678888887764 456666666553211       11111111   


Q ss_pred             --HHHHHHHHHHHhc--CCcEEEEEecC
Q 038454          197 --VSRARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       197 --~~~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                        ....-.+.++++.  ++++|+++||+
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~l  175 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDM  175 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcCh
Confidence              1122334566654  38999999998

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

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

Probab=96.55  E-value=0.046  Score=53.97  Aligned_cols=25  Identities=20%  Similarity=0.315  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.+.++|++|.|||.||+++++.
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~  299 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALE  299 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhh
Confidence            4568999999999999999999996

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

Probab=96.54  E-value=0.016  Score=53.93  Aligned_cols=26  Identities=23%  Similarity=0.443  Sum_probs=24.1

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+..++|||++|+|||.+|+.+++.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            45788999999999999999999998

>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=96.53  E-value=0.025  Score=47.52  Aligned_cols=22  Identities=23%  Similarity=0.264  Sum_probs=20.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHIN  151 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~  151 (359)
                      -.+++|+|+.|+|||||.+.+.
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4689999999999999999886

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.52  E-value=0.013  Score=52.75  Aligned_cols=27  Identities=19%  Similarity=0.287  Sum_probs=23.9

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++....++|+|+.|+|||||.+.++..
T Consensus       108 ~~~~~~~~i~g~~g~GKttl~~~l~~~  134 (270)
T TIGR02858       108 NNRVLNTLIISPPQCGKTTLLRDLARI  134 (270)
T ss_pred             CCCeeEEEEEcCCCCCHHHHHHHHhCc
Confidence            445678999999999999999999987

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.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.52  E-value=0.01  Score=58.23  Aligned_cols=86  Identities=14%  Similarity=0.156  Sum_probs=55.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCC---------------CCC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSL---------------TED  193 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~---------------~~~  193 (359)
                      .-.++.|.|.+|+|||||+.+++...   ...-..+++++..+  +..++.... +.++.+.               +..
T Consensus       262 ~gs~~li~G~~G~GKt~l~~~f~~~~---~~~ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~~  335 (484)
T TIGR02655       262 KDSIILATGATGTGKTLLVSKFLENA---CANKERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPES  335 (484)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH---HHCCCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEccccc
Confidence            34789999999999999999998872   12223467776554  444444443 3444321               112


Q ss_pred             ccHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          194 EDKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       194 ~~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ...++.+..+.+.+...+.-++|+|.+
T Consensus       336 ~~~~~~~~~i~~~i~~~~~~~vvIDsi  362 (484)
T TIGR02655       336 AGLEDHLQIIKSEIADFKPARIAIDSL  362 (484)
T ss_pred             CChHHHHHHHHHHHHHcCCCEEEEcCH
Confidence            334667777777776646668899987

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.52  E-value=0.024  Score=47.71  Aligned_cols=24  Identities=25%  Similarity=0.487  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|.|..|+|||||++.++..
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            368999999999999999999887

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.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.52  E-value=0.013  Score=53.22  Aligned_cols=26  Identities=19%  Similarity=0.170  Sum_probs=22.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.+|+|.|..|+||||+|+.+..-
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~l   85 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQAL   85 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999877654

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.46  E-value=0.0056  Score=57.95  Aligned_cols=46  Identities=26%  Similarity=0.331  Sum_probs=33.4

Q ss_pred             cccccccchHHHHHHHHHHhcCC--------------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGD--------------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~--------------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .+..+...+.+.              .++-|.++|++|+|||++|+.++..
T Consensus        11 d~~IiGQ~e--Akk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~   70 (441)
T TIGR00390        11 DKYIIGQDN--AKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL   70 (441)
T ss_pred             hhhccCHHH--HHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            356888865  555544333221              2467999999999999999999988

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.46  E-value=0.064  Score=53.50  Aligned_cols=47  Identities=17%  Similarity=0.278  Sum_probs=34.3

Q ss_pred             CcccccccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          105 PTTTLVGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....++|.+.  .+.++.+.+..  .....|.|+|..|+|||++|+.+++.
T Consensus       194 ~~~~liG~s~--~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~  242 (534)
T TIGR01817       194 KEDGIIGKSP--AMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYL  242 (534)
T ss_pred             ccCceEECCH--HHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHh
Confidence            3467899987  55555544421  22345789999999999999999887

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.45  E-value=0.0082  Score=51.54  Aligned_cols=26  Identities=19%  Similarity=0.311  Sum_probs=23.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+|+|+|++|+||||||+.+...
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~   47 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEA   47 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45679999999999999999999987

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.45  E-value=0.0053  Score=61.81  Aligned_cols=76  Identities=11%  Similarity=0.116  Sum_probs=55.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      -+.++|.+.  .++.|...+..+  +.+.++|.+|+||||+|+.+++.+  ....++..+|..- ...+...+++.++.+
T Consensus        30 ~~~vigq~~--a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l--~~~~~~~~~~~~n-p~~~~~~~~~~v~~~  102 (637)
T PRK13765         30 IDQVIGQEH--AVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELL--PKEELQDILVYPN-PEDPNNPKIRTVPAG  102 (637)
T ss_pred             HHHcCChHH--HHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHc--ChHhHHHheEeeC-CCcchHHHHHHHHHh
Confidence            457888755  677776666655  479999999999999999999874  3344677788655 344677777877776


Q ss_pred             hcC
Q 038454          186 LKL  188 (359)
Q Consensus       186 l~~  188 (359)
                      ++.
T Consensus       103 ~G~  105 (637)
T PRK13765        103 KGK  105 (637)
T ss_pred             cCH
Confidence            654

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.44  E-value=0.0026  Score=53.15  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|.|+|++|+||||+|+.++..
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999998

>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=96.42  E-value=0.033  Score=46.84  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|..|+|||||++.+..-
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl   48 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQ   48 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            368999999999999999999876

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.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.42  E-value=0.0038  Score=50.43  Aligned_cols=39  Identities=18%  Similarity=0.267  Sum_probs=28.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      ++|.|+|..|+|||||++.+.+.+  ....+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l--~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL--KRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH--HHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH--hHcCCceEEEEEccC
Confidence            579999999999999999999984  345566555665544

>PRK08149 ATP synthase SpaL; Validated

Probab=96.42  E-value=0.016  Score=55.44  Aligned_cols=87  Identities=14%  Similarity=0.258  Sum_probs=51.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcC-------CCCCCccH----
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKL-------SLTEDEDK----  196 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~-------~~~~~~~~----  196 (359)
                      .-..++|+|.+|+|||||+..+++. .    .-+.+++..+.. ..+..++....+.....       ...+....    
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~-~----~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~  224 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEH-S----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCN  224 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcC-C----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHh
Confidence            3467999999999999999999876 2    223333444443 33566666666654321       11111111    


Q ss_pred             -HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          197 -VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 -~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                       ......+.+++++ ++++||++||+
T Consensus       225 a~~~a~tiAE~fr~~G~~Vll~~Dsl  250 (428)
T PRK08149        225 AALVATTVAEYFRDQGKRVVLFIDSM  250 (428)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEccch
Confidence             1222334455533 59999999999

>PRK04040 adenylate kinase; Provisional

Probab=96.41  E-value=0.0025  Score=54.31  Aligned_cols=24  Identities=25%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|+|++|+||||+++.+.+.
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~   25 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEK   25 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            358999999999999999999988

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.41  E-value=0.0028  Score=54.57  Aligned_cols=26  Identities=35%  Similarity=0.558  Sum_probs=23.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+.+|+|.|.+|+||||+|+.++..+
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~   32 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL   32 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999984

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

Probab=96.41  E-value=0.023  Score=50.12  Aligned_cols=70  Identities=24%  Similarity=0.378  Sum_probs=42.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      .++=|.++|++|.|||-+|++|+|+   ....|     +.|-..        ++.+.--      .......+.+.+--+
T Consensus       210 ppkgvllygppgtgktl~aravanr---tdacf-----irvigs--------elvqkyv------gegarmvrelf~mar  267 (435)
T KOG0729|consen  210 PPKGVLLYGPPGTGKTLCARAVANR---TDACF-----IRVIGS--------ELVQKYV------GEGARMVRELFEMAR  267 (435)
T ss_pred             CCCceEEeCCCCCchhHHHHHHhcc---cCceE-----EeehhH--------HHHHHHh------hhhHHHHHHHHHHhc
Confidence            4677999999999999999999999   33333     332111        1111100      112234445555555


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      .+|-+++.+|.+
T Consensus       268 tkkaciiffdei  279 (435)
T KOG0729|consen  268 TKKACIIFFDEI  279 (435)
T ss_pred             ccceEEEEeecc
Confidence            557788888888

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=96.39  E-value=0.019  Score=54.95  Aligned_cols=87  Identities=13%  Similarity=0.237  Sum_probs=49.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcC-------CCCCCccHHH----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKL-------SLTEDEDKVS----  198 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~-------~~~~~~~~~~----  198 (359)
                      -..++|+|..|+|||||++.+... .  . ....++...-.+.....++....+..-+.       ...+......    
T Consensus       140 Gq~i~I~G~sG~GKTtLl~~I~~~-~--~-~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~  215 (418)
T TIGR03498       140 GQRLGIFAGSGVGKSTLLSMLARN-T--D-ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAA  215 (418)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCC-C--C-CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHH
Confidence            467999999999999999988877 2  2 12223332223334455566655443221       1111111111    


Q ss_pred             -HHHHHHHHHhc-CCcEEEEEecC
Q 038454          199 -RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       199 -~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                       ..-.+.+++++ ++++||++||+
T Consensus       216 ~~a~~iAEyfrd~G~~Vll~~Dsl  239 (418)
T TIGR03498       216 YTATAIAEYFRDQGKDVLLLMDSV  239 (418)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccch
Confidence             22334555543 48999999999

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.39  E-value=0.51  Score=42.20  Aligned_cols=179  Identities=15%  Similarity=0.218  Sum_probs=100.6

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCccc---ccCCCccEEEEEeCCC---------------------
Q 038454          117 IVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQE---ETNEFSDVIWVTVSQP---------------------  172 (359)
Q Consensus       117 ~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~---------------------  172 (359)
                      ....+.+....+..+-..++|++|.||-|.+..+.+++--   .+-.-+...|.+-+..                     
T Consensus        21 ~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlEitPSDaG  100 (351)
T KOG2035|consen   21 LANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLEITPSDAG  100 (351)
T ss_pred             HHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEEeChhhcC
Confidence            5556666666677889999999999999988877776311   0111223444432221                     


Q ss_pred             cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcE-EEEEecC------------------CCC-eEEEe----
Q 038454          173 LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKF-VLILDDI------------------DNH-TFCWG----  228 (359)
Q Consensus       173 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~-LlVlDdv------------------~~g-~ilvT----  228 (359)
                      ..-.-+.++|+.......+-             ...+.+.| ++|+..+                  .+. ++|+.    
T Consensus       101 ~~DRvViQellKevAQt~qi-------------e~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlIl~cns~  167 (351)
T KOG2035|consen  101 NYDRVVIQELLKEVAQTQQI-------------ETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLILVCNST  167 (351)
T ss_pred             cccHHHHHHHHHHHHhhcch-------------hhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCceEEEEecCc
Confidence            11223344444444322110             00011222 2233222                  222 44443    


Q ss_pred             ec-----ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhcC----------
Q 038454          229 LR-----SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRG----------  293 (359)
Q Consensus       229 tr-----~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~----------  293 (359)
                      ||     ...|-.+.++..+++|....+.+.+-..+...+   .+.+.+|+++++|.---...+...++-          
T Consensus       168 SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp---~~~l~rIa~kS~~nLRrAllmlE~~~~~n~~~~a~~~  244 (351)
T KOG2035|consen  168 SRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP---KELLKRIAEKSNRNLRRALLMLEAVRVNNEPFTANSQ  244 (351)
T ss_pred             ccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc---HHHHHHHHHHhcccHHHHHHHHHHHHhccccccccCC
Confidence            33     334456899999999999999988755544333   688999999998865433333333221          


Q ss_pred             CCChhHHHHHHHHHhhcc
Q 038454          294 VDEIHEWRNALNELRGLV  311 (359)
Q Consensus       294 ~~~~~~w~~~l~~~~~~~  311 (359)
                      .-...+|.-++.+.....
T Consensus       245 ~i~~~dWe~~i~e~a~~i  262 (351)
T KOG2035|consen  245 VIPKPDWEIYIQEIARVI  262 (351)
T ss_pred             CCCCccHHHHHHHHHHHH
Confidence            123568999988876543

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.38  E-value=0.0044  Score=59.82  Aligned_cols=43  Identities=14%  Similarity=0.196  Sum_probs=36.7

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|++.  .++.+...+..+  .-|.|.|++|+|||+||+.+...
T Consensus        20 ~~i~gre~--vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~   62 (498)
T PRK13531         20 KGLYERSH--AIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFA   62 (498)
T ss_pred             hhccCcHH--HHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHH
Confidence            46899966  888888888776  45899999999999999999987

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.38  E-value=0.093  Score=50.95  Aligned_cols=39  Identities=21%  Similarity=0.233  Sum_probs=31.9

Q ss_pred             HHHHHHHHHHhc-----CC--CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          115 KKIVKKVWEDLM-----GD--KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       115 ~~~~~~l~~~l~-----~~--~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++-+.++..||.     .+  +.+++.|.|++|+||||.++.++..
T Consensus        88 kkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLske  133 (634)
T KOG1970|consen   88 KKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKE  133 (634)
T ss_pred             HHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHh
Confidence            445778888887     34  4569999999999999999988876

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.38  E-value=0.017  Score=47.50  Aligned_cols=23  Identities=30%  Similarity=0.268  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|-|++..|.||||+|...+-+
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~r   25 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALR   25 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            57889999999999999988876

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.37  E-value=0.015  Score=48.25  Aligned_cols=82  Identities=16%  Similarity=0.119  Sum_probs=45.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC--CcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ--PLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~--~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      -.+++|.|..|.|||||.+.++...    ....+.+++.-..  ..+..+..   -..++.-. +-+..+...-.+.+.+
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~~g~~~~~~~~~~~~---~~~i~~~~-qLS~G~~qrl~laral   97 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLY----KPDSGEILVDGKEVSFASPRDAR---RAGIAMVY-QLSVGERQMVEIARAL   97 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEECCEECCcCCHHHHH---hcCeEEEE-ecCHHHHHHHHHHHHH
Confidence            3689999999999999999998772    2334445543211  11111111   11111111 1223334444555666


Q ss_pred             hcCCcEEEEEecC
Q 038454          208 KAKKKFVLILDDI  220 (359)
Q Consensus       208 ~~~k~~LlVlDdv  220 (359)
                      .. .+-++++|+-
T Consensus        98 ~~-~p~illlDEP  109 (163)
T cd03216          98 AR-NARLLILDEP  109 (163)
T ss_pred             hc-CCCEEEEECC
Confidence            66 7788888986

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.37  E-value=0.021  Score=54.60  Aligned_cols=87  Identities=17%  Similarity=0.174  Sum_probs=46.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      ..+++++|+.|+||||++..++..+ ......+.+.++.... .....+.+....+.++.+.....+..+....+ ..+.
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~-~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al-~~l~  268 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARA-VIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLML-HELR  268 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHH-HHhc
Confidence            4799999999999999999887652 1112223344444322 22344445556666665543333333333222 2233


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      +  .-++++|-.
T Consensus       269 ~--~d~VLIDTa  278 (420)
T PRK14721        269 G--KHMVLIDTV  278 (420)
T ss_pred             C--CCEEEecCC
Confidence            2  334555554

>PRK00625 shikimate kinase; Provisional

Probab=96.36  E-value=0.0025  Score=53.44  Aligned_cols=22  Identities=23%  Similarity=0.316  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.++|++|+||||+++.++++
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999987

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.35  E-value=0.0025  Score=54.73  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|+|.|.+|+|||||++.+...
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

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

Probab=96.35  E-value=0.04  Score=51.21  Aligned_cols=23  Identities=22%  Similarity=0.327  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +-|.++|++|.|||-||++|+..
T Consensus       246 kgvLm~GPPGTGKTlLAKAvATE  268 (491)
T KOG0738|consen  246 KGVLMVGPPGTGKTLLAKAVATE  268 (491)
T ss_pred             ceeeeeCCCCCcHHHHHHHHHHh
Confidence            46889999999999999999998

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=96.34  E-value=0.011  Score=53.03  Aligned_cols=86  Identities=19%  Similarity=0.189  Sum_probs=49.4

Q ss_pred             ccEEEEEcCCCCcHHHHH-HHHHcCcccccCCCccE-EEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHHH-
Q 038454          130 VTKIGVWGMGGFGKTAIM-RHINNRPQEETNEFSDV-IWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKVS-  198 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~~-~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~~-  198 (359)
                      -..++|.|.+|+|||+|| ..+.+.   .  .-+.+ +++-+++.. ...++.+.+...-..       ...+...... 
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~---~--~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  143 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQ---K--GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQY  143 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHh---c--CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHH
Confidence            357999999999999996 556554   2  22333 666666654 456666666543211       1111111111 


Q ss_pred             ----HHHHHHHHHhc-CCcEEEEEecC
Q 038454          199 ----RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       199 ----~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                          ..-.+.+++.. ++.+||++||+
T Consensus       144 ~a~~~a~aiAE~fr~~G~~Vlvl~Dsl  170 (274)
T cd01132         144 LAPYTGCAMGEYFMDNGKHALIIYDDL  170 (274)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEcCh
Confidence                12333444443 49999999998

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>PRK05439 pantothenate kinase; Provisional

Probab=96.34  E-value=0.022  Score=52.24  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=23.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+-+|+|.|.+|+||||+|+.+...
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~  109 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQAL  109 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45679999999999999999998875

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

Probab=96.34  E-value=0.15  Score=45.00  Aligned_cols=39  Identities=21%  Similarity=0.296  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          115 KKIVKKVWEDLMG-------------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       115 ~~~~~~l~~~l~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++.+++|++.+.-             ..++=+..+|++|.|||-+|++.+.+
T Consensus       177 dkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaq  228 (424)
T KOG0652|consen  177 DKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQ  228 (424)
T ss_pred             HHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHh
Confidence            3467777766521             13567899999999999999998877

>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=96.33  E-value=0.029  Score=46.94  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|..|.|||||.+.++..
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~   51 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGL   51 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhc
Confidence            368999999999999999999876

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

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.33  E-value=0.0047  Score=57.57  Aligned_cols=49  Identities=20%  Similarity=0.419  Sum_probs=42.0

Q ss_pred             cCCcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          103 ILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       103 ~~~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|-+.+||.+.  .+..|+..+.++.+.-|.|.|..|+||||+|+.+++-
T Consensus        13 ~~pf~~ivGq~~--~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~   61 (350)
T CHL00081         13 VFPFTAIVGQEE--MKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDL   61 (350)
T ss_pred             CCCHHHHhChHH--HHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHH
Confidence            455678999966  8888888888888888889999999999999999765

>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=96.33  E-value=0.032  Score=46.69  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|..|.|||||++.++..
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGL   49 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999886

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.

>PRK05922 type III secretion system ATPase; Validated

Probab=96.32  E-value=0.022  Score=54.58  Aligned_cols=87  Identities=14%  Similarity=0.233  Sum_probs=50.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCC-------CCCccH----
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSL-------TEDEDK----  196 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~-------~~~~~~----  196 (359)
                      .-..++|+|..|+|||||.+.+.+. .    ..+...++-++. .......+.+....+....       .+....    
T Consensus       156 ~GqrigI~G~nG~GKSTLL~~Ia~~-~----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~  230 (434)
T PRK05922        156 KGQRIGVFSEPGSGKSSLLSTIAKG-S----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVI  230 (434)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhcc-C----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHH
Confidence            3457999999999999999999877 2    123333333333 2334455555544332211       111111    


Q ss_pred             -HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          197 -VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 -~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                       ....-.+.+++++ ++++||++||+
T Consensus       231 a~~~a~tiAEyfrd~G~~VLl~~Dsl  256 (434)
T PRK05922        231 AGRAAMTIAEYFRDQGHRVLFIMDSL  256 (434)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccch
Confidence             1122334555543 59999999999

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

Probab=96.32  E-value=0.084  Score=52.38  Aligned_cols=48  Identities=19%  Similarity=0.249  Sum_probs=40.5

Q ss_pred             cccccccch-HHHHHHHHHHhcCCC---------ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMGDK---------VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~~~---------~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....-|.+. ++++.++++.|.++.         ++=+.++|++|.|||.||++++..
T Consensus       149 F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgE  206 (596)
T COG0465         149 FADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGE  206 (596)
T ss_pred             hhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcc
Confidence            456778766 778899999998753         456899999999999999999998

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

Probab=96.31  E-value=0.014  Score=54.70  Aligned_cols=84  Identities=19%  Similarity=0.256  Sum_probs=53.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCC-CccHHHHHHHHHHHHh
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTE-DEDKVSRARRLLGKLK  208 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~l~~~l~  208 (359)
                      -.+|.|-|-+|+|||||..+++.++   ...- .++||+--+..  .++ +--+..|+...+. .--.+...+.+.+.+.
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~l---A~~~-~vLYVsGEES~--~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~  165 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARL---AKRG-KVLYVSGEESL--QQI-KLRADRLGLPTNNLYLLAETNLEDIIAELE  165 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHH---HhcC-cEEEEeCCcCH--HHH-HHHHHHhCCCccceEEehhcCHHHHHHHHH
Confidence            4689999999999999999999984   2222 68888755442  222 2334556543221 1112223344445555


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      ..++-|+|+|.+
T Consensus       166 ~~~p~lvVIDSI  177 (456)
T COG1066         166 QEKPDLVVIDSI  177 (456)
T ss_pred             hcCCCEEEEecc
Confidence            558999999999

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.31  E-value=0.034  Score=56.88  Aligned_cols=58  Identities=14%  Similarity=0.139  Sum_probs=34.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKL  188 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~  188 (359)
                      ..+++++|+.|+||||++..++..+.. ......+..++... .....+.++...+.++.
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~-~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gv  243 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVA-REGADQLALLTTDSFRIGALEQLRIYGRILGV  243 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHH-HcCCCeEEEecCcccchHHHHHHHHHHHhCCC
Confidence            469999999999999999999877311 11112344544322 11233444555555554

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=96.30  E-value=0.16  Score=45.64  Aligned_cols=103  Identities=17%  Similarity=0.236  Sum_probs=65.5

Q ss_pred             CcccccccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHH
Q 038454          105 PTTTLVGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  182 (359)
                      ..+.|+|-..   ..+++.++..  ..-+.+.++|+.|+|||+-++.+++..       +....+..+..++...++..+
T Consensus        70 ~~~~~l~tkt---~r~~~~~~~~A~k~g~l~~vyg~~g~gKt~a~~~y~~s~-------p~~~l~~~~p~~~a~~~i~~i  139 (297)
T COG2842          70 LAPDFLETKT---VRRIFFRTRPASKTGSLVVVYGYAGLGKTQAAKNYAPSN-------PNALLIEADPSYTALVLILII  139 (297)
T ss_pred             ccccccccch---hHhHhhhhhhhhhcCceEEEeccccchhHHHHHhhcccC-------ccceeecCChhhHHHHHHHHH
Confidence            3566777654   2233333321  122489999999999999999999871       223334556666666666666


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      +.......  ..........+...+.+ ..-++++|+.
T Consensus       140 ~~~~~~~~--~~~~~d~~~~~~~~l~~-~~~~iivDEA  174 (297)
T COG2842         140 CAAAFGAT--DGTINDLTERLMIRLRD-TVRLIIVDEA  174 (297)
T ss_pred             HHHHhccc--chhHHHHHHHHHHHHcc-Ccceeeeehh
Confidence            66555432  23455566666677777 7788888887

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.30  E-value=0.033  Score=53.46  Aligned_cols=87  Identities=8%  Similarity=0.196  Sum_probs=52.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccH----
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDK----  196 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~----  196 (359)
                      .-..++|+|..|+|||||++.+++. .    ..+.++++-+++.. ...++....+..-+.       ...+....    
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~-~----~~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~  231 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARN-A----DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQ  231 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc-c----CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHH
Confidence            3468999999999999999999987 2    12345556666554 344555555443221       11111111    


Q ss_pred             -HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          197 -VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 -~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                       ....-.+.+++++ ++++|+++||+
T Consensus       232 a~~~a~tiAEyfrd~G~~Vll~~Dsl  257 (442)
T PRK08927        232 AAYLTLAIAEYFRDQGKDVLCLMDSV  257 (442)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCc
Confidence             1112234455533 59999999999

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=96.30  E-value=0.0024  Score=49.03  Aligned_cols=22  Identities=23%  Similarity=0.534  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCc
Q 038454          133 IGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      |-|+|.+|+|||+||..++..+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999988773

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

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.30  E-value=0.006  Score=56.75  Aligned_cols=47  Identities=23%  Similarity=0.408  Sum_probs=38.7

Q ss_pred             CcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          105 PTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |-+.+||.+.  .+..++-.+.++...-+.|.|.+|+|||||++.+..-
T Consensus         2 pf~~ivgq~~--~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~   48 (337)
T TIGR02030         2 PFTAIVGQDE--MKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAAL   48 (337)
T ss_pred             CccccccHHH--HHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHh
Confidence            3467899865  7778777777776777889999999999999999865

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.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.30  E-value=0.0052  Score=55.48  Aligned_cols=56  Identities=18%  Similarity=0.287  Sum_probs=34.0

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHH
Q 038454          119 KKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKL  178 (359)
Q Consensus       119 ~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~  178 (359)
                      ..+++.+...+ +-+.++|++|+|||++++.....+  ....| ...-++.+...+...+
T Consensus        23 ~~ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l--~~~~~-~~~~~~~s~~Tts~~~   78 (272)
T PF12775_consen   23 SYLLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSL--DSDKY-LVITINFSAQTTSNQL   78 (272)
T ss_dssp             HHHHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCS--TTCCE-EEEEEES-TTHHHHHH
T ss_pred             HHHHHHHHHcC-CcEEEECCCCCchhHHHHhhhccC--Ccccc-ceeEeeccCCCCHHHH
Confidence            34555554443 457999999999999999988763  12222 2334555555444443

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.29  E-value=0.0034  Score=52.90  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|++|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999886

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.29  E-value=0.0033  Score=52.86  Aligned_cols=23  Identities=26%  Similarity=0.277  Sum_probs=21.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999887

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.28  E-value=0.038  Score=51.94  Aligned_cols=99  Identities=18%  Similarity=0.200  Sum_probs=57.9

Q ss_pred             HHHHHHHhcCC----CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCCC
Q 038454          118 VKKVWEDLMGD----KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLTE  192 (359)
Q Consensus       118 ~~~l~~~l~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~  192 (359)
                      ...+..++..+    +.++|.++|+.|+||||-...++.++. ....=..+..++... .-...+-++.-++-++.+...
T Consensus       187 l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~-~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~v  265 (407)
T COG1419         187 LRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYV-MLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEV  265 (407)
T ss_pred             HHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHH-hhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEE
Confidence            34444555444    478999999999999754444444422 122233466776544 335666777778888877655


Q ss_pred             CccHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          193 DEDKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       193 ~~~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ..+..+....+.. +.. . =++.+|-+
T Consensus       266 v~~~~el~~ai~~-l~~-~-d~ILVDTa  290 (407)
T COG1419         266 VYSPKELAEAIEA-LRD-C-DVILVDTA  290 (407)
T ss_pred             ecCHHHHHHHHHH-hhc-C-CEEEEeCC
Confidence            5555555554433 332 2 34555655

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=96.28  E-value=0.025  Score=54.15  Aligned_cols=87  Identities=13%  Similarity=0.236  Sum_probs=51.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhcC-------CCCCCccHHH--
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALKL-------SLTEDEDKVS--  198 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~-------~~~~~~~~~~--  198 (359)
                      .-..++|+|..|+|||||++.+.+. .    +.+..+++.+++. ..+.+++.+....=..       ...+......  
T Consensus       154 ~GqrigI~G~sG~GKSTLL~~I~~~-~----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~  228 (433)
T PRK07594        154 EGQRVGIFSAPGVGKSTLLAMLCNA-P----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVR  228 (433)
T ss_pred             CCCEEEEECCCCCCccHHHHHhcCC-C----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHH
Confidence            3468999999999999999988876 2    2344555555543 3454655554331100       1111111111  


Q ss_pred             ---HHHHHHHHHhc-CCcEEEEEecC
Q 038454          199 ---RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       199 ---~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                         ..-.+.+++++ ++++||++||+
T Consensus       229 a~~~a~tiAEyfrd~G~~VLl~~Dsl  254 (433)
T PRK07594        229 ALFVATTIAEFFRDNGKRVVLLADSL  254 (433)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCH
Confidence               12234455543 58999999999

>PRK06936 type III secretion system ATPase; Provisional

Probab=96.27  E-value=0.03  Score=53.64  Aligned_cols=87  Identities=11%  Similarity=0.224  Sum_probs=53.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHH---
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKV---  197 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~---  197 (359)
                      .-..++|.|..|+|||||...+++. .    .-+.++++-+++.. ...++....+..-+.       ...+.....   
T Consensus       161 ~Gq~~~I~G~sG~GKStLl~~Ia~~-~----~~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~  235 (439)
T PRK06936        161 EGQRMGIFAAAGGGKSTLLASLIRS-A----EVDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAK  235 (439)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhcC-C----CCCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHH
Confidence            3468999999999999999999988 2    22456777776653 455555444332111       111111111   


Q ss_pred             --HHHHHHHHHHhc-CCcEEEEEecC
Q 038454          198 --SRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 --~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                        ...-.+.+++++ ++++||++||+
T Consensus       236 a~~~a~tiAEyfrd~G~~Vll~~Dsl  261 (439)
T PRK06936        236 AGFVATSIAEYFRDQGKRVLLLMDSV  261 (439)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccch
Confidence              112234455533 59999999998

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.27  E-value=0.048  Score=45.35  Aligned_cols=85  Identities=15%  Similarity=0.150  Sum_probs=46.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCC--Cc---cEEEEEeCCCcCH--HHHHHHHHHHhcCCCCCCccHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNE--FS---DVIWVTVSQPLDL--VKLQAEIAMALKLSLTEDEDKVSRARR  202 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~--F~---~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~~  202 (359)
                      -.+++|+|..|.|||||++.+........+.  ++   .+.++  .+....  ..+...+...   ....-+......-.
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~--~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv~  101 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFL--PQRPYLPLGTLREQLIYP---WDDVLSGGEQQRLA  101 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEE--CCCCccccccHHHHhhcc---CCCCCCHHHHHHHH
Confidence            3689999999999999999998873211111  11   12222  222111  1222222110   11222334444455


Q ss_pred             HHHHHhcCCcEEEEEecC
Q 038454          203 LLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       203 l~~~l~~~k~~LlVlDdv  220 (359)
                      +.+.+.. ++-++++|+-
T Consensus       102 laral~~-~p~~lllDEP  118 (166)
T cd03223         102 FARLLLH-KPKFVFLDEA  118 (166)
T ss_pred             HHHHHHc-CCCEEEEECC
Confidence            6666666 7788899986

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.26  E-value=0.037  Score=48.97  Aligned_cols=49  Identities=16%  Similarity=0.164  Sum_probs=33.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      .++.|.|.+|+|||+++.+++.+.  ...+=..++|++...  +..++...++
T Consensus        14 ~l~lI~G~~G~GKT~~~~~~~~~~--~~~~g~~vly~s~E~--~~~~~~~r~~   62 (242)
T cd00984          14 DLIIIAARPSMGKTAFALNIAENI--AKKQGKPVLFFSLEM--SKEQLLQRLL   62 (242)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH--HHhCCCceEEEeCCC--CHHHHHHHHH
Confidence            589999999999999999988773  222122477776544  3444444443

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.

>PRK10536 hypothetical protein; Provisional

Probab=96.26  E-value=0.011  Score=52.50  Aligned_cols=43  Identities=19%  Similarity=0.167  Sum_probs=33.6

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.++..  ....++.++.+.  .++.+.|.+|+|||+||.+++.+
T Consensus        55 ~~i~p~n~--~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         55 SPILARNE--AQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             ccccCCCH--HHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHH
Confidence            34555655  666777777664  59999999999999999998875

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.24  E-value=0.0032  Score=51.34  Aligned_cols=22  Identities=32%  Similarity=0.530  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++.+.|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4789999999999999999887

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.24  E-value=0.017  Score=56.79  Aligned_cols=41  Identities=20%  Similarity=0.052  Sum_probs=28.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      .-+++.|.|.+|+||||||.+++.. . ..+.=..++||+..+
T Consensus        20 ~g~~~Li~G~pGsGKT~la~qfl~~-g-~~~~ge~~lyvs~eE   60 (484)
T TIGR02655        20 IGRSTLVSGTSGTGKTLFSIQFLYN-G-IIHFDEPGVFVTFEE   60 (484)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH-H-HHhCCCCEEEEEEec
Confidence            3579999999999999999998654 1 111113466776643

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.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.23  E-value=0.011  Score=57.00  Aligned_cols=89  Identities=21%  Similarity=0.264  Sum_probs=56.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcCC------CCCCccH------
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKLS------LTEDEDK------  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~------~~~~~~~------  196 (359)
                      -..++|.|.+|+|||||+.++++.. . +++-+.++++-+++.. ...++...+...-...      .....+.      
T Consensus       143 GQR~gIfa~~G~GKt~Ll~~~~~~~-~-~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a  220 (461)
T PRK12597        143 GGKTGLFGGAGVGKTVLMMELIFNI-S-KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRV  220 (461)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHH-H-hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHH
Confidence            3579999999999999999998873 2 2355677787776654 4566666665432110      0111111      


Q ss_pred             HHHHHHHHHHHhc--CCcEEEEEecC
Q 038454          197 VSRARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                      ....-.+.++++.  ++++||++|++
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLl~~Dsl  246 (461)
T PRK12597        221 VLTGLTIAEYLRDEEKEDVLLFIDNI  246 (461)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEeccc
Confidence            1222334566643  39999999999

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=96.22  E-value=0.0033  Score=53.35  Aligned_cols=22  Identities=23%  Similarity=0.445  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|+|.|.+|+||||||+.++..
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999987

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.20  E-value=0.023  Score=56.29  Aligned_cols=46  Identities=15%  Similarity=0.322  Sum_probs=34.5

Q ss_pred             cccccccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .+.++.+.+..  .....|.|+|..|+|||++|+.+.+.
T Consensus       186 ~~~iig~s~--~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~  233 (509)
T PRK05022        186 EGEMIGQSP--AMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAA  233 (509)
T ss_pred             CCceeecCH--HHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            467899987  55555544432  23456999999999999999999887

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=96.19  E-value=0.059  Score=49.96  Aligned_cols=48  Identities=21%  Similarity=0.268  Sum_probs=36.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIA  183 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~  183 (359)
                      ..++|.|..|+|||+|+++++++ .    +-+.++++-+++.. .+.+++.++-
T Consensus       158 qr~~I~G~~G~GKT~L~~~Iak~-~----~~dvvVyv~iGERg~Ev~e~l~ef~  206 (369)
T cd01134         158 GTAAIPGPFGCGKTVIQQSLSKY-S----NSDIVIYVGCGERGNEMTEVLEEFP  206 (369)
T ss_pred             CEEEEECCCCCChHHHHHHHHhC-C----CCCEEEEEEeCCChHHHHHHHHHHH
Confidence            57999999999999999999987 2    23567888887654 4556666653

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.19  E-value=0.013  Score=58.96  Aligned_cols=77  Identities=12%  Similarity=0.144  Sum_probs=49.4

Q ss_pred             CcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          105 PTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      ..+.++|.+.  .+..+...+..+  +-+.++|++|+||||+|+.+++.+  ....|...+++.- ...+...+++.++.
T Consensus        16 ~~~~viG~~~--a~~~l~~a~~~~--~~~ll~G~pG~GKT~la~~la~~l--~~~~~~~~~~~~n-~~~~~~~~~~~v~~   88 (608)
T TIGR00764        16 LIDQVIGQEE--AVEIIKKAAKQK--RNVLLIGEPGVGKSMLAKAMAELL--PDEELEDILVYPN-PEDPNMPRIVEVPA   88 (608)
T ss_pred             hHhhccCHHH--HHHHHHHHHHcC--CCEEEECCCCCCHHHHHHHHHHHc--CchhheeEEEEeC-CCCCchHHHHHHHH
Confidence            3467888755  666666656555  356699999999999999999884  2233333333332 22345566777776


Q ss_pred             HhcC
Q 038454          185 ALKL  188 (359)
Q Consensus       185 ~l~~  188 (359)
                      .++.
T Consensus        89 ~~g~   92 (608)
T TIGR00764        89 GEGR   92 (608)
T ss_pred             hhch
Confidence            6654

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=96.18  E-value=0.0054  Score=55.07  Aligned_cols=41  Identities=20%  Similarity=0.228  Sum_probs=34.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      .-+++.|+|.+|+|||+++.++...   .......++||+..+.
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~---~~~~ge~vlyvs~~e~   62 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYE---GAREGEPVLYVSTEES   62 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHH---HHhcCCcEEEEEecCC
Confidence            4579999999999999999999988   3444677999988764

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

Probab=96.18  E-value=0.038  Score=49.83  Aligned_cols=52  Identities=17%  Similarity=0.077  Sum_probs=35.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      -.++.|.|.+|+||||++.+++...  ...+=..++|++...  +..++...+...
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~--~~~~g~~vl~iS~E~--~~~~~~~r~~~~   81 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDL--ITQHGVRVGTISLEE--PVVRTARRLLGQ   81 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH--HHhcCceEEEEEccc--CHHHHHHHHHHH
Confidence            3588999999999999999998772  122123478887755  345555555444

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

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.18  E-value=0.058  Score=47.76  Aligned_cols=23  Identities=22%  Similarity=0.366  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLGl   53 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILGL   53 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            78999999999999999999884

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=96.17  E-value=0.0022  Score=50.37  Aligned_cols=27  Identities=22%  Similarity=0.364  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCcccccCCCc
Q 038454          133 IGVWGMGGFGKTAIMRHINNRPQEETNEFS  162 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~  162 (359)
                      |.|+|.+|+||||+|+.++..   ....|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~---~~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARS---LGLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHH---TT--EE
T ss_pred             EeeECCCccHHHHHHHHHHHH---cCCcee
Confidence            679999999999999999988   455564

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.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=96.16  E-value=0.0097  Score=56.44  Aligned_cols=46  Identities=24%  Similarity=0.342  Sum_probs=34.2

Q ss_pred             cccccccchHHHHHHHHHHhcC---------C-----CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG---------D-----KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~---------~-----~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .+..+..++.+         +     ....|.++|++|+|||+||+.++..
T Consensus        14 d~~IiGQe~--AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~   73 (443)
T PRK05201         14 DKYIIGQDD--AKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL   73 (443)
T ss_pred             ccccCCHHH--HHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            456888866  55555554422         0     1467999999999999999999987

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.16  E-value=0.0046  Score=52.07  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|+|+|++|+|||||++.+++.
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            57999999999999999999986

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PTZ00185 ATPase alpha subunit; Provisional

Probab=96.15  E-value=0.043  Score=53.29  Aligned_cols=90  Identities=14%  Similarity=0.115  Sum_probs=53.7

Q ss_pred             ccEEEEEcCCCCcHHHHH-HHHHcCcccc-----cCCCccEEEEEeCCCcCHHHHHHHHHHHhcC-C-------CCCCcc
Q 038454          130 VTKIGVWGMGGFGKTAIM-RHINNRPQEE-----TNEFSDVIWVTVSQPLDLVKLQAEIAMALKL-S-------LTEDED  195 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~-----~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~-~-------~~~~~~  195 (359)
                      -..++|.|..|+|||+|| -.+.++ ..+     .++-..++++-+++..+...-+...+..-+. +       ..+...
T Consensus       189 GQR~lIfGd~GtGKTtLAld~IinQ-~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~  267 (574)
T PTZ00185        189 GQRELIVGDRQTGKTSIAVSTIINQ-VRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPA  267 (574)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhh-hhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCH
Confidence            356899999999999997 556666 311     1233567888888876544445555555441 1       011111


Q ss_pred             HHH-----HHHHHHHHHhc-CCcEEEEEecC
Q 038454          196 KVS-----RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       196 ~~~-----~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ...     ..-.+.+++++ ++.+|+|+||+
T Consensus       268 ~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDL  298 (574)
T PTZ00185        268 GLQYLAPYSGVTMGEYFMNRGRHCLCVYDDL  298 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEcCc
Confidence            111     12334455533 49999999999

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=96.15  E-value=0.047  Score=50.44  Aligned_cols=86  Identities=13%  Similarity=0.235  Sum_probs=50.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeC-CCcCHHHHHHHHHHHhcC-------CCCCCccH-----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS-QPLDLVKLQAEIAMALKL-------SLTEDEDK-----  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~l~~-------~~~~~~~~-----  196 (359)
                      -..++|+|..|+|||||.+.+.+.   ..  -+.....-+. ...+..++....+..-+.       ...+....     
T Consensus        69 Gqri~I~G~sG~GKTtLl~~Ia~~---~~--~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~  143 (326)
T cd01136          69 GQRLGIFAGSGVGKSTLLGMIARG---TT--ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKA  143 (326)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCC---CC--CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHH
Confidence            467899999999999999999887   22  1233334443 334566666655554221       11111111     


Q ss_pred             HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          197 VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ....-.+.+++.. ++.+||++||+
T Consensus       144 ~~~a~~~AEyfr~~g~~Vll~~Dsl  168 (326)
T cd01136         144 AYTATAIAEYFRDQGKDVLLLMDSL  168 (326)
T ss_pred             HHHHHHHHHHHHHcCCCeEEEeccc
Confidence            1122233444433 59999999998

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.14  E-value=0.021  Score=53.10  Aligned_cols=22  Identities=18%  Similarity=0.332  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCc
Q 038454          133 IGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +.+.|++|+||||+++.+.+.+
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l   23 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATL   23 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999999773

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.13  E-value=0.022  Score=56.35  Aligned_cols=41  Identities=22%  Similarity=0.084  Sum_probs=30.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      .-+++.|.|.+|+|||+||.+++...  ..++=..++|++...
T Consensus        30 ~Gs~~li~G~pGsGKT~l~~qf~~~~--~~~~ge~~lyis~ee   70 (509)
T PRK09302         30 KGRPTLVSGTAGTGKTLFALQFLVNG--IKRFDEPGVFVTFEE   70 (509)
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH--HHhcCCCEEEEEccC
Confidence            34789999999999999999987651  112123578887665

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.12  E-value=0.0055  Score=51.19  Aligned_cols=26  Identities=15%  Similarity=0.319  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..++++|+|..|+|||||+..+...+
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            46799999999999999999999873

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.11  E-value=0.039  Score=48.27  Aligned_cols=40  Identities=20%  Similarity=0.175  Sum_probs=29.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      -.++.|.|.+|+|||++|.+++...  ... =..++|++...+
T Consensus        16 g~~~li~G~~G~GKt~~~~~~~~~~--~~~-g~~~~y~s~e~~   55 (224)
T TIGR03880        16 GHVIVVIGEYGTGKTTFSLQFLYQG--LKN-GEKAMYISLEER   55 (224)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH--HhC-CCeEEEEECCCC
Confidence            4689999999999999999988662  122 234778877653

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.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.10  E-value=0.033  Score=53.53  Aligned_cols=89  Identities=19%  Similarity=0.263  Sum_probs=57.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccH-----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDK-----  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~-----  196 (359)
                      -..++|.|.+|+|||+|+.++.+. .. ..+-+.++|+-+++.. ...++.+++...=..       ...+....     
T Consensus       138 GQr~~Ifg~~G~GKt~l~~~~~~~-~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~  215 (449)
T TIGR03305       138 GGKAGLFGGAGVGKTVLLTEMIHN-MV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRV  215 (449)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHH-HH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHH
Confidence            357999999999999999999887 22 2234677888887664 456666666543111       11111111     


Q ss_pred             HHHHHHHHHHHhc--CCcEEEEEecC
Q 038454          197 VSRARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                      ....-.+.++++.  ++++||++||+
T Consensus       216 ~~~a~tiAEyfrd~~G~~VLl~~Dsl  241 (449)
T TIGR03305       216 GHTALTMAEYFRDDEKQDVLLLIDNI  241 (449)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecCh
Confidence            1223345566654  59999999999

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>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=96.09  E-value=0.0042  Score=52.46  Aligned_cols=23  Identities=30%  Similarity=0.567  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +|+|.|.+|+||||||..+...+
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999873

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=96.09  E-value=0.13  Score=50.84  Aligned_cols=45  Identities=18%  Similarity=0.279  Sum_probs=33.4

Q ss_pred             ccccccchHHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .+..+...+.  ......|.|.|..|+||+.+|+.+++.
T Consensus       212 ~~iiG~S~--~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~  258 (526)
T TIGR02329       212 DDLLGASA--PMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQL  258 (526)
T ss_pred             hheeeCCH--HHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHHHHh
Confidence            45899877  5555555442  122367999999999999999999876

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.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.08  E-value=0.048  Score=54.04  Aligned_cols=85  Identities=14%  Similarity=0.114  Sum_probs=53.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCC---------------CCCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSL---------------TEDE  194 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~---------------~~~~  194 (359)
                      -.++.|.|.+|+|||+||.+++...   ...-..++|++....  ..++.+.+ .+++.+.               +...
T Consensus       273 g~~~li~G~~G~GKT~l~~~~~~~~---~~~g~~~~yis~e~~--~~~i~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~  346 (509)
T PRK09302        273 GSIILVSGATGTGKTLLASKFAEAA---CRRGERCLLFAFEES--RAQLIRNA-RSWGIDLEKMEEKGLLKIICARPESY  346 (509)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH---HhCCCcEEEEEecCC--HHHHHHHH-HHcCCChHHHhhcCCceeecCCcccC
Confidence            4688999999999999999998762   222346888877654  44444333 3343211               1122


Q ss_pred             cHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          195 DKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       195 ~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      +.+.....+.+.+...+.-++|+|.+
T Consensus       347 ~~~~~~~~i~~~i~~~~~~~vVIDsl  372 (509)
T PRK09302        347 GLEDHLIIIKREIEEFKPSRVAIDPL  372 (509)
T ss_pred             CHHHHHHHHHHHHHHcCCCEEEEcCH
Confidence            34455666666665535568999998

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=96.08  E-value=0.0044  Score=50.13  Aligned_cols=22  Identities=23%  Similarity=0.454  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|.|.|.+|+||||+|+.+...
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~   22 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKK   22 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999987

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=96.07  E-value=0.0082  Score=52.24  Aligned_cols=24  Identities=25%  Similarity=0.458  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|.+|+|||||++.++.-
T Consensus        33 Ge~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          33 GETLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhcc
Confidence            468999999999999999999765

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.07  E-value=0.012  Score=46.88  Aligned_cols=25  Identities=24%  Similarity=0.170  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      -.+|.+.|.-|+||||+++.+++.+
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3589999999999999999999883

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.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.06  E-value=0.0096  Score=47.76  Aligned_cols=69  Identities=16%  Similarity=0.137  Sum_probs=41.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA  209 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  209 (359)
                      .+-|.|.|-+|+|||||+.+++...     .   .-|+++++-..-.++....-.....   ..-+.+.....|...+..
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~-----~---~~~i~isd~vkEn~l~~gyDE~y~c---~i~DEdkv~D~Le~~m~~   75 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT-----G---LEYIEISDLVKENNLYEGYDEEYKC---HILDEDKVLDELEPLMIE   75 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh-----C---CceEehhhHHhhhcchhcccccccC---ccccHHHHHHHHHHHHhc
Confidence            4669999999999999999999661     1   3366666543333332222111111   234566667777666665

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.06  E-value=0.013  Score=52.95  Aligned_cols=35  Identities=17%  Similarity=0.204  Sum_probs=29.3

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          119 KKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       119 ~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++...++...+..+|.|.|.+|+|||||+..+.+.
T Consensus        93 ~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463         93 ERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             HHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34445555668899999999999999999999987

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.06  E-value=0.0054  Score=54.12  Aligned_cols=25  Identities=40%  Similarity=0.571  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.+|.++||+|+||||..++++.+
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~h   42 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSH   42 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHH
Confidence            4678999999999999999999988

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.05  E-value=0.044  Score=50.68  Aligned_cols=26  Identities=31%  Similarity=0.397  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...+++++|++|+||||++..++..+
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999999998873

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.05  E-value=0.044  Score=45.75  Aligned_cols=24  Identities=21%  Similarity=0.397  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|.|..|.|||||.+.++.-
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~   51 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRL   51 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            468999999999999999999887

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.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.05  E-value=0.014  Score=50.92  Aligned_cols=65  Identities=14%  Similarity=0.128  Sum_probs=34.1

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCccc----ccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          118 VKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQE----ETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       118 ~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~----~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      .+.+...+....  +..|+|++|.|||+++..+...+..    ....-...+-++...+..+..++..+..
T Consensus         7 ~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen    7 REAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             HHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            344444444443  7899999999999888777766211    1123333444444444444555444443

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.05  E-value=0.021  Score=51.34  Aligned_cols=32  Identities=25%  Similarity=0.233  Sum_probs=25.1

Q ss_pred             HHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          122 WEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       122 ~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..+....-.+|.|.|..|+||||++..+.+.
T Consensus        72 l~~~~~~~~GlilisG~tGSGKTT~l~all~~  103 (264)
T cd01129          72 FRKLLEKPHGIILVTGPTGSGKTTTLYSALSE  103 (264)
T ss_pred             HHHHHhcCCCEEEEECCCCCcHHHHHHHHHhh
Confidence            33343444578999999999999999988776

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.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=96.04  E-value=0.0058  Score=47.46  Aligned_cols=21  Identities=38%  Similarity=0.612  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|+|.+|+|||||.+.+...
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~   22 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGG   22 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            789999999999999999977

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.04  E-value=0.01  Score=51.33  Aligned_cols=31  Identities=19%  Similarity=0.301  Sum_probs=27.1

Q ss_pred             HHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          123 EDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       123 ~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+...++++|+++|..|+|||||..++.+.
T Consensus        15 ~~~~~~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        15 ERLDKHGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             HHhhhcCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3455668999999999999999999999887

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK13947 shikimate kinase; Provisional

Probab=96.04  E-value=0.0046  Score=51.62  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|+|++|+||||+|+.+++.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~   24 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATT   24 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            4899999999999999999988

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.02  E-value=0.011  Score=53.07  Aligned_cols=62  Identities=19%  Similarity=0.321  Sum_probs=43.1

Q ss_pred             HHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHH
Q 038454          119 KKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAE  181 (359)
Q Consensus       119 ~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  181 (359)
                      .+|+..+.  .++..+|+|+|.||+|||||.-.+...+ ...++--.++-|+-|.+++--.++-+
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCCCcccccc
Confidence            35555553  4677899999999999999999998884 23344345666776777765555443

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=96.02  E-value=0.012  Score=48.50  Aligned_cols=34  Identities=21%  Similarity=0.330  Sum_probs=28.8

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          117 IVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       117 ~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|..++.+   ++++++|.+|+|||||+..+...
T Consensus        25 g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   25 GIEELKELLKG---KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             THHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhh
Confidence            45667666665   78999999999999999999987

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PRK06851 hypothetical protein; Provisional

Probab=96.01  E-value=0.1  Score=49.04  Aligned_cols=45  Identities=18%  Similarity=0.269  Sum_probs=34.1

Q ss_pred             cCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          126 MGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       126 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      ..+--+++.|.|.+|+|||||++.++...  ....++..++-|.+.+
T Consensus       210 ~~~~~~~~~i~G~pG~GKstl~~~i~~~a--~~~G~~v~~~hC~~dP  254 (367)
T PRK06851        210 TEGVKNRYFLKGRPGTGKSTMLKKIAKAA--EERGFDVEVYHCGFDP  254 (367)
T ss_pred             hcccceEEEEeCCCCCcHHHHHHHHHHHH--HhCCCeEEEEeCCCCC
Confidence            34556889999999999999999999983  3556766666555444

>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=96.01  E-value=0.029  Score=46.07  Aligned_cols=80  Identities=18%  Similarity=0.155  Sum_probs=45.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc--CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL--DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      .+++|+|..|.|||||++.+...+    ....+.+++......  ....    ....++.-.. -+..+...-.+...+.
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~----~~~~G~i~~~~~~~~~~~~~~----~~~~i~~~~q-lS~G~~~r~~l~~~l~   96 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLL----KPTSGEILIDGKDIAKLPLEE----LRRRIGYVPQ-LSGGQRQRVALARALL   96 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC----CCCccEEEECCEEcccCCHHH----HHhceEEEee-CCHHHHHHHHHHHHHh
Confidence            689999999999999999998872    223445554322111  1111    1111211110 1222333444555666


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      . ..-++++|+.
T Consensus        97 ~-~~~i~ilDEp  107 (157)
T cd00267          97 L-NPDLLLLDEP  107 (157)
T ss_pred             c-CCCEEEEeCC
Confidence            5 6788888987

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.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.01  E-value=0.0085  Score=50.73  Aligned_cols=36  Identities=22%  Similarity=0.319  Sum_probs=28.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEE
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT  168 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  168 (359)
                      .++|.|+|++|+|||||+..+...   ....|...++.+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~---~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQE---FPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHH---STTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh---cccccccceeec
Confidence            478999999999999999999987   345665444444

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.99  E-value=0.008  Score=55.80  Aligned_cols=48  Identities=19%  Similarity=0.367  Sum_probs=36.5

Q ss_pred             CCcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          104 LPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       104 ~~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+-+.++|.+.  .+..+.-.+.+.+..-+.+.|.+|+||||+|+.+.+-
T Consensus         5 ~~f~~i~Gq~~--~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~l   52 (334)
T PRK13407          5 FPFSAIVGQEE--MKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAAL   52 (334)
T ss_pred             CCHHHhCCHHH--HHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHH
Confidence            34567889865  6766665555444456999999999999999999776

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.99  E-value=0.0069  Score=52.19  Aligned_cols=24  Identities=25%  Similarity=0.348  Sum_probs=22.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|+|++|+|||||++.++..
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999987

>PF13479 AAA_24: AAA domain

Probab=95.98  E-value=0.03  Score=48.69  Aligned_cols=20  Identities=35%  Similarity=0.547  Sum_probs=17.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHI  150 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v  150 (359)
                      -.+.|+|.+|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            46899999999999999766

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.98  E-value=0.014  Score=45.80  Aligned_cols=47  Identities=23%  Similarity=0.350  Sum_probs=34.0

Q ss_pred             ccccccch--HHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENT--KKIVKKVWEDLMG---DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~--~~~~~~l~~~l~~---~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|..-  +..+..|...+.+   +++-|++.+|.+|+|||.+++.+++.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            46777755  2344455555544   35678999999999999998888877

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

>TIGR00416 sms DNA repair protein RadA

Probab=95.96  E-value=0.036  Score=53.85  Aligned_cols=81  Identities=17%  Similarity=0.306  Sum_probs=47.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -.++.|.|.+|+|||||+.+++....  ... ..++|++..+.  ..++.. -+..++....     ...+.+    .+.
T Consensus        94 GsvilI~G~pGsGKTTL~lq~a~~~a--~~g-~kvlYvs~EEs--~~qi~~-ra~rlg~~~~~l~~~~e~~~~----~I~  163 (454)
T TIGR00416        94 GSLILIGGDPGIGKSTLLLQVACQLA--KNQ-MKVLYVSGEES--LQQIKM-RAIRLGLPEPNLYVLSETNWE----QIC  163 (454)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHH--hcC-CcEEEEECcCC--HHHHHH-HHHHcCCChHHeEEcCCCCHH----HHH
Confidence            46899999999999999999987732  121 24778876543  333222 1233433211     112333    333


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      +.+...+.-++|+|.+
T Consensus       164 ~~i~~~~~~~vVIDSI  179 (454)
T TIGR00416       164 ANIEEENPQACVIDSI  179 (454)
T ss_pred             HHHHhcCCcEEEEecc
Confidence            4444436678999987

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)).

>PF13245 AAA_19: Part of AAA domain

Probab=95.95  E-value=0.016  Score=41.36  Aligned_cols=25  Identities=24%  Similarity=0.134  Sum_probs=18.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+++.|.|++|.|||+++......
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3577888999999999655555444

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.95  E-value=0.0064  Score=52.13  Aligned_cols=24  Identities=33%  Similarity=0.317  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|.|.|.+|+||||+|+.++.+
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999987

>PRK13949 shikimate kinase; Provisional

Probab=95.95  E-value=0.0054  Score=51.28  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|+|++|+||||+++.+++.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999988

>PRK11823 DNA repair protein RadA; Provisional

Probab=95.95  E-value=0.012  Score=56.97  Aligned_cols=81  Identities=17%  Similarity=0.307  Sum_probs=48.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -.++.|.|.+|+|||||+.+++....  ... ..++|++..+.  ..++.. -+..++....     ...+.+    .+.
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a--~~g-~~vlYvs~Ees--~~qi~~-ra~rlg~~~~~l~~~~e~~l~----~i~  149 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLA--AAG-GKVLYVSGEES--ASQIKL-RAERLGLPSDNLYLLAETNLE----AIL  149 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH--hcC-CeEEEEEcccc--HHHHHH-HHHHcCCChhcEEEeCCCCHH----HHH
Confidence            46899999999999999999988732  122 24778876543  333322 2444543211     112333    333


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      +.+...+.-++|+|.+
T Consensus       150 ~~i~~~~~~lVVIDSI  165 (446)
T PRK11823        150 ATIEEEKPDLVVIDSI  165 (446)
T ss_pred             HHHHhhCCCEEEEech
Confidence            3333336678999998

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.94  E-value=0.0046  Score=51.19  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|+|++|+||||+|+.+.+.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999988

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=95.94  E-value=0.054  Score=45.17  Aligned_cols=89  Identities=13%  Similarity=0.010  Sum_probs=46.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccE--EEEEeCCCcCHHHHHHHHHHH---hcCC--CC--CCcc----H
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDV--IWVTVSQPLDLVKLQAEIAMA---LKLS--LT--EDED----K  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~--~wv~~~~~~~~~~~~~~i~~~---l~~~--~~--~~~~----~  196 (359)
                      ...|-|++..|.||||.|..++-+ . ....+...  -|+.-.........+..+.-.   ++..  ..  +...    .
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~r-a-~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~   82 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALR-A-LGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIA   82 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHH-H-HHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHH
Confidence            367888899999999999998877 2 23334322  144333233444444443000   0111  00  1111    1


Q ss_pred             HHHHHHHHHHHhcCCcEEEEEecC
Q 038454          197 VSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ........+.+..+.--|||||.+
T Consensus        83 ~~~~~~a~~~l~~~~~DlvVLDEi  106 (173)
T TIGR00708        83 KAAWQHAKEMLADPELDLVLLDEL  106 (173)
T ss_pred             HHHHHHHHHHHhcCCCCEEEehhh
Confidence            122333444555545569999998

Alternate name: corrinoid adenosyltransferase.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.93  E-value=0.0066  Score=51.58  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|++|+|||||++.++..
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            47899999999999999999877

>PRK14530 adenylate kinase; Provisional

Probab=95.93  E-value=0.0062  Score=53.02  Aligned_cols=23  Identities=22%  Similarity=0.333  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.|+|++|+||||+|+.++..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999999887

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.93  E-value=0.026  Score=52.82  Aligned_cols=83  Identities=18%  Similarity=0.211  Sum_probs=45.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKA  209 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~  209 (359)
                      ...|.|.|+.|+||||+...+.+.+   ..+....++. +.++...  ..... ..+-.......+.......+...++.
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i---~~~~~~~i~t-iEdp~E~--~~~~~-~~~i~q~evg~~~~~~~~~l~~~lr~  194 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYI---NKNAAGHIIT-IEDPIEY--VHRNK-RSLINQREVGLDTLSFANALRAALRE  194 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhh---CcCCCCEEEE-EcCChhh--hccCc-cceEEccccCCCCcCHHHHHHHhhcc
Confidence            4789999999999999999988762   2333344443 2222111  00000 00000000011122344556666776


Q ss_pred             CCcEEEEEecC
Q 038454          210 KKKFVLILDDI  220 (359)
Q Consensus       210 ~k~~LlVlDdv  220 (359)
                       .+=.|++|.+
T Consensus       195 -~pd~i~vgEi  204 (343)
T TIGR01420       195 -DPDVILIGEM  204 (343)
T ss_pred             -CCCEEEEeCC
Confidence             7888889998

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.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=95.92  E-value=0.0067  Score=50.00  Aligned_cols=20  Identities=30%  Similarity=0.536  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 038454          132 KIGVWGMGGFGKTAIMRHIN  151 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~  151 (359)
                      .|+|.|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999988

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.92  E-value=0.0057  Score=52.09  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..+|+|-||=|+||||||+.+++++
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4689999999999999999999983

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=95.91  E-value=0.013  Score=51.65  Aligned_cols=60  Identities=22%  Similarity=0.299  Sum_probs=35.3

Q ss_pred             HHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHH
Q 038454          119 KKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQ  179 (359)
Q Consensus       119 ~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~  179 (359)
                      .+++..+.  .++..+|+|+|+||+|||||.-.+...+. ..++=-.++-|+-|.+++=-.++
T Consensus        16 ~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~-~~g~~VaVlAVDPSSp~tGGAlL   77 (266)
T PF03308_consen   16 RELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELR-ERGKRVAVLAVDPSSPFTGGALL   77 (266)
T ss_dssp             HHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHH-HTT--EEEEEE-GGGGCC---SS
T ss_pred             HHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHh-hcCCceEEEEECCCCCCCCCccc
Confidence            34444443  34678999999999999999999988842 22322345566656666544443

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=95.90  E-value=0.046  Score=52.24  Aligned_cols=86  Identities=13%  Similarity=0.248  Sum_probs=49.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhcC-------CCCCCccH-----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALKL-------SLTEDEDK-----  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~-------~~~~~~~~-----  196 (359)
                      -..++|+|..|+|||||+..+.+. .  .  .+..+.+.++.. ..+.++...+...=..       ...+....     
T Consensus       137 Gq~~~I~G~sG~GKTtLl~~I~~~-~--~--~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a  211 (411)
T TIGR03496       137 GQRMGIFAGSGVGKSTLLGMMARY-T--E--ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRA  211 (411)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC-C--C--CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHH
Confidence            467999999999999999988876 2  1  233444555553 3455555554433111       11111111     


Q ss_pred             HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          197 VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ....-.+.++++. ++++||++||+
T Consensus       212 ~~~a~tiAEyfr~~G~~Vll~~Dsl  236 (411)
T TIGR03496       212 AFYATAIAEYFRDQGKDVLLLMDSL  236 (411)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEeCh
Confidence            1122334455533 48999999999

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=95.90  E-value=0.049  Score=52.31  Aligned_cols=90  Identities=14%  Similarity=0.197  Sum_probs=57.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccC--CCc---------cEEEEEeCCCcCHHHHHHHHHHHhc-CC-------C
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETN--EFS---------DVIWVTVSQPLDLVKLQAEIAMALK-LS-------L  190 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~--~F~---------~~~wv~~~~~~~~~~~~~~i~~~l~-~~-------~  190 (359)
                      -.-++|.|.+|+|||||+..++++ .....  -.|         .++++-+++.....+.+...+..-+ ..       .
T Consensus       141 GQRigIfagsGvGKs~L~~~i~~~-~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~at  219 (466)
T TIGR01040       141 GQKIPIFSAAGLPHNEIAAQICRQ-AGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNL  219 (466)
T ss_pred             CCeeeeecCCCCCHHHHHHHHHHh-hccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEEC
Confidence            356999999999999999999877 32100  012         5677778887777777776666654 21       1


Q ss_pred             CCCccHH-----HHHHHHHHHHh-c-CCcEEEEEecC
Q 038454          191 TEDEDKV-----SRARRLLGKLK-A-KKKFVLILDDI  220 (359)
Q Consensus       191 ~~~~~~~-----~~~~~l~~~l~-~-~k~~LlVlDdv  220 (359)
                      .+.....     ...-.+.++++ + ++++||++||+
T Consensus       220 sd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~Dsl  256 (466)
T TIGR01040       220 ANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDM  256 (466)
T ss_pred             CCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccCh
Confidence            1111111     12233556666 2 59999999999

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>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=95.90  E-value=0.0063  Score=49.67  Aligned_cols=21  Identities=38%  Similarity=0.483  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|+|++|+||||+|+.++..
T Consensus         2 i~l~G~~GsGKstla~~la~~   22 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKA   22 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            789999999999999999887

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.

>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=95.90  E-value=0.0075  Score=50.31  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCc
Q 038454          133 IGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      |.|+|.+|+|||||++.+++.+
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            7899999999999999999873

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.89  E-value=0.0076  Score=51.19  Aligned_cols=25  Identities=16%  Similarity=0.224  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..+|.|+|++|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3578999999999999999999887

>PRK09099 type III secretion system ATPase; Provisional

Probab=95.89  E-value=0.033  Score=53.53  Aligned_cols=88  Identities=13%  Similarity=0.208  Sum_probs=51.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcC-------CCCCCccH-----
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKL-------SLTEDEDK-----  196 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~-------~~~~~~~~-----  196 (359)
                      .-..++|.|..|+|||||++.++.. ..  . -.++++..-.+.....++.+.+...-+.       ...+....     
T Consensus       162 ~Gq~~~I~G~sG~GKTtLl~~ia~~-~~--~-d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a  237 (441)
T PRK09099        162 EGQRMGIFAPAGVGKSTLMGMFARG-TQ--C-DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKA  237 (441)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC-CC--C-CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHH
Confidence            4468999999999999999999876 21  1 1234443333444556665655543221       11111111     


Q ss_pred             HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          197 VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ....-.+.+++++ ++++|+++||+
T Consensus       238 ~~~a~tiAEyfrd~G~~VLl~~Dsl  262 (441)
T PRK09099        238 AYVATAIAEYFRDRGLRVLLMMDSL  262 (441)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccch
Confidence            1122334455543 58999999999

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.89  E-value=0.0064  Score=48.94  Aligned_cols=22  Identities=23%  Similarity=0.460  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|+|++|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999987

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>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=95.88  E-value=0.032  Score=46.52  Aligned_cols=43  Identities=28%  Similarity=0.404  Sum_probs=27.9

Q ss_pred             ccccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          109 LVGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       109 ~vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|.+.  .+.++++.+..  .....|.|+|..|+||+.+|+.+.+.
T Consensus         1 liG~s~--~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    1 LIGESP--AMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             SS--SH--HHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CEeCCH--HHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            467666  44444443321  22256779999999999999999987

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 ....

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.86  E-value=0.71  Score=42.26  Aligned_cols=144  Identities=14%  Similarity=0.059  Sum_probs=77.7

Q ss_pred             HHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcc-------cccCCCccEEEEEe-CCCcCHHHHHHHHHHHhc
Q 038454          117 IVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQ-------EETNEFSDVIWVTV-SQPLDLVKLQAEIAMALK  187 (359)
Q Consensus       117 ~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~-------~~~~~F~~~~wv~~-~~~~~~~~~~~~i~~~l~  187 (359)
                      .+..+...+..+. .++..++|..|.||+++|..+.+.+.       ....+-+.+.++.. +......++. ++...+.
T Consensus         4 ~~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir-~l~~~~~   82 (299)
T PRK07132          4 WIKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFL-SAINKLY   82 (299)
T ss_pred             HHHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHH-HHHHHhc
Confidence            3455566666654 46777999999999999999987730       11111112333332 2223333332 3444433


Q ss_pred             CCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEee-c--------ccceeeeec
Q 038454          188 LSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGL-R--------SMGCEEVRV  239 (359)
Q Consensus       188 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTt-r--------~~~~~~~~l  239 (359)
                      ....                ..+.+-++|+|++                  .++ .+|++| .        ...|..+++
T Consensus        83 ~~~~----------------~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f  146 (299)
T PRK07132         83 FSSF----------------VQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNV  146 (299)
T ss_pred             cCCc----------------ccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEEC
Confidence            2210                0014555666665                  223 444444 3        334678999


Q ss_pred             CCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          240 PPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       240 ~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                      .+++.++..+.+...  +    .+   .+.+..++...+|.-.|+..
T Consensus       147 ~~l~~~~l~~~l~~~--~----~~---~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        147 KEPDQQKILAKLLSK--N----KE---KEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             CCCCHHHHHHHHHHc--C----CC---hhHHHHHHHHcCCHHHHHHH
Confidence            999999998877654  1    11   23455556666653334433

>PRK14529 adenylate kinase; Provisional

Probab=95.86  E-value=0.029  Score=48.98  Aligned_cols=81  Identities=17%  Similarity=0.121  Sum_probs=42.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCcccccCCCcc--EEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNRPQEETNEFSD--VIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAK  210 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~--~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  210 (359)
                      |.|.|++|+||||+|+.++..+  ...+.+.  .+.-.+..........+.++.+-.     ....+-....+.+.+...
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~--~~~~is~gdllr~~i~~~t~lg~~i~~~i~~G~-----lvpdei~~~lv~~~l~~~   75 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKY--DLAHIESGAIFREHIGGGTELGKKAKEYIDRGD-----LVPDDITIPMILETLKQD   75 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH--CCCCcccchhhhhhccCCChHHHHHHHHHhccC-----cchHHHHHHHHHHHHhcc
Confidence            7889999999999999998873  1223321  111122222333444444443211     122233344455555442


Q ss_pred             CcEEEEEecC
Q 038454          211 KKFVLILDDI  220 (359)
Q Consensus       211 k~~LlVlDdv  220 (359)
                      ..-=+|||+.
T Consensus        76 ~~~g~iLDGf   85 (223)
T PRK14529         76 GKNGWLLDGF   85 (223)
T ss_pred             CCCcEEEeCC
Confidence            2334788887

>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=95.85  E-value=0.011  Score=50.74  Aligned_cols=47  Identities=21%  Similarity=0.220  Sum_probs=32.0

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEE
Q 038454          119 KKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT  168 (359)
Q Consensus       119 ~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  168 (359)
                      ...++.+.  ...++.+.|++|.|||.||.+.+-+ .-..+.|+.++++.
T Consensus        10 ~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~-~v~~g~~~kiii~R   56 (205)
T PF02562_consen   10 KFALDALL--NNDLVIVNGPAGTGKTFLALAAALE-LVKEGEYDKIIITR   56 (205)
T ss_dssp             HHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHH-HHHTTS-SEEEEEE
T ss_pred             HHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHH-HHHhCCCcEEEEEe
Confidence            34444455  4579999999999999999999877 33457788777764

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.84  E-value=0.044  Score=52.84  Aligned_cols=89  Identities=18%  Similarity=0.266  Sum_probs=54.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHH----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKV----  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~----  197 (359)
                      -..++|.|.+|+|||||+..++.. ... ++=+.++++-+++.. ...++...++..=..       ...+.....    
T Consensus       144 GQR~gIfa~~GvGKt~Ll~~i~~~-~~~-~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a  221 (463)
T PRK09280        144 GGKIGLFGGAGVGKTVLIQELINN-IAK-EHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRV  221 (463)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHH-HHh-cCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            357999999999999999998776 211 112356677776654 466777766653211       111111111    


Q ss_pred             -HHHHHHHHHHhc--CCcEEEEEecC
Q 038454          198 -SRARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       198 -~~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                       ...-.+.+++++  ++++||++|++
T Consensus       222 ~~~a~tiAEyfrd~~G~~VLll~Dsl  247 (463)
T PRK09280        222 ALTGLTMAEYFRDVEGQDVLLFIDNI  247 (463)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecch
Confidence             122335566633  49999999999

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=95.84  E-value=0.014  Score=50.62  Aligned_cols=41  Identities=29%  Similarity=0.437  Sum_probs=27.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLD  174 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~  174 (359)
                      .|+|+|-||+||||+|..++..+. .++.|+ ++-|+...+++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~-~~~~~~-VLvVDaDpd~n   42 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLL-SKGGYN-VLVVDADPDSN   42 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHH-hcCCce-EEEEeCCCCCC
Confidence            689999999999999999776632 222243 55555555444

>PRK15453 phosphoribulokinase; Provisional

Probab=95.82  E-value=0.0088  Score=53.70  Aligned_cols=27  Identities=30%  Similarity=0.311  Sum_probs=23.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ....+|+|.|.+|+||||+|+.+.+.+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456899999999999999999998763

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=95.82  E-value=0.047  Score=52.63  Aligned_cols=89  Identities=13%  Similarity=0.205  Sum_probs=49.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh------cC-CCCCCccH----
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL------KL-SLTEDEDK----  196 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l------~~-~~~~~~~~----  196 (359)
                      ..-..++|+|..|+|||||++.+... ..  . -.+++++.--+..+..++....+..-      .. ...+....    
T Consensus       156 ~~Gq~i~I~G~sG~GKStLl~~I~~~-~~--~-~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~  231 (438)
T PRK07721        156 GKGQRVGIFAGSGVGKSTLMGMIARN-TS--A-DLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIK  231 (438)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcc-cC--C-CeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHH
Confidence            34578999999999999999988876 21  1 12344443333334555444322211      10 11111111    


Q ss_pred             -HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          197 -VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 -~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                       ....-.+.+++++ ++++||++||+
T Consensus       232 ~~~~a~~iAEyfr~~g~~Vll~~Dsl  257 (438)
T PRK07721        232 GAYTATAIAEYFRDQGLNVMLMMDSV  257 (438)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCh
Confidence             1122334455533 59999999998

>PRK06820 type III secretion system ATPase; Validated

Probab=95.81  E-value=0.039  Score=53.03  Aligned_cols=86  Identities=12%  Similarity=0.248  Sum_probs=47.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHHH---
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKVS---  198 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~~---  198 (359)
                      -..++|+|.+|+|||||++.++.. .    +-+.+++.-++... ...++....+..=..       ...+......   
T Consensus       163 Gqri~I~G~sG~GKStLl~~I~~~-~----~~dv~V~~~iGergrEv~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~a  237 (440)
T PRK06820        163 GQRIGIFAAAGVGKSTLLGMLCAD-S----AADVMVLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLKG  237 (440)
T ss_pred             CCEEEEECCCCCChHHHHHHHhcc-C----CCCEEEEEEEccChHHHHHHHHHhhccCCceeEEEEEeCCCCCHHHHHHH
Confidence            357999999999999999988876 1    22344455555542 233333332221000       1111111111   


Q ss_pred             --HHHHHHHHHhc-CCcEEEEEecC
Q 038454          199 --RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       199 --~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                        ..-.+.+++++ ++++||++||+
T Consensus       238 ~~~a~tiAEyfrd~G~~VLl~~Dsl  262 (440)
T PRK06820        238 LSTATTIAEYFRDRGKKVLLMADSL  262 (440)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEccch
Confidence              12234555543 59999999999

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.79  E-value=0.008  Score=50.39  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|.|+|+.|+||||+++.+.+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHH
Confidence            356999999999999999999987

>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=95.77  E-value=0.051  Score=44.03  Aligned_cols=24  Identities=29%  Similarity=0.578  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            368999999999999999999887

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.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=95.76  E-value=0.064  Score=51.46  Aligned_cols=88  Identities=17%  Similarity=0.243  Sum_probs=51.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCC------CCCccH------
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSL------TEDEDK------  196 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------~~~~~~------  196 (359)
                      .-..++|+|..|+|||||+..++.. .  .. ...++...-.+.....+++...+..-+...      ....+.      
T Consensus       155 ~Gqri~I~G~sG~GKTtLl~~Ia~~-~--~~-~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra  230 (432)
T PRK06793        155 IGQKIGIFAGSGVGKSTLLGMIAKN-A--KA-DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRA  230 (432)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhcc-C--CC-CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHH
Confidence            3467899999999999999999887 2  11 122333322334566677666655432211      011111      


Q ss_pred             HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          197 VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ......+.+++++ ++++||++|++
T Consensus       231 ~~~a~~iAEyfr~~G~~VLlilDsl  255 (432)
T PRK06793        231 AKLATSIAEYFRDQGNNVLLMMDSV  255 (432)
T ss_pred             HHHHHHHHHHHHHcCCcEEEEecch
Confidence            1122233444433 48999999999

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=95.75  E-value=0.057  Score=51.95  Aligned_cols=89  Identities=18%  Similarity=0.259  Sum_probs=55.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcCCC------CCCccHHH----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKLSL------TEDEDKVS----  198 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~------~~~~~~~~----  198 (359)
                      -..++|.|.+|+|||||+..+....  ..++=..++++-+++.. ...++...+...=....      ....+...    
T Consensus       143 GQr~~If~~~G~GKt~L~~~~~~~~--~~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a  220 (461)
T TIGR01039       143 GGKIGLFGGAGVGKTVLIQELINNI--AKEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRV  220 (461)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHHH--HhcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            3579999999999999999988762  12222357777776653 45667666654311110      11111111    


Q ss_pred             --HHHHHHHHHhc--CCcEEEEEecC
Q 038454          199 --RARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       199 --~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                        ..-.+.++++.  ++++||++||+
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLll~Dsl  246 (461)
T TIGR01039       221 ALTGLTMAEYFRDEQGQDVLLFIDNI  246 (461)
T ss_pred             HHHHHHHHHHHHHhcCCeeEEEecch
Confidence              22345566644  48999999999

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PRK13948 shikimate kinase; Provisional

Probab=95.73  E-value=0.01  Score=50.15  Aligned_cols=25  Identities=28%  Similarity=0.349  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|.++|+.|+||||+++.+.+.
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~   33 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRA   33 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999987

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=95.72  E-value=0.025  Score=52.70  Aligned_cols=65  Identities=17%  Similarity=0.242  Sum_probs=44.8

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAE  181 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  181 (359)
                      ..++|.+.  .+..++..+..+  +-+.+.|.+|+|||+||+.++..+   ..   ...+|.+.......++.-.
T Consensus        24 ~~~~g~~~--~~~~~l~a~~~~--~~vll~G~PG~gKT~la~~lA~~l---~~---~~~~i~~t~~l~p~d~~G~   88 (329)
T COG0714          24 KVVVGDEE--VIELALLALLAG--GHVLLEGPPGVGKTLLARALARAL---GL---PFVRIQCTPDLLPSDLLGT   88 (329)
T ss_pred             CeeeccHH--HHHHHHHHHHcC--CCEEEECCCCccHHHHHHHHHHHh---CC---CeEEEecCCCCCHHHhcCc
Confidence            44788754  666666666665  448999999999999999999983   22   2445666666555555433

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=95.72  E-value=0.042  Score=52.85  Aligned_cols=86  Identities=14%  Similarity=0.259  Sum_probs=50.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhcCC-------CCCCccHH----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALKLS-------LTEDEDKV----  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~~~----  197 (359)
                      -..++|+|..|+|||||++.+... .    ..+.++...+... .+..++...+...-+..       ..+.....    
T Consensus       168 GqrigI~G~sG~GKSTLl~~I~g~-~----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a  242 (451)
T PRK05688        168 GQRLGLFAGTGVGKSVLLGMMTRF-T----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRA  242 (451)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC-C----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHH
Confidence            467999999999999999998876 1    1233444444433 34556655555442221       11111111    


Q ss_pred             -HHHHHHHHHHhc-CCcEEEEEecC
Q 038454          198 -SRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 -~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                       ...-.+.+++++ ++++||++||+
T Consensus       243 ~~~a~aiAEyfrd~G~~VLl~~Dsl  267 (451)
T PRK05688        243 AMYCTRIAEYFRDKGKNVLLLMDSL  267 (451)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEecch
Confidence             112334455543 59999999999

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

Probab=95.70  E-value=0.028  Score=56.48  Aligned_cols=66  Identities=18%  Similarity=0.256  Sum_probs=0.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCc
Q 038454          133 IGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKK  212 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~  212 (359)
                      |.++|++|.|||-||++|+..+        ..-|++|..+.=+..-             -..+++...+.+.+.-.. ++
T Consensus       708 ILLYGPPGTGKTLlAKAVATEc--------sL~FlSVKGPELLNMY-------------VGqSE~NVR~VFerAR~A-~P  765 (953)
T KOG0736|consen  708 ILLYGPPGTGKTLLAKAVATEC--------SLNFLSVKGPELLNMY-------------VGQSEENVREVFERARSA-AP  765 (953)
T ss_pred             eEEECCCCCchHHHHHHHHhhc--------eeeEEeecCHHHHHHH-------------hcchHHHHHHHHHHhhcc-CC


Q ss_pred             EEEEEecC
Q 038454          213 FVLILDDI  220 (359)
Q Consensus       213 ~LlVlDdv  220 (359)
                      ++|.+|.+
T Consensus       766 CVIFFDEL  773 (953)
T KOG0736|consen  766 CVIFFDEL  773 (953)
T ss_pred             eEEEeccc

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=95.70  E-value=0.045  Score=52.51  Aligned_cols=87  Identities=11%  Similarity=0.216  Sum_probs=47.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCC-------CCCC-----cc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLS-------LTED-----ED  195 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~-------~~~~-----~~  195 (359)
                      .-..++|.|..|+|||||+..+... ..    .+..+...+.. .....++....+..-+..       ..+.     ..
T Consensus       154 ~GQ~igI~G~sGaGKSTLl~~I~g~-~~----~dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~  228 (434)
T PRK07196        154 KGQRVGLMAGSGVGKSVLLGMITRY-TQ----ADVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIK  228 (434)
T ss_pred             cceEEEEECCCCCCccHHHHHHhcc-cC----CCeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHH
Confidence            4468999999999999999988876 21    12222222322 223444443433332211       1111     11


Q ss_pred             HHHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          196 KVSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       196 ~~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ....+..+.++++. ++++||++||+
T Consensus       229 a~e~a~~iAEyfr~~g~~Vll~~Dsl  254 (434)
T PRK07196        229 ATELCHAIATYYRDKGHDVLLLVDSL  254 (434)
T ss_pred             HHHHHHHHHHHhhhccCCEEEeecch
Confidence            12223334444433 49999999999

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=95.70  E-value=0.1  Score=44.50  Aligned_cols=24  Identities=21%  Similarity=0.418  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|.|..|.|||||.+.++.-
T Consensus        35 Ge~~~l~G~nGsGKStLl~~i~Gl   58 (194)
T cd03213          35 GELTAIMGPSGAGKSTLLNALAGR   58 (194)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999876

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.68  E-value=0.01  Score=51.26  Aligned_cols=25  Identities=28%  Similarity=0.473  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.|.|+|++|+|||||+..+...
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            5678999999999999999999765

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=95.67  E-value=0.024  Score=52.22  Aligned_cols=35  Identities=26%  Similarity=0.387  Sum_probs=29.2

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          117 IVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       117 ~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....++.++..+  +.|.|.|.+|+||||+|+.++..
T Consensus        53 ~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~   87 (327)
T TIGR01650        53 TTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAAR   87 (327)
T ss_pred             HHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHH
Confidence            556677777654  45999999999999999999987

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.

>PLN02200 adenylate kinase family protein

Probab=95.67  E-value=0.009  Score=52.72  Aligned_cols=24  Identities=25%  Similarity=0.087  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+|.|.|++|+||||+|+.++..
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~   66 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVET   66 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999999887

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=95.67  E-value=0.22  Score=50.83  Aligned_cols=45  Identities=13%  Similarity=0.191  Sum_probs=30.9

Q ss_pred             ccccccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.++|.+.  .+.+++.....  .....|.|+|..|+||+++|+.+.+.
T Consensus       325 ~~l~g~s~--~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~  371 (638)
T PRK11388        325 DHMPQDSP--QMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNE  371 (638)
T ss_pred             cceEECCH--HHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHh
Confidence            45788776  44444433321  12234789999999999999999876

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.67  E-value=0.027  Score=47.69  Aligned_cols=26  Identities=23%  Similarity=0.410  Sum_probs=23.4

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....++.|.|.+|+||||+|+.+...
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~   41 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKK   41 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44579999999999999999999987

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]

Probab=95.67  E-value=0.021  Score=52.65  Aligned_cols=89  Identities=18%  Similarity=0.247  Sum_probs=55.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcCC----------CCCCc--cH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKLS----------LTEDE--DK  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~----------~~~~~--~~  196 (359)
                      -.-|++.|-+|+|||.|.+++.+.+.+  .|=...+|.-+++.. .-.++..++..+--.+          .++..  ..
T Consensus       147 GgKiGLFGGAGVGKTVl~~ELI~Nia~--~h~g~SVFaGvGERtREGndLy~Em~es~vl~ktalv~gQMNEpPGaR~RV  224 (468)
T COG0055         147 GGKIGLFGGAGVGKTVLIQELINNIAK--EHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARMRV  224 (468)
T ss_pred             CceeeeeccCCccceeeHHHHHHHHHH--HcCCeEEEEeccccccchHHHHHHHHhcCCCCceeEEEeecCCCCcceeee
Confidence            357999999999999999999998532  333346777777654 3456666666552111          11110  11


Q ss_pred             HHHHHHHHHHHhc--CCcEEEEEecC
Q 038454          197 VSRARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                      .-..-...+++++  ++.+||.+||+
T Consensus       225 altGlT~AEyfRD~~gqdVLlFIDNI  250 (468)
T COG0055         225 ALTGLTMAEYFRDEEGQDVLLFIDNI  250 (468)
T ss_pred             hhhhhhHHHHhhcccCCeEEEEehhh
Confidence            1111223344544  48999999999

>PRK13946 shikimate kinase; Provisional

Probab=95.66  E-value=0.0087  Score=50.75  Aligned_cols=24  Identities=21%  Similarity=0.356  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.|.++|++|+||||+++.+++.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~   33 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATM   33 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999999998

>TIGR01069 mutS2 MutS2 family protein

Probab=95.66  E-value=0.024  Score=58.66  Aligned_cols=25  Identities=16%  Similarity=0.186  Sum_probs=21.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..++.|+|+.|.|||||.+.+...
T Consensus       321 ~~~~liItGpNg~GKSTlLK~i~~~  345 (771)
T TIGR01069       321 EKRVLAITGPNTGGKTVTLKTLGLL  345 (771)
T ss_pred             CceEEEEECCCCCCchHHHHHHHHH
Confidence            3478999999999999999988654

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>PRK06761 hypothetical protein; Provisional

Probab=95.66  E-value=0.013  Score=52.96  Aligned_cols=24  Identities=29%  Similarity=0.470  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ++|.|.|++|+||||+++.+++.+
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999999984

>PRK13975 thymidylate kinase; Provisional

Probab=95.64  E-value=0.009  Score=51.03  Aligned_cols=24  Identities=25%  Similarity=0.296  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..|+|.|+.|+||||+|+.+++.+
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999984

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=95.63  E-value=0.011  Score=45.14  Aligned_cols=21  Identities=24%  Similarity=0.341  Sum_probs=19.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHIN  151 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~  151 (359)
                      ..++|.|++|+|||||+..+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            679999999999999999876

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=95.63  E-value=0.024  Score=48.25  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +|+|.|+.|+||||+++.+++.+
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999884

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=95.62  E-value=0.062  Score=47.56  Aligned_cols=22  Identities=18%  Similarity=0.274  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +-.|+|++|+|||+||..++..
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~   24 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALA   24 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHH
Confidence            5678999999999999999875

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.

>PRK04182 cytidylate kinase; Provisional

Probab=95.62  E-value=0.0095  Score=49.97  Aligned_cols=22  Identities=32%  Similarity=0.474  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|.|.|+.|+||||+|+.++..
T Consensus         2 ~I~i~G~~GsGKstia~~la~~   23 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999987

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=95.62  E-value=0.11  Score=50.09  Aligned_cols=87  Identities=13%  Similarity=0.213  Sum_probs=49.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcC-------CCCCCccHH---
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKL-------SLTEDEDKV---  197 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~-------~~~~~~~~~---  197 (359)
                      .-..++|.|..|+|||||.+.++..   ..  .+....+.+.. ...+.++..+.......       ...+.....   
T Consensus       144 ~Gq~~~I~G~sG~GKStLl~~I~~~---~~--~~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~~  218 (422)
T TIGR02546       144 EGQRIGIFAGAGVGKSTLLGMIARG---AS--ADVNVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERLK  218 (422)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhCC---CC--CCEEEEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHHH
Confidence            3467899999999999999999987   22  23333333433 34555555554433211       111111111   


Q ss_pred             --HHHHHHHHHHhc-CCcEEEEEecC
Q 038454          198 --SRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 --~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                        .....+.+++.. ++++|+++|++
T Consensus       219 ~~~~a~~~AE~f~~~g~~Vl~~~Dsl  244 (422)
T TIGR02546       219 AAYTATAIAEYFRDQGKRVLLMMDSL  244 (422)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeCc
Confidence              122234444433 58999999999

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

Probab=95.59  E-value=0.034  Score=50.18  Aligned_cols=25  Identities=24%  Similarity=0.365  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+..++|||++|.|||-||+.|+..
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~  189 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAAT  189 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHh
Confidence            3578999999999999999999988

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.58  E-value=0.0087  Score=49.57  Aligned_cols=21  Identities=29%  Similarity=0.393  Sum_probs=17.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |+|+|..|+|||||+..+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            799999999999999999865

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=95.58  E-value=0.069  Score=51.11  Aligned_cols=87  Identities=13%  Similarity=0.240  Sum_probs=48.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhcC-------CCCCCccHH---
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALKL-------SLTEDEDKV---  197 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~-------~~~~~~~~~---  197 (359)
                      .-..++|+|..|+|||||++.+++. .  ..  +.....-+++. ....++....+.+-+.       ...+.....   
T Consensus       136 ~Gqri~I~G~sG~GKTtLl~~i~~~-~--~~--~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~  210 (413)
T TIGR03497       136 KGQRVGIFAGSGVGKSTLLGMIARN-A--KA--DINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLK  210 (413)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC-C--CC--CeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHH
Confidence            4468999999999999999988876 2  21  22222233433 2455555554443111       111111111   


Q ss_pred             --HHHHHHHHHHhc-CCcEEEEEecC
Q 038454          198 --SRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 --~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                        ...-.+.+++++ ++++||++||+
T Consensus       211 ~~~~a~tiAEyfr~~G~~Vll~~Dsl  236 (413)
T TIGR03497       211 AAFTATAIAEYFRDQGKDVLLMMDSV  236 (413)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEcCc
Confidence              122334455533 59999999999

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=95.57  E-value=0.031  Score=50.69  Aligned_cols=90  Identities=20%  Similarity=0.263  Sum_probs=54.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-------cEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCC---------
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-------DVIWVTVSQ-PLDLVKLQAEIAMALKLSLTED---------  193 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-------~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~---------  193 (359)
                      -++.|+|.||+|||||+..++=.+..-++.|.       .+++|++-. ..++.+-++.+..+++.+..+.         
T Consensus        90 ~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPadvrn~dltd~~  169 (402)
T COG3598          90 YVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADVRNMDLTDVS  169 (402)
T ss_pred             eeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChHhhhheeccccc
Confidence            34667799999999999876544222223332       477777644 3456666777888887643210         


Q ss_pred             -----ccH--HHHHHHHHHHHhcCCcEEEEEecC
Q 038454          194 -----EDK--VSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       194 -----~~~--~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                           .+.  ..+.+++...+...+.-++|+|-.
T Consensus       170 Gaa~~~d~l~pkl~rRfek~~~Q~rp~~vViDp~  203 (402)
T COG3598         170 GAADESDVLSPKLYRRFEKILEQKRPDFVVIDPF  203 (402)
T ss_pred             cCCCccccccHHHHHHHHHHHHHhCCCeEEEcch
Confidence                 110  123444444444446779999987

>PRK14532 adenylate kinase; Provisional

Probab=95.57  E-value=0.0093  Score=50.65  Aligned_cols=21  Identities=14%  Similarity=0.262  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|.|++|+||||+|+.++..
T Consensus         3 i~~~G~pGsGKsT~a~~la~~   23 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEE   23 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999987

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.56  E-value=0.012  Score=48.36  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +++|+|+.|+|||||+..+...+
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l   23 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL   23 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999883

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.56  E-value=0.011  Score=49.67  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|++|+|||||++.++..
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~   26 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAAL   26 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999999987

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=95.54  E-value=0.023  Score=56.02  Aligned_cols=48  Identities=25%  Similarity=0.305  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEE
Q 038454          115 KKIVKKVWEDLMG-----DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWV  167 (359)
Q Consensus       115 ~~~~~~l~~~l~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  167 (359)
                      ++-++++..||..     ...+++.+.|++|+||||.++.+++.+     .|+.+-|.
T Consensus        25 kkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~   77 (519)
T PF03215_consen   25 KKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWI   77 (519)
T ss_pred             HHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEec
Confidence            3467788888854     235799999999999999999999873     34445554

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=95.54  E-value=0.02  Score=52.76  Aligned_cols=44  Identities=23%  Similarity=0.225  Sum_probs=29.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLV  176 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  176 (359)
                      .+++.+.|.||+||||+|.+.+-.+.   .....++-|+.....++.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA---~~g~kvLlvStDPAhsL~   45 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLA---ESGKKVLLVSTDPAHSLG   45 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHH---HcCCcEEEEEeCCCCchH
Confidence            47899999999999999999766632   122335555544433333

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.52  E-value=0.012  Score=49.18  Aligned_cols=24  Identities=21%  Similarity=0.313  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++.|.|++|+|||||++.+..+
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~   27 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLED   27 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            367999999999999999999998

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=95.51  E-value=0.06  Score=52.05  Aligned_cols=90  Identities=16%  Similarity=0.205  Sum_probs=55.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc--cEEEEEeCCCc-CHHHHHHHHHHHhcCC-------CCCCcc----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS--DVIWVTVSQPL-DLVKLQAEIAMALKLS-------LTEDED----  195 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~--~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~----  195 (359)
                      -.-++|.|..|+|||||+..+++. ....+.+.  .++++-+++.. ...++...+...=...       ..+...    
T Consensus       141 GQR~gIfgg~G~GKs~L~~~ia~~-~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~  219 (458)
T TIGR01041       141 GQKLPIFSGSGLPHNELAAQIARQ-ATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERI  219 (458)
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHh-hcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHH
Confidence            356899999999999999999987 32221121  46667676653 5666666665432111       111111    


Q ss_pred             -HHHHHHHHHHHHh-c-CCcEEEEEecC
Q 038454          196 -KVSRARRLLGKLK-A-KKKFVLILDDI  220 (359)
Q Consensus       196 -~~~~~~~l~~~l~-~-~k~~LlVlDdv  220 (359)
                       .....-.+.++++ + ++++||++||+
T Consensus       220 ~a~~~a~tiAEyfr~d~G~~VLli~Dsl  247 (458)
T TIGR01041       220 VTPRMALTAAEYLAFEKDMHVLVILTDM  247 (458)
T ss_pred             HHHHHHHHHHHHHHHccCCcEEEEEcCh
Confidence             1122234567776 2 58999999999

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=95.51  E-value=0.14  Score=52.48  Aligned_cols=24  Identities=21%  Similarity=0.408  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..|+|+|.+|+|||||++.+..-
T Consensus       499 Ge~vaIvG~SGsGKSTL~KLL~gl  522 (709)
T COG2274         499 GEKVAIVGRSGSGKSTLLKLLLGL  522 (709)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            468999999999999999998775

>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=95.49  E-value=0.01  Score=50.59  Aligned_cols=21  Identities=24%  Similarity=0.332  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|.|++|+||||+|+.++..
T Consensus         2 I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999887

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=95.49  E-value=0.082  Score=50.76  Aligned_cols=25  Identities=32%  Similarity=0.555  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-..++|.|..|+|||||+..++..
T Consensus       156 ~Gq~~~i~G~sG~GKStLl~~i~~~  180 (434)
T PRK08472        156 KGQKLGIFAGSGVGKSTLMGMIVKG  180 (434)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhc
Confidence            4468999999999999999999876

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.49  E-value=0.13  Score=51.29  Aligned_cols=25  Identities=16%  Similarity=0.381  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-..++|+|+.|+|||||++.+..-
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4478999999999999999999866

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.49  E-value=0.012  Score=51.50  Aligned_cols=24  Identities=25%  Similarity=0.444  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..|+|+|++|+|||||.+.++--
T Consensus        29 GEfvsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          29 GEFVAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999764

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.48  E-value=0.083  Score=47.58  Aligned_cols=88  Identities=17%  Similarity=0.257  Sum_probs=48.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      +..+++++|.+|+||||++..+...+ . ... ..+.+++..... ....-+......++.+.....+.......+ +.+
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l-~-~~~-~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l-~~l  149 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQF-H-GKK-KTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRAL-TYF  149 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH-H-HcC-CeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHH-HHH
Confidence            34799999999999999999887763 1 111 235556554321 222233334444443322223444443333 333


Q ss_pred             hc-CCcEEEEEecC
Q 038454          208 KA-KKKFVLILDDI  220 (359)
Q Consensus       208 ~~-~k~~LlVlDdv  220 (359)
                      .. .+.-++++|..
T Consensus       150 ~~~~~~D~ViIDt~  163 (270)
T PRK06731        150 KEEARVDYILIDTA  163 (270)
T ss_pred             HhcCCCCEEEEECC
Confidence            32 24567888876

>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=95.48  E-value=0.033  Score=52.34  Aligned_cols=76  Identities=16%  Similarity=0.267  Sum_probs=44.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      .++=+-|||..|.|||.|+-.+|+.+ .+...          .......++.++-+.+..-......    +..+.+.+.
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~l-p~~~k----------~R~HFh~Fm~~vh~~l~~~~~~~~~----l~~va~~l~  125 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSL-PIKRK----------RRVHFHEFMLDVHSRLHQLRGQDDP----LPQVADELA  125 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhC-Ccccc----------ccccccHHHHHHHHHHHHHhCCCcc----HHHHHHHHH
Confidence            35668999999999999999999983 22110          1112223344444433322111122    333444555


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      + +..||.||.+
T Consensus       126 ~-~~~lLcfDEF  136 (362)
T PF03969_consen  126 K-ESRLLCFDEF  136 (362)
T ss_pred             h-cCCEEEEeee
Confidence            5 6779999998

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

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.47  E-value=0.012  Score=48.99  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|.|.|..|+||||+|+.+.+.
T Consensus         2 iI~i~G~~GSGKstia~~la~~   23 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEK   23 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999887

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.

>PLN02165 adenylate isopentenyltransferase

Probab=95.46  E-value=0.011  Score=54.57  Aligned_cols=30  Identities=20%  Similarity=0.191  Sum_probs=25.6

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          125 LMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       125 l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +.+....+|+|+|+.|+||||||..++..+
T Consensus        38 ~~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         38 EQNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             ccCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            355556799999999999999999999883

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=95.46  E-value=0.017  Score=53.17  Aligned_cols=23  Identities=26%  Similarity=0.330  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +++.+.|-||+||||+|.+.+-.
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~   24 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALA   24 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHH
Confidence            68999999999999999887765

...

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=95.44  E-value=0.22  Score=42.03  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..+.|+|++|.|||||.+.+|..
T Consensus        28 Gef~fl~GpSGAGKSTllkLi~~~   51 (223)
T COG2884          28 GEFVFLTGPSGAGKSTLLKLIYGE   51 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            367999999999999999999987

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.44  E-value=0.031  Score=47.64  Aligned_cols=24  Identities=25%  Similarity=0.248  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..|+|.|..|+||||+++.+++.+
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999884

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.43  E-value=0.01  Score=52.90  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .|.+.|++|+||||+|+.+...+
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            37899999999999999999873

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.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=95.43  E-value=0.014  Score=47.89  Aligned_cols=24  Identities=21%  Similarity=0.360  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++.|+|.+|+||||+.+.+...
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~   27 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKE   27 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHH
Confidence            578999999999999999888776

>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=95.43  E-value=0.024  Score=48.53  Aligned_cols=44  Identities=20%  Similarity=0.296  Sum_probs=30.1

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..++|.+.  .+..+.-.....  .-+.++|.+|+|||+||+.+..-+
T Consensus         3 ~dI~GQe~--aKrAL~iAAaG~--h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    3 SDIVGQEE--AKRALEIAAAGG--HHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             CCSSSTHH--HHHHHHHHHHCC----EEEES-CCCTHHHHHHHHHHCS
T ss_pred             hhhcCcHH--HHHHHHHHHcCC--CCeEEECCCCCCHHHHHHHHHHhC
Confidence            35778754  555555444443  579999999999999999997653

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.

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

Probab=95.43  E-value=0.67  Score=44.72  Aligned_cols=52  Identities=13%  Similarity=0.164  Sum_probs=36.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  186 (359)
                      .++.|.|.+|+|||++|..++.... ....+ .++|++.-  .+..++...++...
T Consensus       195 ~liviag~pg~GKT~~al~ia~~~a-~~~g~-~v~~fSlE--m~~~~l~~Rl~~~~  246 (421)
T TIGR03600       195 DLIVIGARPSMGKTTLALNIAENVA-LREGK-PVLFFSLE--MSAEQLGERLLASK  246 (421)
T ss_pred             ceEEEEeCCCCCHHHHHHHHHHHHH-HhCCC-cEEEEECC--CCHHHHHHHHHHHH
Confidence            5789999999999999999986621 12233 36666543  46667777666554

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

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=95.42  E-value=0.016  Score=51.33  Aligned_cols=20  Identities=30%  Similarity=0.419  Sum_probs=17.7

Q ss_pred             EEcCCCCcHHHHHHHHHcCc
Q 038454          135 VWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       135 I~G~gGiGKTtLa~~v~~~~  154 (359)
                      |+|++|+||||+++.+.+.+
T Consensus         1 ViGpaGSGKTT~~~~~~~~~   20 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL   20 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHH
Confidence            68999999999999999883

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=95.42  E-value=0.012  Score=51.14  Aligned_cols=23  Identities=39%  Similarity=0.601  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|+|+|++|+|||||+.++.++
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~   28 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGD   28 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcC
Confidence            46899999999999999999987

>PLN02348 phosphoribulokinase

Probab=95.41  E-value=0.015  Score=54.78  Aligned_cols=35  Identities=29%  Similarity=0.358  Sum_probs=27.4

Q ss_pred             HHHHHhc-CCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          120 KVWEDLM-GDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       120 ~l~~~l~-~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+..... .+.+.+|+|.|.+|+||||+|+.+.+.+
T Consensus        38 ~~~~~~~~~~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         38 SVVVALAADDGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             HHHHhhccCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3333333 3467899999999999999999999874

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=95.39  E-value=0.05  Score=47.13  Aligned_cols=42  Identities=24%  Similarity=0.317  Sum_probs=30.0

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc
Q 038454          121 VWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS  162 (359)
Q Consensus       121 l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~  162 (359)
                      ++..+-..+..-..|.|++|+|||||.+.++.-+..-.+.|.
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l  169 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFL  169 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhccccccC
Confidence            555555555556889999999999999998877433334564

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=95.38  E-value=0.014  Score=46.69  Aligned_cols=23  Identities=17%  Similarity=0.442  Sum_probs=21.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|..|+|||||.+.++..
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEEccCCCccccceeeeccc
Confidence            68999999999999999999887

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=95.37  E-value=0.066  Score=51.83  Aligned_cols=86  Identities=15%  Similarity=0.201  Sum_probs=50.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHH-HHcCcccccCCCcc-EEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRH-INNRPQEETNEFSD-VIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKVSR  199 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~-v~~~~~~~~~~F~~-~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~~~  199 (359)
                      -..++|.|..|+|||+||.. +.+.   .  .-+. ++++-+++.. ...++.+.+...=..       ...+.......
T Consensus       141 GQR~~I~g~~g~GKt~Lal~~I~~q---~--~~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~  215 (485)
T CHL00059        141 GQRELIIGDRQTGKTAVATDTILNQ---K--GQNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQY  215 (485)
T ss_pred             CCEEEeecCCCCCHHHHHHHHHHhc---c--cCCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHHH
Confidence            35799999999999999654 5554   1  2343 4777777654 456666666543211       11111111111


Q ss_pred             -----HHHHHHHHhc-CCcEEEEEecC
Q 038454          200 -----ARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       200 -----~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                           ...+.++++. ++++|||+||+
T Consensus       216 ~ap~~a~aiAEyfr~~G~~VLlv~Ddl  242 (485)
T CHL00059        216 LAPYTGAALAEYFMYRGRHTLIIYDDL  242 (485)
T ss_pred             HHHHHHhhHHHHHHHcCCCEEEEEcCh
Confidence                 1224445544 49999999999

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=95.36  E-value=0.06  Score=50.63  Aligned_cols=41  Identities=22%  Similarity=0.346  Sum_probs=30.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      .++.|.|.+|+|||.||..++.++ ..........+++.+..
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l-~~~~~~~~~~~l~~n~~   42 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKEL-QNSEEGKKVLYLCGNHP   42 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHh-hccccCCceEEEEecch
Confidence            479999999999999999999983 11344455667766554

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.35  E-value=0.014  Score=48.68  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|.|+|++|+||||+|+.+++.
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~   25 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQA   25 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35889999999999999999987

>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=95.34  E-value=0.022  Score=52.82  Aligned_cols=48  Identities=25%  Similarity=0.291  Sum_probs=35.0

Q ss_pred             cccccccch-HHHHHHHHHHhcCCC--ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMGDK--VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~~~--~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+||... .+..--++++...++  -+.|.+.|++|.|||+||..+++.
T Consensus        23 ~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~e   73 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKE   73 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHH
T ss_pred             cccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHH
Confidence            468999866 334445666666664  478999999999999999999998

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.

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=95.33  E-value=0.062  Score=52.39  Aligned_cols=86  Identities=16%  Similarity=0.212  Sum_probs=51.0

Q ss_pred             ccEEEEEcCCCCcHHHHH-HHHHcCcccccCCCcc-EEEEEeCCCc-CHHHHHHHHHHHhcCC-------CCCCccHHH-
Q 038454          130 VTKIGVWGMGGFGKTAIM-RHINNRPQEETNEFSD-VIWVTVSQPL-DLVKLQAEIAMALKLS-------LTEDEDKVS-  198 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~-~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~~~~-  198 (359)
                      -..++|.|.+|+|||||| ..+.+.     ..-+. ++++-+++.. ...++...+...=...       ..+...... 
T Consensus       162 GQR~~I~g~~g~GKt~Lal~~i~~~-----~~~dv~~V~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atsd~~~~~r~  236 (502)
T PRK13343        162 GQRELIIGDRQTGKTAIAIDAIINQ-----KDSDVICVYVAIGQKASAVARVIETLREHGALEYTTVVVAEASDPPGLQY  236 (502)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHhh-----cCCCEEEEEEEeccChHHHHHHHHHHHhcCccceeEEEEecccccHHHHH
Confidence            357999999999999996 556654     12344 3777777764 4566666655432111       111111111 


Q ss_pred             ----HHHHHHHHHhc-CCcEEEEEecC
Q 038454          199 ----RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       199 ----~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                          ....+.+++++ ++++|||+||+
T Consensus       237 ~ap~~a~aiAEyfrd~G~~VLlv~Ddl  263 (502)
T PRK13343        237 LAPFAGCAIAEYFRDQGQDALIVYDDL  263 (502)
T ss_pred             HHHHHHHHHHHHHHhCCCCEEEEecch
Confidence                11234455543 59999999999

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.33  E-value=0.013  Score=49.72  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +.|.+.|.+|+||||+|+++++.+
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHH
Confidence            568899999999999999998873

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=95.32  E-value=0.096  Score=50.95  Aligned_cols=86  Identities=19%  Similarity=0.223  Sum_probs=53.0

Q ss_pred             ccEEEEEcCCCCcHHHHH-HHHHcCcccccCCCcc-EEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHHH-
Q 038454          130 VTKIGVWGMGGFGKTAIM-RHINNRPQEETNEFSD-VIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKVS-  198 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~-~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~~-  198 (359)
                      -..++|.|..|+|||||| ..+.++ .    .-+. ++++-+++.. ...++.+.+...=..       ...+...... 
T Consensus       162 GQR~~Ifg~~g~GKT~Lal~~I~~q-~----~~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~  236 (497)
T TIGR03324       162 GQRELILGDRQTGKTAIAIDTILNQ-K----GRNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQY  236 (497)
T ss_pred             CCEEEeecCCCCCHHHHHHHHHHHh-c----CCCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHH
Confidence            357999999999999997 467776 1    2343 6788887764 456666666554211       1111111111 


Q ss_pred             ----HHHHHHHHHhc-CCcEEEEEecC
Q 038454          199 ----RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       199 ----~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                          ....+.+++++ ++++|||+||+
T Consensus       237 ~ap~~a~aiAEyfrd~G~~VLlv~Ddl  263 (497)
T TIGR03324       237 IAPYAATSIGEHFMEQGRDVLIVYDDL  263 (497)
T ss_pred             HHHHHHHHHHHHHHhCCCCEEEEEcCh
Confidence                12234455543 59999999999

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=95.32  E-value=0.066  Score=51.68  Aligned_cols=86  Identities=13%  Similarity=0.235  Sum_probs=47.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcC-------CCCCCccHH----
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKL-------SLTEDEDKV----  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~-------~~~~~~~~~----  197 (359)
                      -..++|.|..|+|||||++.+... .  . . +......++. .....++....+..-..       ...+.....    
T Consensus       163 Gq~~~I~G~sG~GKStLl~~I~~~-~--~-~-~~~vi~~iG~r~~ev~~~~~~~~~~~~l~~tvvv~~~~d~~p~~r~~~  237 (440)
T TIGR01026       163 GQRIGIFAGSGVGKSTLLGMIARN-T--E-A-DVNVIALIGERGREVREFIEHDLGEEGLKRSVVVVATSDQSPLLRLKG  237 (440)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC-C--C-C-CEEEEEEEeecchHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHH
Confidence            457899999999999999988877 2  1 1 2223333333 23444554444332111       111111111    


Q ss_pred             -HHHHHHHHHHhc-CCcEEEEEecC
Q 038454          198 -SRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 -~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                       ...-.+.+++.+ ++++||++||+
T Consensus       238 ~~~a~t~AE~frd~G~~Vll~~Dsl  262 (440)
T TIGR01026       238 AYVATAIAEYFRDQGKDVLLLMDSV  262 (440)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEEeCh
Confidence             112223344433 58999999998

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.

>PRK13695 putative NTPase; Provisional

Probab=95.31  E-value=0.017  Score=48.46  Aligned_cols=22  Identities=41%  Similarity=0.619  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999887

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.30  E-value=0.013  Score=53.65  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.+.|++|+||||+|+.+..+
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~   25 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAK   25 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHH
Confidence            57889999999999999999887

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.29  E-value=0.1  Score=49.05  Aligned_cols=91  Identities=16%  Similarity=0.259  Sum_probs=60.3

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe-CCCcCHHHHHHHHHHHhcCCC-------CCCccH
Q 038454          125 LMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV-SQPLDLVKLQAEIAMALKLSL-------TEDEDK  196 (359)
Q Consensus       125 l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~-~~~~~~~~~~~~i~~~l~~~~-------~~~~~~  196 (359)
                      |.-+.-.-|+|..-+|+|||||.-++++.     ..+|..+-.-+ -+...+.++..+.+..-+...       .+.+..
T Consensus       158 lT~G~GQRiGIFAgsGVGKStLLgMiar~-----t~aDv~ViaLIGERGREVrEFIE~~Lg~egl~rsViVvATSD~s~l  232 (441)
T COG1157         158 LTCGKGQRIGIFAGSGVGKSTLLGMIARN-----TEADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESAL  232 (441)
T ss_pred             cccccCceeEEEecCCCcHHHHHHHHhcc-----ccCCEEEEEEeeccchhHHHHHHHhcchhhccceEEEEECCCCCHH
Confidence            33344567999999999999999999987     34664333223 344577888887777664421       111111


Q ss_pred             -----HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          197 -----VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 -----~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                           ...+..+.+++++ ++++||++|.+
T Consensus       233 ~R~~aa~~At~IAEyFRDqG~~VLL~mDSl  262 (441)
T COG1157         233 MRLKAAFTATTIAEYFRDQGKRVLLIMDSL  262 (441)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCeEEEEeecH
Confidence                 2233456677766 69999999999

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=95.29  E-value=0.064  Score=52.05  Aligned_cols=89  Identities=18%  Similarity=0.225  Sum_probs=55.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC--------------CCCCCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL--------------SLTEDE  194 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~--------------~~~~~~  194 (359)
                      -..++|.|.+|+|||+|+..+.... . ..+=+.++++-+++.. ...++...++..-..              ...+..
T Consensus       161 GQR~gIfgg~GvGKs~L~~~~~~~~-~-~~~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p  238 (494)
T CHL00060        161 GGKIGLFGGAGVGKTVLIMELINNI-A-KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEP  238 (494)
T ss_pred             CCEEeeecCCCCChhHHHHHHHHHH-H-HhcCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCC
Confidence            3579999999999999999888762 1 1112667888887654 456677666651110              000111


Q ss_pred             c-----HHHHHHHHHHHHhc-C-CcEEEEEecC
Q 038454          195 D-----KVSRARRLLGKLKA-K-KKFVLILDDI  220 (359)
Q Consensus       195 ~-----~~~~~~~l~~~l~~-~-k~~LlVlDdv  220 (359)
                      .     .....-.+.++++. + +++||++||+
T Consensus       239 ~~~R~~a~~~A~tiAEyfrd~g~~~VLll~Dsl  271 (494)
T CHL00060        239 PGARMRVGLTALTMAEYFRDVNKQDVLLFIDNI  271 (494)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccc
Confidence            1     11223445677754 3 4999999999

>PRK14531 adenylate kinase; Provisional

Probab=95.28  E-value=0.015  Score=49.15  Aligned_cols=23  Identities=17%  Similarity=0.208  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|.|.|++|+||||+++.++..
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~   25 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAA   25 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999999887

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=95.28  E-value=0.064  Score=54.04  Aligned_cols=54  Identities=13%  Similarity=0.045  Sum_probs=33.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      .++..|.|.+|.||||++..+...+.+....-...+.+......-...+...+.
T Consensus       167 ~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~  220 (615)
T PRK10875        167 RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG  220 (615)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence            368999999999999999988876322111112355555555444445544443

>TIGR01287 nifH nitrogenase iron protein

Probab=95.28  E-value=0.014  Score=52.84  Aligned_cols=24  Identities=29%  Similarity=0.643  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +.|+|+|-||+||||++..++..+
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~L   24 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAAL   24 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHH
Confidence            468999999999999999988774

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>TIGR00665 DnaB replicative DNA helicase

Probab=95.28  E-value=0.63  Score=45.12  Aligned_cols=53  Identities=15%  Similarity=0.101  Sum_probs=35.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  186 (359)
                      -..+.|.|.+|+|||+++.+++.+.. ..... .++|++...  +..++...++...
T Consensus       195 G~l~vi~g~pg~GKT~~~l~~a~~~a-~~~g~-~vl~~SlEm--~~~~i~~R~~~~~  247 (434)
T TIGR00665       195 SDLIILAARPSMGKTAFALNIAENAA-IKEGK-PVAFFSLEM--SAEQLAMRMLSSE  247 (434)
T ss_pred             CeEEEEEeCCCCChHHHHHHHHHHHH-HhCCC-eEEEEeCcC--CHHHHHHHHHHHh
Confidence            36899999999999999999987722 22222 466765543  5556666655543

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=95.27  E-value=0.029  Score=47.42  Aligned_cols=35  Identities=26%  Similarity=0.345  Sum_probs=27.3

Q ss_pred             HHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          119 KKVWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       119 ~~l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++.++.. .....|+++|.+|+|||||+..+...
T Consensus         5 ~~~~~~~~~~~~~~~i~ivG~~~~GKTsli~~l~~~   40 (184)
T smart00178        5 YDILASLGLWNKHAKILFLGLDNAGKTTLLHMLKND   40 (184)
T ss_pred             HHHHHHhccccccCEEEEECCCCCCHHHHHHHHhcC
Confidence            456666643 44567899999999999999998865

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=95.27  E-value=0.018  Score=44.65  Aligned_cols=21  Identities=14%  Similarity=0.506  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |+|+|++|+|||||...+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999974

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

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

Probab=95.26  E-value=0.29  Score=49.16  Aligned_cols=68  Identities=24%  Similarity=0.428  Sum_probs=43.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAK  210 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  210 (359)
                      .=|.++|++|+|||-||.+++..+        ..-+++|-.+    +++.   ..+|.      + ++..+.+...-+.-
T Consensus       702 ~giLLyGppGcGKT~la~a~a~~~--------~~~fisvKGP----ElL~---KyIGa------S-Eq~vR~lF~rA~~a  759 (952)
T KOG0735|consen  702 TGILLYGPPGCGKTLLASAIASNS--------NLRFISVKGP----ELLS---KYIGA------S-EQNVRDLFERAQSA  759 (952)
T ss_pred             cceEEECCCCCcHHHHHHHHHhhC--------CeeEEEecCH----HHHH---HHhcc------c-HHHHHHHHHHhhcc
Confidence            348999999999999999998872        1335666554    1111   11222      2 23344444443334


Q ss_pred             CcEEEEEecC
Q 038454          211 KKFVLILDDI  220 (359)
Q Consensus       211 k~~LlVlDdv  220 (359)
                      ++++|.+|.+
T Consensus       760 ~PCiLFFDEf  769 (952)
T KOG0735|consen  760 KPCILFFDEF  769 (952)
T ss_pred             CCeEEEeccc
Confidence            9999999998

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=95.26  E-value=0.014  Score=49.32  Aligned_cols=21  Identities=29%  Similarity=0.458  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q 038454          132 KIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      +|+|+|+.|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999876

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.25  E-value=0.043  Score=48.98  Aligned_cols=23  Identities=30%  Similarity=0.362  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +|+|.|.+|+||||+++.+.+.+
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l   23 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIF   23 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998764

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=95.25  E-value=0.07  Score=51.28  Aligned_cols=86  Identities=14%  Similarity=0.265  Sum_probs=47.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcC-------CCCCCccHHH--
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKL-------SLTEDEDKVS--  198 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~-------~~~~~~~~~~--  198 (359)
                      .-..++|+|..|+|||||++.+++.   ...  +.++...+.. ..+..++.+.++..-..       ... +.+...  
T Consensus       174 ~Gqri~I~G~sG~GKTTLL~~Ia~~---~~~--d~iv~g~Igerg~ev~e~~~~~~~~~~~~~tvVv~~~a-d~~~~~r~  247 (455)
T PRK07960        174 RGQRMGLFAGSGVGKSVLLGMMARY---TQA--DVIVVGLIGERGREVKDFIENILGAEGRARSVVIAAPA-DVSPLLRM  247 (455)
T ss_pred             CCcEEEEECCCCCCccHHHHHHhCC---CCC--CEEEEEEEEECCeEHHHHHHhhcCcCCCceEEEEEECC-CCCHHHHH
Confidence            3467999999999999999988876   211  2222222222 23445554444322110       111 111111  


Q ss_pred             ----HHHHHHHHHhc-CCcEEEEEecC
Q 038454          199 ----RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       199 ----~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                          ..-.+.+++++ ++++|+++||+
T Consensus       248 ~~~~~a~tiAEyfrd~G~~Vll~~Dsl  274 (455)
T PRK07960        248 QGAAYATRIAEDFRDRGQHVLLIMDSL  274 (455)
T ss_pred             HHHHHHHHHHHHHHHcCCCeEEEecch
Confidence                12224445543 59999999999

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=95.23  E-value=0.016  Score=49.75  Aligned_cols=24  Identities=25%  Similarity=0.356  Sum_probs=20.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|+|+.|+||||+|+.+.+.
T Consensus         2 ~~iIglTG~igsGKStva~~~~~~   25 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAEL   25 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHHc
Confidence            368999999999999999887764

>PRK08356 hypothetical protein; Provisional

Probab=95.19  E-value=0.02  Score=49.07  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=19.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHIN  151 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~  151 (359)
                      .+|+|.|++|+||||+|+.+.
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999984

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=95.19  E-value=0.017  Score=47.34  Aligned_cols=22  Identities=36%  Similarity=0.513  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+++|.+|+|||||+..+.+.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~   23 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYD   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999999875

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=95.18  E-value=0.19  Score=52.25  Aligned_cols=24  Identities=21%  Similarity=0.199  Sum_probs=20.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      +.+++.|+|+.+.||||+.+.+.-
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl  349 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGL  349 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHH
Confidence            457899999999999999998754

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=95.17  E-value=0.018  Score=47.80  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.++|+.|+||||+.+.+++.
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~   25 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKA   25 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHH
Confidence            45899999999999999999988

>PRK06851 hypothetical protein; Provisional

Probab=95.17  E-value=0.025  Score=53.01  Aligned_cols=43  Identities=16%  Similarity=0.142  Sum_probs=31.3

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      .+..+++.|.|.+|+|||||++.+.+.+  ....|+.-.+.|.+.
T Consensus        27 ~~~~~~~il~G~pGtGKStl~~~i~~~~--~~~g~~Ve~~~~~~d   69 (367)
T PRK06851         27 DGANRIFILKGGPGTGKSTLMKKIGEEF--LEKGYDVEFLHCSSD   69 (367)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEEcCCC
Confidence            3456899999999999999999999884  223465544544433

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=95.15  E-value=0.025  Score=48.81  Aligned_cols=24  Identities=17%  Similarity=0.045  Sum_probs=21.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++.|.|+.|.||||+.+.+..-
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~   52 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALL   52 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999988643

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	359
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	4e-38
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-33
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-26
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	8e-14

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  142 bits (358), Expect = 4e-38
 Identities = 53/396 (13%), Positives = 113/396 (28%), Gaps = 46/396 (11%)

Query: 2   KNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRK 61
           ++    L+  N   ED    +     R ++    + N+L+  +R  S+   +        
Sbjct: 24  RDALTYLEGKNIFTEDHSELISKMSTRLER----IANFLRIYRRQASELGPLIDFFNYNN 79

Query: 62  YFLCARLGKDVDAKIQEMKDCHQKGC---SFISLVIDAPPSSGLILPTTTLVG-ENTKKI 117
               A   +D         D  +       F   ++D     G +    T    E     
Sbjct: 80  QSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDR 139

Query: 118 VKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHI-NNRPQEETNEFSDVIWVTVSQPL--- 173
           V K  +++       + + G  G GK+ I     +   Q     +  ++W+  S      
Sbjct: 140 VIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKS 199

Query: 174 ------DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDIDNHTFCW 227
                 D++ +       L     E    V   R +   L  +   + + DD+       
Sbjct: 200 TFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIR 259

Query: 228 GLRSMGC-------------------EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEE 268
             + +                     E + V  L  +E  +            V    E+
Sbjct: 260 WAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPM--PVGEKEED 317

Query: 269 IINSVVEECAGLQLAIFTVVGCM---RGVDEIHEWRNALN--ELRGLVRSFSGINADVLG 323
           ++N  +E  +G    +  +       +  +++ +  N L    L G+          +  
Sbjct: 318 VLNKTIELSSGNPATL-MMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAM 376

Query: 324 RLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDELI 359
            L+     L D + +    +  + P    I      
Sbjct: 377 ALQRCVEVLSD-EDRSALAFAVVMPPGVDIPVKLWS 411

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  129 bits (325), Expect = 3e-33
 Identities = 64/385 (16%), Positives = 121/385 (31%), Gaps = 47/385 (12%)

Query: 16  EDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRKY-FLCARLG---KD 71
             I   + ++G        +V+N     QR     + I ++       F  A L    KD
Sbjct: 23  SYIMDHMISDGFLTISEEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKD 82

Query: 72  VDAKIQEMKDCHQKGCSFISLVIDAPPSSGLILPTTTLVGENT-----KKIVKKVWEDLM 126
           + A + +         S    V         +L    +          KK+V  + + L 
Sbjct: 83  LAALLHDGIP-VVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLS 141

Query: 127 --GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSD-VIWVTVSQPLDLVKLQAEIA 183
               +   + + GM G GK+ +              F   V WV+V +      L     
Sbjct: 142 KLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQN 201

Query: 184 MALKL------SLTEDEDKVSRARRLLGKLKAK-KKFVLILDDI-DNHTFCWG------- 228
           +  +L      S     +      RL   +  K  + +LILDD+ D+             
Sbjct: 202 LCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQCQIL 261

Query: 229 --------LRSMGCEEVRVP---PLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEEC 277
                     S+   +  VP    L KE+ L +    V      +P     I    ++EC
Sbjct: 262 LTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSI----IKEC 317

Query: 278 AGLQLAIFTVVGCMRG-VDEIHEWRNALN--ELRGLVRSFSGINADVLGRLEFSYLRLKD 334
            G  L +  +   +R   +    +   L   + + + +S S     +   +  S   L  
Sbjct: 318 KGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEML-R 376

Query: 335 KKVQHCFLYCALYPEDFAISKDELI 359
           + ++  +   ++  +D  +    L 
Sbjct: 377 EDIKDYYTDLSILQKDVKVPTKVLC 401

>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 =  110 bits (275), Expect = 1e-26
 Identities = 60/405 (14%), Positives = 130/405 (32%), Gaps = 96/405 (23%)

Query: 2   KNLERVLQEFNSQKEDIEATLKAEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKRK 61
           K+++ + +   S KE+I+  +    D      T    W    ++     + +E EV +  
Sbjct: 36  KDVQDMPKSILS-KEEIDHIIM-SKDA--VSGTLRLFWTLLSKQEEMVQKFVE-EVLRIN 90

Query: 62  Y-FLCARLGKDVDAKIQEMK---DCHQKGCSFISLVIDAPPSSGLILPTTTLVGENTKKI 117
           Y FL + +  +        +   +   +  +      D    +   +           + 
Sbjct: 91  YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN------DNQVFAKYNVSR--------LQP 136

Query: 118 VKKVWEDLMGDKVTK-IGVWGMGGFGKT--AIMRHINNRPQEETNEFSDVIWVTVSQ--- 171
             K+ + L+  +  K + + G+ G GKT  A+     +   +   +F  + W+ +     
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGSGKTWVALDV-CLSYKVQCKMDFK-IFWLNLKNCNS 194

Query: 172 PLDLVKLQAEIAMALKLSLTEDEDKVS-----------RARRLLGKLKAKKKFVLILDDI 220
           P  ++++  ++   +  + T   D  S             RRLL K K  +  +L+L ++
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL-KSKPYENCLLVLLNV 253

Query: 221 DNHTFCWGLRSM--GC------------------------EEVRVPPLSKEEALNLFLDK 254
            N        +    C                         +     L+ +E  +L L  
Sbjct: 254 QNA---KAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY 310

Query: 255 VGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSF 314
           +      +P           E        +  +   +R  D +  W N           +
Sbjct: 311 LDCRPQDLP----------REVLTTNPRRLSIIAESIR--DGLATWDN-----------W 347

Query: 315 SGINADVLGR-LEFSYLRLKDKKVQHCFLYCALYPEDFAISKDEL 358
             +N D L   +E S   L+  + +  F   +++P    I    L
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.0 bits (95), Expect = 6e-04
 Identities = 44/305 (14%), Positives = 77/305 (25%), Gaps = 106/305 (34%)

Query: 24  AEGDRGKKPRTEVKNWLQ-NVQRINSKAQ-SIEQ----EVKKRKYFLCARLGKDVDAKI- 76
           AE  R      +  NW   N  ++ +  + S+      E +K  +   +         I 
Sbjct: 334 AESIRDGLATWD--NWKHVNCDKLTTIIESSLNVLEPAEYRKM-FDRLSVFPPSA--HIP 388

Query: 77  -----------------QEMKDCHQKGCSFISLVIDAPPSS-----GLILPTTTLVGENT 114
                              +   H+      SLV   P  S      + L     +    
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKY-----SLVEKQPKESTISIPSIYLELKVKLENEY 443

Query: 115 ---KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTA--------IMRHINN-RPQEETNEFS 162
              + IV         D       +                 I  H+ N    E    F 
Sbjct: 444 ALHRSIV---------DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 494

Query: 163 DVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDIDN 222
            V        LD   L+ +I        +   +        L +LK  K ++      DN
Sbjct: 495 MVF-------LDFRFLEQKIRHD-----STAWNASGSILNTLQQLKFYKPYI-----CDN 537

Query: 223 HTFCWGLRSMGCEEVRVPPLSK-EEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ 281
                            P   +   A+  FL K+  N++     +  +          L+
Sbjct: 538 D----------------PKYERLVNAILDFLPKIEENLICSKYTD--L----------LR 569

Query: 282 LAIFT 286
           +A+  
Sbjct: 570 IALMA 574

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 71.8 bits (176), Expect = 8e-14
 Identities = 50/279 (17%), Positives = 103/279 (36%), Gaps = 41/279 (14%)

Query: 112 ENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSD-VIWVTVS 170
           +    I +K+W+  +  +   + ++GM G GK+ +              FS  V WV++ 
Sbjct: 131 KLVHAIQQKLWK--LNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIG 188

Query: 171 Q--PLDLVKLQAEIAMALKLSLTEDE---DKVSRARRLLGKLKAKK--KFVLILDDID-- 221
           +     L+     + M L    +  +     +  A+  L  L  +K  + +LILDD+   
Sbjct: 189 KQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP 248

Query: 222 ------NHTFCW--------GLRSMGCEEVRVPP---LSKEEALNLFLDKVGRNILHVPT 264
                 ++               S+   +  VP    L +E+ L +    V         
Sbjct: 249 WVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNM---KKED 305

Query: 265 LNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELR-----GLVRSFSGINA 319
           L  E  +S+++EC G  L +  +   +R  D  + W   L +L+      + +S S    
Sbjct: 306 LPAE-AHSIIKECKGSPLVVSLIGALLR--DFPNRWAYYLRQLQNKQFKRIRKSSSYDYE 362

Query: 320 DVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDEL 358
            +   +  S   L++    + +   ++  +D  +    L
Sbjct: 363 ALDEAMSISVEMLREDIKDY-YTDLSILQKDVKVPTKVL 400

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	359
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.98
2fna_A	357	Conserved hypothetical protein; structural genomic	99.56
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.54
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.53
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.41
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.39
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.38
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.37
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.33
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.32
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.18
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.13
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.99
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.92
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.85
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.84
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.82
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.79
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.74
3bos_A	242	Putative DNA replication factor; P-loop containing	98.69
3pvs_A	447	Replication-associated recombination protein A; ma	98.62
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.6
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.58
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.57
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.56
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.52
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.48
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.42
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.42
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.41
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.41
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.41
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.4
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.39
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.38
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.34
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.33
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.3
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.28
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.27
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.21
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.2
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.18
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.17
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.17
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.15
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.15
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.13
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.12
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.12
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.09
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.08
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.07
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.07
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.04
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.99
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.97
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.89
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.86
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.85
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.84
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.8
3co5_A	143	Putative two-component system transcriptional RES	97.71
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.69
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.68
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.68
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.4
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.37
2qgz_A	308	Helicase loader, putative primosome component; str	97.35
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.35
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.33
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.32
3io5_A	333	Recombination and repair protein; storage dimer, i	97.27
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.27
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.27
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.24
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.21
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.21
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.2
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.18
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.09
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.01
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.97
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.92
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.85
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.85
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.85
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.79
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.78
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.77
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.74
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.73
3ice_A	422	Transcription termination factor RHO; transcriptio	96.71
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.68
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.66
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.64
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.62
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.6
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.6
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.59
2xxa_A	433	Signal recognition particle protein; protein trans	96.59
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.57
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.57
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.56
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.54
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.53
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.53
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.52
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.51
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.5
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.48
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.48
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	96.47
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.47
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.44
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.44
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.43
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.42
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.42
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.4
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.38
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.37
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.36
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.32
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.31
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.31
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.31
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.3
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.27
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.27
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.26
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.26
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.25
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.25
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.25
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.24
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.24
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.23
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.22
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.22
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.22
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.2
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.2
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.19
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.18
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.14
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.14
1via_A	175	Shikimate kinase; structural genomics, transferase	96.13
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.13
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.13
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.12
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.12
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.12
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.11
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.11
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.1
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.1
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.09
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.09
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.08
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.07
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.07
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.07
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.07
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.06
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.05
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.04
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.03
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.02
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.02
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.01
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.01
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.0
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.97
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.97
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.96
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.96
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.96
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.95
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.94
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.94
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.93
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.93
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.91
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.88
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.86
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.85
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.85
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.84
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.83
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.82
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.81
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.8
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.8
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.8
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.79
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.78
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.78
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.75
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	95.74
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.74
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.72
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.72
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.7
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.69
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.69
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.68
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.67
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.67
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.65
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.64
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.63
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.63
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.62
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.6
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.6
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.58
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.57
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	95.56
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	95.56
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.53
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.53
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.52
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.51
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.5
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.5
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.47
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.45
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.42
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.42
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.42
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	95.4
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.38
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.36
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.36
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.35
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.27
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.25
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.25
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.24
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.23
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.22
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.22
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.21
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.21
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.2
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.19
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.17
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.16
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.14
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.14
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.13
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.12
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.12
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.11
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.1
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.08
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.08
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.08
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.03
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.02
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	95.02
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.98
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.97
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.95
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.95
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	94.94
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	94.93
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.9
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.89
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.88
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.87
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.87
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.87
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.87
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	94.84
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.83
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.8
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.8
1g6h_A	257	High-affinity branched-chain amino acid transport	94.79
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.79
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.77
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.77
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	94.77
2og2_A	359	Putative signal recognition particle receptor; nuc	94.76
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.76
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	94.75
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.75
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.75
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	94.74
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.74
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.73
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	94.73
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.73
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.72
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.71
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.7
3end_A	307	Light-independent protochlorophyllide reductase ir	94.7
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.7
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.69
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.69
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.68
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	94.66
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	94.64
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.63
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.62
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	94.61
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.61
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	94.6
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.6
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.58
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.56
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.55
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.52
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.52
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.52
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	94.52
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.48
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.46
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.46
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.42
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.41
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.4
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.4
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	94.38
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.37
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.37
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.37
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.37
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.36
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.34
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.33
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.33
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.26
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	94.26
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.25
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.25
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.25
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.24
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.24
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.21
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.21
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	94.17
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.16
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.15
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.13
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.13
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.12
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.12
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.11
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.09
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.08
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	94.07
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.06
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.05
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	94.03
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.01
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.0
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.99
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.99
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.98
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.98
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.96
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.93
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.93
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.92
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	93.91
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.89
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.89
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	93.89
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	93.88
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.88
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	93.87
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.86
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.85
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	93.84
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.82
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.82
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.82
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	93.81
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.79
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	93.76
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.76
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	93.74
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.74
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.73
1p9r_A	418	General secretion pathway protein E; bacterial typ	93.73
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.72
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	93.7
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	93.7
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.7
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.69
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.67
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	93.67
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.66
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.65
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	93.65
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.65
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.64
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.6
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.6
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.6
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	93.58
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.57
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	93.56
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.55
3llu_A	196	RAS-related GTP-binding protein C; structural geno	93.54
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	93.54
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.52
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	93.51
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.5
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	93.5
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.49
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	93.49
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.48
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.48
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	93.47
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.46
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	93.46
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.45
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.43
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	93.42
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.4
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	93.4
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.37
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	93.36
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	93.35
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.34
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.34
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	93.33
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.33
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	93.33
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.31
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.31
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.29
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.26
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	93.26
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.25
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.24
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.24
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.23
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	93.23
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	93.19
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.19
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.17
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	93.17
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.16
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	93.16
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	93.15
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.13
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.13
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	93.11
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	93.11
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	93.1
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.09
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	93.04
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	93.02
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	93.01
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	93.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	93.0
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	92.98
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	92.97
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	92.94
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	92.91
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	92.89
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	92.89
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	92.88
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	92.87
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	92.85
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.82
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	92.76
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	92.76
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	92.73
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	92.73
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	92.72
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	92.68
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	92.67
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	92.65
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	92.64
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	92.61
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	92.58
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	92.56
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.54
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	92.5
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	92.5
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.46
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	92.45
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	92.4
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	92.32
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	92.28
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	92.25
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	92.23
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	92.2
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	92.13
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	92.12
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	92.11

>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=100.00  E-value=7.2e-40  Score=323.59  Aligned_cols=231  Identities=18%  Similarity=0.209  Sum_probs=189.2

Q ss_pred             cccchHHHHHHHHHHhcCC---CccEEEEEcCCCCcHHHHHHHHHc--CcccccCCCccEEEEEeCCCc--CHHHHHHHH
Q 038454          110 VGENTKKIVKKVWEDLMGD---KVTKIGVWGMGGFGKTAIMRHINN--RPQEETNEFSDVIWVTVSQPL--DLVKLQAEI  182 (359)
Q Consensus       110 vGr~~~~~~~~l~~~l~~~---~~~vi~I~G~gGiGKTtLa~~v~~--~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i  182 (359)
                      |||+.  ++++|.++|..+   ..++|+|+||||+||||||+++|+  + ..+..+|++++||++++.+  +...++..|
T Consensus       131 ~GR~~--~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~-~~~~~~F~~~~wv~vs~~~~~~~~~~~~~i  207 (549)
T 2a5y_B          131 YIREY--HVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSD-QLIGINYDSIVWLKDSGTAPKSTFDLFTDI  207 (549)
T ss_dssp             CCCHH--HHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCS-STBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CCchH--HHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhh-HHHhccCCcEEEEEECCCCCCCHHHHHHHH
Confidence            69976  899999998643   689999999999999999999998  4 4578999999999999885  899999999


Q ss_pred             HHHhcCCCC-------CCccHHHHHHHHHHHHhcCC-cEEEEEecC----------CCC-eEEEeec------ccc-e-e
Q 038454          183 AMALKLSLT-------EDEDKVSRARRLLGKLKAKK-KFVLILDDI----------DNH-TFCWGLR------SMG-C-E  235 (359)
Q Consensus       183 ~~~l~~~~~-------~~~~~~~~~~~l~~~l~~~k-~~LlVlDdv----------~~g-~ilvTtr------~~~-~-~  235 (359)
                      +.+++....       ...+.......+.+.|.+ + |+|||||||          .+| +||||||      .++ . .
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~-~kr~LlVLDdv~~~~~~~~~~~~gs~ilvTTR~~~v~~~~~~~~~  286 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALID-RPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCE  286 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTT-STTEEEEEEEECCHHHHHHHHHTTCEEEEEESBGGGGGGCCSCEE
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcC-CCcEEEEEECCCCchhhcccccCCCEEEEEcCCHHHHHHcCCCCe
Confidence            999986421       123456678889999988 6 999999999          368 9999999      222 2 4


Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhcCCCChhHHHHHHHHHhhcccccC
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVRSFS  315 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~~~~~~w~~~l~~~~~~~~~~~  315 (359)
                      .|+|++|+.++||+||.+.++...  .++.+.+++.+|+++|+|+||||+++|+.|+.+ +   |..+ +.+....+.. 
T Consensus       287 ~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~-~---w~~~-~~l~~~l~~~-  358 (549)
T 2a5y_B          287 FIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-T---FEKM-AQLNNKLESR-  358 (549)
T ss_dssp             EEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-S---HHHH-HHHHHHHHHH-
T ss_pred             EEECCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc-h---HHHH-HHhHHHhhcc-
Confidence            699999999999999999987653  246788899999999999999999999999874 3   4433 3333222222 


Q ss_pred             CChhhHhhHHHHhhhcCCCcchhHHHh-----------hccccCCCCccC
Q 038454          316 GINADVLGRLEFSYLRLKDKKVQHCFL-----------YCALYPEDFAIS  354 (359)
Q Consensus       316 ~~~~~~~~~l~~sy~~L~~~~~k~cf~-----------~~s~fp~~~~i~  354 (359)
                       ....+..+|.+||+.| |+++|.||+           |||+||+++.|+
T Consensus       359 -~~~~i~~~l~~Sy~~L-~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~  406 (549)
T 2a5y_B          359 -GLVGVECITPYSYKSL-AMALQRCVEVLSDEDRSALAFAVVMPPGVDIP  406 (549)
T ss_dssp             -CSSTTCCCSSSSSSSH-HHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE
T ss_pred             -cHHHHHHHHhcccccc-cHHHHHHHhccchhhhhHhhheeeeCCCCeee
Confidence             2356889999999999 999999999           999999999987

>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=100.00  E-value=8.2e-34  Score=304.73  Aligned_cols=248  Identities=19%  Similarity=0.247  Sum_probs=194.8

Q ss_pred             ccCCcccccccchHHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCC-ccEEEEEeCCCc--CHH
Q 038454          102 LILPTTTLVGENTKKIVKKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEF-SDVIWVTVSQPL--DLV  176 (359)
Q Consensus       102 ~~~~~~~~vGr~~~~~~~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~--~~~  176 (359)
                      .|.+++.||||+.  ++++|.++|.  ++++++|+|+||||+||||||+++|++......+| +.++||+++...  +..
T Consensus       119 ~p~~~~~~vgR~~--~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  196 (1249)
T 3sfz_A          119 VPQRPVIFVTRKK--LVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLL  196 (1249)
T ss_dssp             CCCCCSSCCCCHH--HHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHH
T ss_pred             CCCCCceeccHHH--HHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHH
Confidence            4455678999976  9999999985  45789999999999999999999999832235555 568899998854  345


Q ss_pred             HHHHHHHHHhcCCCC----CCccHHHHHHHHHHHHhc-CCcEEEEEecC---------CCC-eEEEeeccc-------c-
Q 038454          177 KLQAEIAMALKLSLT----EDEDKVSRARRLLGKLKA-KKKFVLILDDI---------DNH-TFCWGLRSM-------G-  233 (359)
Q Consensus       177 ~~~~~i~~~l~~~~~----~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv---------~~g-~ilvTtr~~-------~-  233 (359)
                      ..+..++..+.....    ...+.+.....+...+.+ ++|+||||||+         .+| +||+|||..       + 
T Consensus       197 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~~~~~~ilvTtR~~~~~~~~~~~  276 (1249)
T 3sfz_A          197 MKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQCQILLTTRDKSVTDSVMGP  276 (1249)
T ss_dssp             HHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTTCSSCEEEEEESSTTTTTTCCSC
T ss_pred             HHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhhcCCCEEEEEcCCHHHHHhhcCC
Confidence            557777777765321    234667778888888877 13999999999         678 999999921       2 


Q ss_pred             eeeeecCC-CChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhcCCCChhHHHHHHHHHhhccc
Q 038454          234 CEEVRVPP-LSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLVR  312 (359)
Q Consensus       234 ~~~~~l~~-L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~~~~~~w~~~l~~~~~~~~  312 (359)
                      ...+.+.+ |+.++|++||...++..    .+...+.+++|+++|+|+||||+++|++|+.+.  ..|...++.+....+
T Consensus       277 ~~~~~~~~~l~~~~a~~l~~~~~~~~----~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~~~~~  350 (1249)
T 3sfz_A          277 KHVVPVESGLGREKGLEILSLFVNMK----KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQNKQF  350 (1249)
T ss_dssp             BCCEECCSSCCHHHHHHHHHHHHTSC----STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHHSCCC
T ss_pred             ceEEEecCCCCHHHHHHHHHHhhCCC----hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHhhhhh
Confidence            24588886 99999999999988543    234456789999999999999999999998743  479999998875542


Q ss_pred             cc-----CCChhhHhhHHHHhhhcCCCcchhHHHhhccccCCCCccCCCCC
Q 038454          313 SF-----SGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKDEL  358 (359)
Q Consensus       313 ~~-----~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp~~~~i~~~~L  358 (359)
                      ..     ......+..+|.+||+.| |++.|.||+|||+||+++.|+++.|
T Consensus       351 ~~~~~~~~~~~~~~~~~l~~s~~~L-~~~~~~~~~~l~~f~~~~~i~~~~~  400 (1249)
T 3sfz_A          351 KRIRKSSSYDYEALDEAMSISVEML-REDIKDYYTDLSILQKDVKVPTKVL  400 (1249)
T ss_dssp             CCSSCTTCTTHHHHHHHHHHHHHTS-CTTTHHHHHHGGGSCTTCCEEHHHH
T ss_pred             hhcccccccchHHHHHHHHHHHHhC-CHHHHHHHHHhCccCCCCeeCHHHH
Confidence            21     122357999999999999 8899999999999999999987654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=9.5e-34  Score=287.28  Aligned_cols=222  Identities=14%  Similarity=0.117  Sum_probs=173.3

Q ss_pred             cccccchHHHHHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCcc-EEEEEeCCCcCHHHHHHHHHHH
Q 038454          108 TLVGENTKKIVKKVWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSD-VIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      ..|||+.  ++++|.++|.. ++.++|+|+||||+||||||+++|++ .++..+|+. ++|+++++.++...++..|+..
T Consensus       129 ~~VGRe~--eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d-~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~l  205 (1221)
T 1vt4_I          129 YNVSRLQ--PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLS-YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL  205 (1221)
T ss_dssp             SCCCCHH--HHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHH-CHHHHHHSSCEEEEECCCSSSHHHHHHHHHHH
T ss_pred             CCCCcHH--HHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHh-hHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            4599976  89999998865 56899999999999999999999987 557788986 9999999999988888888776


Q ss_pred             hcCCC---CC--------CccHHHHHHHHHHHH---hcCCcEEEEEecC---------CCC-eEEEeecc------cce-
Q 038454          186 LKLSL---TE--------DEDKVSRARRLLGKL---KAKKKFVLILDDI---------DNH-TFCWGLRS------MGC-  234 (359)
Q Consensus       186 l~~~~---~~--------~~~~~~~~~~l~~~l---~~~k~~LlVlDdv---------~~g-~ilvTtr~------~~~-  234 (359)
                      ++...   ..        ..+.+.....+.+.|   .+ +|+||||||+         .+| +||||||.      +.. 
T Consensus       206 L~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~-KRvLLVLDDVwd~eqLe~f~pGSRILVTTRd~~Va~~l~g~  284 (1221)
T 1vt4_I          206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY-ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA  284 (1221)
T ss_dssp             HHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTT-SSCEEEEESCCCHHHHHHHHSSCCEEEECSCSHHHHHHHHH
T ss_pred             HhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcC-CCEEEEEeCcChHHHHHhhCCCeEEEEeccChHHHHhcCCC
Confidence            53211   10        112344556666665   44 9999999999         577 99999992      121 


Q ss_pred             eeeecC------CCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhcCC-CChhHHHHHHHHH
Q 038454          235 EEVRVP------PLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGV-DEIHEWRNALNEL  307 (359)
Q Consensus       235 ~~~~l~------~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~-~~~~~w~~~l~~~  307 (359)
                      ..+.++      +|+.+||++||.... +..      ..+...+|   |+|+||||+++|+.|+.+ .+..+|...    
T Consensus       285 ~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~------~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~----  350 (1221)
T 1vt4_I          285 TTTHISLDHHSMTLTPDEVKSLLLKYL-DCR------PQDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV----  350 (1221)
T ss_dssp             SSCEEEECSSSSCCCHHHHHHHHHHHH-CCC------TTTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC----
T ss_pred             eEEEecCccccCCcCHHHHHHHHHHHc-CCC------HHHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC----
Confidence            256666      999999999999984 221      12233333   999999999999999985 367778642    


Q ss_pred             hhcccccCCChhhHhhHHHHhhhcCCCcch-hHHHhhccccCCCCccCCCC
Q 038454          308 RGLVRSFSGINADVLGRLEFSYLRLKDKKV-QHCFLYCALYPEDFAISKDE  357 (359)
Q Consensus       308 ~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~-k~cf~~~s~fp~~~~i~~~~  357 (359)
                               ....+..+|.+||+.| |++. |.||+|||+||+++.|+++.
T Consensus       351 ---------~~~~I~aaLelSYd~L-p~eelK~cFL~LAIFPed~~I~~el  391 (1221)
T 1vt4_I          351 ---------NCDKLTTIIESSLNVL-EPAEYRKMFDRLSVFPPSAHIPTIL  391 (1221)
T ss_dssp             ---------SCHHHHHHHHHHHHHS-CTTHHHHHHHHTTSSCTTSCEEHHH
T ss_pred             ---------ChhHHHHHHHHHHHhC-CHHHHHHHHHHHhCCCCCCCCCHHH
Confidence                     1368999999999999 7788 99999999999999998653

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.98  E-value=6.3e-32  Score=269.46  Aligned_cols=243  Identities=19%  Similarity=0.239  Sum_probs=185.8

Q ss_pred             cCCcccccccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcCcccc-cCCCc-cEEEEEeCCCcCHHHH
Q 038454          103 ILPTTTLVGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNRPQEE-TNEFS-DVIWVTVSQPLDLVKL  178 (359)
Q Consensus       103 ~~~~~~~vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~F~-~~~wv~~~~~~~~~~~  178 (359)
                      |.+++.||||+.  ++++|.+++..  ++.++|+|+|+||+||||||.+++++ ... ..+|+ .++|++++.. +...+
T Consensus       120 P~~~~~~vGR~~--~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~-~~~~~~~f~~~v~wv~~~~~-~~~~~  195 (591)
T 1z6t_A          120 PQRPVVFVTRKK--LVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRD-HSLLEGCFPGGVHWVSVGKQ-DKSGL  195 (591)
T ss_dssp             CCCCSSCCCCHH--HHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCC-HHHHHHHCTTCEEEEEEESC-CHHHH
T ss_pred             CCCCCeecccHH--HHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhc-hhHHHhhCCCceEEEECCCC-chHHH
Confidence            445678999977  99999999873  56789999999999999999999998 444 67884 7999999765 33333


Q ss_pred             HHH---HHHHhcCC----CCCCccHHHHHHHHHHHHhcC-CcEEEEEecC---------CCC-eEEEeecc------cce
Q 038454          179 QAE---IAMALKLS----LTEDEDKVSRARRLLGKLKAK-KKFVLILDDI---------DNH-TFCWGLRS------MGC  234 (359)
Q Consensus       179 ~~~---i~~~l~~~----~~~~~~~~~~~~~l~~~l~~~-k~~LlVlDdv---------~~g-~ilvTtr~------~~~  234 (359)
                      +..   ++..++..    .....+.......+...+.+. +++||||||+         .+| +||+|||.      ...
T Consensus       196 ~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l~~~~~ilvTsR~~~~~~~~~~  275 (591)
T 1z6t_A          196 LMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMG  275 (591)
T ss_dssp             HHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTTCSSCEEEEEESCGGGGTTCCS
T ss_pred             HHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHhcCCCeEEEECCCcHHHHhcCC
Confidence            333   34455531    122345667777788877763 6899999999         567 99999991      122


Q ss_pred             eeeec---CCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhcCCCChhHHHHHHHHHhhcc
Q 038454          235 EEVRV---PPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLV  311 (359)
Q Consensus       235 ~~~~l---~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~~~~~~w~~~l~~~~~~~  311 (359)
                      ..+.+   ++|+.++|++||...++...    ....+.+.+|+++|+|+||||..+|+.|+.+  ...|...++.+....
T Consensus       276 ~~~~v~~l~~L~~~ea~~L~~~~~~~~~----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l~~~~  349 (591)
T 1z6t_A          276 PKYVVPVESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNKQ  349 (591)
T ss_dssp             CEEEEECCSSCCHHHHHHHHHHHHTSCG----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHHHSCC
T ss_pred             CceEeecCCCCCHHHHHHHHHHHhCCCc----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHHHHhH
Confidence            33444   58999999999999886521    1224578999999999999999999999874  347999988887543


Q ss_pred             cc-----cCCChhhHhhHHHHhhhcCCCcchhHHHhhccccCCCCccCCC
Q 038454          312 RS-----FSGINADVLGRLEFSYLRLKDKKVQHCFLYCALYPEDFAISKD  356 (359)
Q Consensus       312 ~~-----~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~fp~~~~i~~~  356 (359)
                      ..     .......+..++..||+.| |++.|.||++||+||+++.|+.+
T Consensus       350 ~~~~~~~~~~~~~~l~~~l~~s~~~L-~~~~~~~l~~la~f~~~~~i~~~  398 (591)
T 1z6t_A          350 FKRIRKSSSYDYEALDEAMSISVEML-REDIKDYYTDLSILQKDVKVPTK  398 (591)
T ss_dssp             CCCSSCCCSSCCHHHHHHHHHHHHTS-CTTTHHHHHHGGGCCTTCCEEHH
T ss_pred             HHHhhhccccchHHHHHHHHHHHHhC-CHHHHHHHHHccccCCCCccCHH
Confidence            21     1123457999999999999 88899999999999999988754

>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=99.56  E-value=1.7e-13  Score=127.04  Aligned_cols=171  Identities=13%  Similarity=0.111  Sum_probs=113.9

Q ss_pred             CCcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-----cCHHHH
Q 038454          104 LPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-----LDLVKL  178 (359)
Q Consensus       104 ~~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-----~~~~~~  178 (359)
                      ..+..++||+.  +++.|.. +..   +++.|+|++|+|||+|++++++.   ...   ..+|+++...     .+...+
T Consensus        10 ~~~~~~~gR~~--el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~---~~~---~~~~~~~~~~~~~~~~~~~~~   77 (357)
T 2fna_A           10 DNRKDFFDREK--EIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINE---LNL---PYIYLDLRKFEERNYISYKDF   77 (357)
T ss_dssp             CSGGGSCCCHH--HHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHH---HTC---CEEEEEGGGGTTCSCCCHHHH
T ss_pred             CCHHHhcChHH--HHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHh---cCC---CEEEEEchhhccccCCCHHHH
Confidence            34678999976  8999988 765   69999999999999999999987   222   2578887642     344555


Q ss_pred             HHHHHHHhcC------------------CCC-----------CCccHHHHHHHHHHHHhcCCcEEEEEecC---------
Q 038454          179 QAEIAMALKL------------------SLT-----------EDEDKVSRARRLLGKLKAKKKFVLILDDI---------  220 (359)
Q Consensus       179 ~~~i~~~l~~------------------~~~-----------~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------  220 (359)
                      +..+...+..                  ..+           ...........+.+. .. ++++|||||+         
T Consensus        78 ~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~~-~~~vlvlDe~~~~~~~~~~  155 (357)
T 2fna_A           78 LLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQA-SK-DNVIIVLDEAQELVKLRGV  155 (357)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHT-CS-SCEEEEEETGGGGGGCTTC
T ss_pred             HHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhc-CC-CCeEEEEECHHHhhccCch
Confidence            5555444310                  000           011223333333221 11 4899999998         


Q ss_pred             ------------CCC-eEEEeeccc----------------c---eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHH
Q 038454          221 ------------DNH-TFCWGLRSM----------------G---CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEE  268 (359)
Q Consensus       221 ------------~~g-~ilvTtr~~----------------~---~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~  268 (359)
                                  .++ .+++|++..                .   ...+.+.+|+.+++.+++...+...+. .....  
T Consensus       156 ~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~-~~~~~--  232 (357)
T 2fna_A          156 NLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADI-DFKDY--  232 (357)
T ss_dssp             CCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTC-CCCCH--
T ss_pred             hHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCC-CCCcH--
Confidence                        236 888988711                0   146899999999999999875421111 11111  


Q ss_pred             HHHHHHHHcCCchhHHHHHHHhhcC
Q 038454          269 IINSVVEECAGLQLAIFTVVGCMRG  293 (359)
Q Consensus       269 ~~~~i~~~c~g~Plai~~~~~~L~~  293 (359)
                        ..|+..|+|+|+++..++..+..
T Consensus       233 --~~i~~~t~G~P~~l~~~~~~~~~  255 (357)
T 2fna_A          233 --EVVYEKIGGIPGWLTYFGFIYLD  255 (357)
T ss_dssp             --HHHHHHHCSCHHHHHHHHHHHHH
T ss_pred             --HHHHHHhCCCHHHHHHHHHHHcc
Confidence              78999999999999999887643

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.54  E-value=1.8e-13  Score=126.60  Aligned_cols=175  Identities=15%  Similarity=0.131  Sum_probs=122.9

Q ss_pred             ccCCcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc------CH
Q 038454          102 LILPTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL------DL  175 (359)
Q Consensus       102 ~~~~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~------~~  175 (359)
                      ++..+..++||+.  +++.|..++..+  +++.|+|++|+|||||++++++. .   +    .+|+++....      +.
T Consensus         7 ~~~~~~~~~gR~~--el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~-~---~----~~~~~~~~~~~~~~~~~~   74 (350)
T 2qen_A            7 PKTRREDIFDREE--ESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNE-R---P----GILIDCRELYAERGHITR   74 (350)
T ss_dssp             CCCSGGGSCSCHH--HHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHH-S---S----EEEEEHHHHHHTTTCBCH
T ss_pred             CCCChHhcCChHH--HHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHH-c---C----cEEEEeecccccccCCCH
Confidence            3344678999976  889998888764  79999999999999999999987 2   1    6788765432      56


Q ss_pred             HHHHHHHHHHhcC-----------------CCC-CCccHHHHHHHHHHHHhcCCcEEEEEecC----C------------
Q 038454          176 VKLQAEIAMALKL-----------------SLT-EDEDKVSRARRLLGKLKAKKKFVLILDDI----D------------  221 (359)
Q Consensus       176 ~~~~~~i~~~l~~-----------------~~~-~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----~------------  221 (359)
                      ..++..+...+..                 ..+ ...+.......+.+.....++++|||||+    .            
T Consensus        75 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~  154 (350)
T 2qen_A           75 EELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLAL  154 (350)
T ss_dssp             HHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHH
Confidence            6677766665532                 000 01244555555555554324899999998    1            


Q ss_pred             --------CC-eEEEeecc----c------c---------eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHH
Q 038454          222 --------NH-TFCWGLRS----M------G---------CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSV  273 (359)
Q Consensus       222 --------~g-~ilvTtr~----~------~---------~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i  273 (359)
                              ++ .+++|++.    .      .         ...+.+.+|+.+|+.+++.......+..   ...+.+..|
T Consensus       155 L~~~~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~---~~~~~~~~i  231 (350)
T 2qen_A          155 FAYAYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD---VPENEIEEA  231 (350)
T ss_dssp             HHHHHHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHH
T ss_pred             HHHHHHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHH
Confidence                    35 78888761    0      0         1368999999999999998754222211   124677899


Q ss_pred             HHHcCCchhHHHHHHHhh
Q 038454          274 VEECAGLQLAIFTVVGCM  291 (359)
Q Consensus       274 ~~~c~g~Plai~~~~~~L  291 (359)
                      +..|+|+|+++..++..+
T Consensus       232 ~~~tgG~P~~l~~~~~~~  249 (350)
T 2qen_A          232 VELLDGIPGWLVVFGVEY  249 (350)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHH
Confidence            999999999999988765

>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=99.53  E-value=2.6e-13  Score=128.61  Aligned_cols=226  Identities=12%  Similarity=0.095  Sum_probs=143.7

Q ss_pred             cccccccchHHHHHHHHHHh-c----C--CCccEEEE--EcCCCCcHHHHHHHHHcCcccc--cCCCc-cEEEEEeCCCc
Q 038454          106 TTTLVGENTKKIVKKVWEDL-M----G--DKVTKIGV--WGMGGFGKTAIMRHINNRPQEE--TNEFS-DVIWVTVSQPL  173 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l-~----~--~~~~vi~I--~G~gGiGKTtLa~~v~~~~~~~--~~~F~-~~~wv~~~~~~  173 (359)
                      +..++||+.  +++.|..++ .    .  .....+.|  +|++|+||||||+.+++.....  ...|. .++|+++....
T Consensus        21 p~~l~gR~~--el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (412)
T 1w5s_A           21 PPELRVRRG--EAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAP   98 (412)
T ss_dssp             CSSCSSSCH--HHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             CCCCCChHH--HHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCC
Confidence            468999987  788887777 3    2  24566777  9999999999999999873111  01223 36788876777


Q ss_pred             CHHHHHHHHHHHhcCCCCC-CccHHHHHHHHHHHHhc-CCcEEEEEecC------------------------C--C--C
Q 038454          174 DLVKLQAEIAMALKLSLTE-DEDKVSRARRLLGKLKA-KKKFVLILDDI------------------------D--N--H  223 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~l~~~l~~-~k~~LlVlDdv------------------------~--~--g  223 (359)
                      +...++..++.+++...+. ..+.......+.+.+.. +++++|||||+                        .  .  .
T Consensus        99 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~  178 (412)
T 1w5s_A           99 NLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVN  178 (412)
T ss_dssp             SHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCC
T ss_pred             CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCc
Confidence            8999999999999765332 23455566666666652 37999999998                        1  2  3


Q ss_pred             --eEEEeeccc------c----------eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcC------C
Q 038454          224 --TFCWGLRSM------G----------CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECA------G  279 (359)
Q Consensus       224 --~ilvTtr~~------~----------~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~------g  279 (359)
                        .+|+||+..      .          ...+.+++|+.++++++|...+..... ...-..+.+..|++.|+      |
T Consensus       179 ~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~G  257 (412)
T 1w5s_A          179 RIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLR-DTVWEPRHLELISDVYGEDKGGDG  257 (412)
T ss_dssp             BEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBC-TTSCCHHHHHHHHHHHCGGGTSCC
T ss_pred             eEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCC-CCCCChHHHHHHHHHHHHhccCCC
Confidence              477787611      0          123899999999999999765421111 11123567788999999      9


Q ss_pred             chhHHHHHHHhhc------CC--CChhHHHHHHHHHhhcccccCCChhhHhhHHHHhhhcCCCcchhHHHhhcccc
Q 038454          280 LQLAIFTVVGCMR------GV--DEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCALY  347 (359)
Q Consensus       280 ~Plai~~~~~~L~------~~--~~~~~w~~~l~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s~f  347 (359)
                      .|..+..++....      ..  -+...+..++.....            ...+.-++..| |+..+.++..++.+
T Consensus       258 ~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------------~~~~~~~l~~l-~~~~~~~l~aia~l  320 (412)
T 1w5s_A          258 SARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------------ASIQTHELEAL-SIHELIILRLIAEA  320 (412)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------------CCSSSSS-CHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------------cchHHHHHHcC-CHHHHHHHHHHHHH
Confidence            9976655543211      11  223334433332110            12233456677 77777777777754

>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=99.41  E-value=9e-12  Score=116.68  Aligned_cols=199  Identities=18%  Similarity=0.236  Sum_probs=131.0

Q ss_pred             cccccccchHHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAE  181 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  181 (359)
                      +..++||+.  +++.+..++.    .+....+.|+|++|+||||||+.+++.+......-...+|++.....+...++..
T Consensus        19 p~~~~gr~~--e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           19 PDELPHRED--QIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             CSCCTTCHH--HHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCCChHH--HHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            478999976  8888888886    4556789999999999999999999873111110124678877666677888888


Q ss_pred             HHHHhcCCCC-CCccHHHHHHHHHHHHhc-CCcEEEEEecC--------------------C-C--C-eEEEeecc----
Q 038454          182 IAMALKLSLT-EDEDKVSRARRLLGKLKA-KKKFVLILDDI--------------------D-N--H-TFCWGLRS----  231 (359)
Q Consensus       182 i~~~l~~~~~-~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv--------------------~-~--g-~ilvTtr~----  231 (359)
                      ++.+++...+ ...+.......+.+.+.. +++.+||||++                    . +  + .+|+||+.    
T Consensus        97 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~  176 (386)
T 2qby_A           97 LLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFV  176 (386)
T ss_dssp             HTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGG
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChH
Confidence            8887765432 123455556667666654 25899999998                    1 2  3 56777761    


Q ss_pred             ----------cceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcC---CchhHHHHHHHhh---c---
Q 038454          232 ----------MGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECA---GLQLAIFTVVGCM---R---  292 (359)
Q Consensus       232 ----------~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~---g~Plai~~~~~~L---~---  292 (359)
                                .....+.+++++.++..+++...+..... ...-..+....+++.++   |.|..+..+....   .   
T Consensus       177 ~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~  255 (386)
T 2qby_A          177 DLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFK-PGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERM  255 (386)
T ss_dssp             GGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBC-SSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             hhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhcc-CCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhc
Confidence                      11146899999999999999886421110 11223456677888887   9998544333221   1   


Q ss_pred             C--CCChhHHHHHHHHH
Q 038454          293 G--VDEIHEWRNALNEL  307 (359)
Q Consensus       293 ~--~~~~~~w~~~l~~~  307 (359)
                      .  .-+.+.+..++...
T Consensus       256 ~~~~i~~~~v~~a~~~~  272 (386)
T 2qby_A          256 KDTKVKEEYVYMAKEEI  272 (386)
T ss_dssp             TCSSCCHHHHHHHHHHH
T ss_pred             CCCccCHHHHHHHHHHH
Confidence            1  24556666665554

>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=99.39  E-value=2.5e-11  Score=113.85  Aligned_cols=220  Identities=13%  Similarity=0.084  Sum_probs=142.1

Q ss_pred             cccccccchHHHHHHHHHHh----cCCCccEEEEEcCCCCcHHHHHHHHHcCcccc---cCCC--ccEEEEEeCCCc-CH
Q 038454          106 TTTLVGENTKKIVKKVWEDL----MGDKVTKIGVWGMGGFGKTAIMRHINNRPQEE---TNEF--SDVIWVTVSQPL-DL  175 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l----~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F--~~~~wv~~~~~~-~~  175 (359)
                      +..++||+.  +++.+..++    ..+..+.+.|+|++|+|||+||+.+++.+...   ...+  ...+|+++.... +.
T Consensus        19 p~~l~gr~~--~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   96 (384)
T 2qby_B           19 FKEIPFRED--ILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTP   96 (384)
T ss_dssp             CSSCTTCHH--HHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCH
T ss_pred             CCCCCChHH--HHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCH
Confidence            378999976  666666555    34556799999999999999999999873111   1112  246788877666 88


Q ss_pred             HHHHHHHHHHhcC-CCC-CCccHHHHHHHHHHHHhcCCcEEEEEecC-----C--------------CC-eEEEeeccc-
Q 038454          176 VKLQAEIAMALKL-SLT-EDEDKVSRARRLLGKLKAKKKFVLILDDI-----D--------------NH-TFCWGLRSM-  232 (359)
Q Consensus       176 ~~~~~~i~~~l~~-~~~-~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----~--------------~g-~ilvTtr~~-  232 (359)
                      ..++..++..+.. ... ...+.......+.+.+.. ++.+|||||+     .              .+ .+|+||+.. 
T Consensus        97 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~  175 (384)
T 2qby_B           97 QAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRN-IRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDIN  175 (384)
T ss_dssp             HHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSS-SCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTT
T ss_pred             HHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhcc-CCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCc
Confidence            8899999988832 211 123345566777777776 5559999999     1              45 788888721 


Q ss_pred             -----------c-eeeeecCCCChHHHHHHHHHhhcC--CCCCCCCchHHHHHHHHHHcC---CchhH-HHHHHHh--hc
Q 038454          233 -----------G-CEEVRVPPLSKEEALNLFLDKVGR--NILHVPTLNEEIINSVVEECA---GLQLA-IFTVVGC--MR  292 (359)
Q Consensus       233 -----------~-~~~~~l~~L~~~ea~~lf~~~~~~--~~~~~~~~~~~~~~~i~~~c~---g~Pla-i~~~~~~--L~  292 (359)
                                 . +..+.+++++.++..++|...+..  .....+   .+..+.+++.|+   |.|.. +..+-..  +.
T Consensus       176 ~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a  252 (384)
T 2qby_B          176 VRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYD---DEILSYIAAISAKEHGDARKAVNLLFRAAQLA  252 (384)
T ss_dssp             TTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCC---SHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHT
T ss_pred             hHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcC---HHHHHHHHHHHHhccCCHHHHHHHHHHHHHHh
Confidence                       0 237899999999999999987531  111122   345677888887   88873 3333322  22


Q ss_pred             ---CCCChhHHHHHHHHHhhcccccCCChhhHhhHHHHhhhcCCCcchhHHHhhcc
Q 038454          293 ---GVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCA  345 (359)
Q Consensus       293 ---~~~~~~~w~~~l~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s  345 (359)
                         ..-+.+.+..+++....             ..+.-++..| ++..+..+..++
T Consensus       253 ~~~~~i~~~~v~~~~~~~~~-------------~~~~~~~~~l-~~~~~~~l~al~  294 (384)
T 2qby_B          253 SGGGIIRKEHVDKAIVDYEQ-------------ERLIEAVKAL-PFHYKLALRSLI  294 (384)
T ss_dssp             TSSSCCCHHHHHHHHHHHHH-------------HHHHHHHHSS-CHHHHHHHHHHH
T ss_pred             cCCCccCHHHHHHHHHHHhc-------------chHHHHHHcC-CHHHHHHHHHHH
Confidence               22567777777766531             2244455666 555444444343

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.38  E-value=6.1e-11  Score=111.08  Aligned_cols=221  Identities=17%  Similarity=0.195  Sum_probs=143.3

Q ss_pred             cccccccchHHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHcCccccc---CCCccEEEEEeCCCcCHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEET---NEFSDVIWVTVSQPLDLVKL  178 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~wv~~~~~~~~~~~  178 (359)
                      +..++||+.  +++.+..++.    .+..+.+.|+|++|+||||||+.+++.+....   +.-...+|++.....+...+
T Consensus        18 p~~~~gr~~--~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   95 (387)
T 2v1u_A           18 PDVLPHREA--ELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRV   95 (387)
T ss_dssp             CSCCTTCHH--HHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHH
T ss_pred             CCCCCCHHH--HHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHH
Confidence            378999976  8888888873    34567899999999999999999998731110   10123678888888889999


Q ss_pred             HHHHHHHhcCCCCC-CccHHHHHHHHHHHHhc-CCcEEEEEecC--------------------C----CC--eEEEeec
Q 038454          179 QAEIAMALKLSLTE-DEDKVSRARRLLGKLKA-KKKFVLILDDI--------------------D----NH--TFCWGLR  230 (359)
Q Consensus       179 ~~~i~~~l~~~~~~-~~~~~~~~~~l~~~l~~-~k~~LlVlDdv--------------------~----~g--~ilvTtr  230 (359)
                      +..++.+++...+. ..+.......+.+.+.. +++.+||||++                    .    ++  .+|.||+
T Consensus        96 ~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~  175 (387)
T 2v1u_A           96 ASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITN  175 (387)
T ss_dssp             HHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECS
T ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEEC
Confidence            99999999764332 23455666777777743 36899999999                    1    33  6677776


Q ss_pred             c--------------cceeeeecCCCChHHHHHHHHHhhcC--CCCCCCCchHHHHHHHHHHcC---CchhHHH-HHHHh
Q 038454          231 S--------------MGCEEVRVPPLSKEEALNLFLDKVGR--NILHVPTLNEEIINSVVEECA---GLQLAIF-TVVGC  290 (359)
Q Consensus       231 ~--------------~~~~~~~l~~L~~~ea~~lf~~~~~~--~~~~~~~~~~~~~~~i~~~c~---g~Plai~-~~~~~  290 (359)
                      .              .....+.+++++.++..+++...+..  .....+   .+..+.+++.++   |.|..+. .+...
T Consensus       176 ~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~~~~l~~a  252 (387)
T 2v1u_A          176 SLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLD---PDVVPLCAALAAREHGDARRALDLLRVA  252 (387)
T ss_dssp             CSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBC---SSHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             CCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            1              11246899999999999999887531  111122   235567777777   9994333 32222


Q ss_pred             hc-------CCCChhHHHHHHHHHhhcccccCCChhhHhhHHHHhhhcCCCcchhHHHhhcc
Q 038454          291 MR-------GVDEIHEWRNALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCFLYCA  345 (359)
Q Consensus       291 L~-------~~~~~~~w~~~l~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~s  345 (359)
                      ..       ..-+.+.+..+++....             ..+.-++..| ++..+..+..++
T Consensus       253 ~~~a~~~~~~~i~~~~v~~a~~~~~~-------------~~~~~~~~~l-~~~~~~~l~a~~  300 (387)
T 2v1u_A          253 GEIAERRREERVRREHVYSARAEIER-------------DRVSEVVRTL-PLHAKLVLLSIM  300 (387)
T ss_dssp             HHHHHHTTCSCBCHHHHHHHHHHHHH-------------HHHHHHHHSS-CHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCcCHHHHHHHHHHHhh-------------chHHHHHHcC-CHHHHHHHHHHH
Confidence            11       12456667766665431             1234456667 555554444333

>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=99.37  E-value=2.4e-11  Score=114.13  Aligned_cols=177  Identities=15%  Similarity=0.214  Sum_probs=124.0

Q ss_pred             cccccccchHHHHHHHHHHhcC----CCcc--EEEEEcCCCCcHHHHHHHHHcCcccccCCC-ccEEEEEeCCCcCHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG----DKVT--KIGVWGMGGFGKTAIMRHINNRPQEETNEF-SDVIWVTVSQPLDLVKL  178 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~----~~~~--vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~~~~~~~~~~~  178 (359)
                      ++.++||+.  +++.+..++..    +...  .+.|+|++|+||||||+.+++.+   .... ..++|++.+...+...+
T Consensus        16 p~~l~gr~~--~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~i~~~~~~~~~~~   90 (389)
T 1fnn_A           16 PKRLPHREQ--QLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAI   90 (389)
T ss_dssp             CSCCTTCHH--HHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHH
T ss_pred             CCCCCChHH--HHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH---hhhcCeeEEEEeCccCCCHHHH
Confidence            367999976  77777777753    3334  89999999999999999999872   2221 24678887777788899


Q ss_pred             HHHHHHHhcCCCCC-CccHHHHHHHHHHHHhc-CCcEEEEEecC-------------------C---CC-eEEEeeccc-
Q 038454          179 QAEIAMALKLSLTE-DEDKVSRARRLLGKLKA-KKKFVLILDDI-------------------D---NH-TFCWGLRSM-  232 (359)
Q Consensus       179 ~~~i~~~l~~~~~~-~~~~~~~~~~l~~~l~~-~k~~LlVlDdv-------------------~---~g-~ilvTtr~~-  232 (359)
                      +..++..++...+. ..+.......+.+.+.. +++.+||||++                   .   .+ .+|++|+.. 
T Consensus        91 ~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~  170 (389)
T 1fnn_A           91 IGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDA  170 (389)
T ss_dssp             HHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTH
T ss_pred             HHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCch
Confidence            99999988764332 23455666666666643 36899999999                   1   46 778777611 


Q ss_pred             -------------ceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHc---------CCchhHHHHHH
Q 038454          233 -------------GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEEC---------AGLQLAIFTVV  288 (359)
Q Consensus       233 -------------~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c---------~g~Plai~~~~  288 (359)
                                   ....+.+++++.++..+++...+..... ...-..+....+++.+         +|.|..+..+.
T Consensus       171 ~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l  247 (389)
T 1fnn_A          171 VLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLA-EGSYSEDILQMIADITGAQTPLDTNRGDARLAIDIL  247 (389)
T ss_dssp             HHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBC-TTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHH
T ss_pred             HHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcC-CCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHH
Confidence                         1235899999999999999887532110 1122356778899999         78876554443

>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=99.33  E-value=3.8e-11  Score=104.61  Aligned_cols=172  Identities=15%  Similarity=0.210  Sum_probs=103.6

Q ss_pred             cccccccchHHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      ...++|++.  .++.+..++..+. .+.+.|+|++|+||||||+.+++.+ .....+..   ....   .... ...+..
T Consensus        22 ~~~~~g~~~--~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~-~~~~~~~~---~~~~---~~~~-~~~~~~   91 (250)
T 1njg_A           22 FADVVGQEH--VLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL-NCETGITA---TPCG---VCDN-CREIEQ   91 (250)
T ss_dssp             GGGCCSCHH--HHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHH-HCTTCSCS---SCCS---CSHH-HHHHHT
T ss_pred             HHHHhCcHH--HHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh-cCCCCCCC---CCCc---ccHH-HHHHhc
Confidence            457999976  8888888887653 4589999999999999999998873 11111100   0000   0000 000000


Q ss_pred             Hh-----cCCCCCCccHHHHHHHHHHHHh----cCCcEEEEEecC------------------CCC-eEEEeecc-----
Q 038454          185 AL-----KLSLTEDEDKVSRARRLLGKLK----AKKKFVLILDDI------------------DNH-TFCWGLRS-----  231 (359)
Q Consensus       185 ~l-----~~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv------------------~~g-~ilvTtr~-----  231 (359)
                      ..     ..... ..........+.+.+.    .+++.+||+||+                  ..+ .+|+||+.     
T Consensus        92 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~  170 (250)
T 1njg_A           92 GRFVDLIEIDAA-SRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  170 (250)
T ss_dssp             TCCSSEEEEETT-CGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC
T ss_pred             cCCcceEEecCc-ccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCC
Confidence            00     00000 0011111222222221    126799999999                  245 78888861     


Q ss_pred             ----cceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhh
Q 038454          232 ----MGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCM  291 (359)
Q Consensus       232 ----~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L  291 (359)
                          ..+..+.+++++.++..+++...+...+.   .-..+....|++.|+|.|..+..+...+
T Consensus       171 ~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          171 VTILSRCLQFHLKALDVEQIRHQLEHILNEEHI---AHEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTC---CBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence                12357899999999999999887643322   1224667889999999999988776544

>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=99.32  E-value=8.8e-11  Score=100.96  Aligned_cols=162  Identities=14%  Similarity=0.197  Sum_probs=106.1

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      ...++|++.  .++.+..++.....+.+.|+|++|+|||+||+.+++.+  ....+. ..+.++.+...+...+...+..
T Consensus        16 ~~~~~g~~~--~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (226)
T 2chg_A           16 LDEVVGQDE--VIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL--FGENWRDNFIEMNASDERGIDVVRHKIKE   91 (226)
T ss_dssp             GGGCCSCHH--HHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHH--HGGGGGGGEEEEETTCTTCHHHHHHHHHH
T ss_pred             HHHHcCcHH--HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH--hccccccceEEeccccccChHHHHHHHHH
Confidence            457899966  88899999988766669999999999999999999873  112222 2344444443333332222211


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeecc---------cceee
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLRS---------MGCEE  236 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr~---------~~~~~  236 (359)
                      ......                ....++.+||+||+                  ..+ .+++||+.         ..+..
T Consensus        92 ~~~~~~----------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~  155 (226)
T 2chg_A           92 FARTAP----------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAV  155 (226)
T ss_dssp             HHTSCC----------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HhcccC----------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCce
Confidence            111100                11137899999999                  345 78888871         12347


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC  290 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~  290 (359)
                      +.+.+++.++..+++...+...+..   -..+....+++.++|.|..+..+...
T Consensus       156 i~~~~~~~~~~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~g~~r~l~~~l~~  206 (226)
T 2chg_A          156 FRFKPVPKEAMKKRLLEICEKEGVK---ITEDGLEALIYISGGDFRKAINALQG  206 (226)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTCC---BCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             eecCCCCHHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            8999999999999998876432221   22466788999999999966554433

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.18  E-value=3.3e-11  Score=92.92  Aligned_cols=59  Identities=12%  Similarity=0.255  Sum_probs=51.6

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHH-HhhhcCCCCchhHHHHHHHHHHHHHHHHHHHHHHhhC
Q 038454            2 KNLERVLQEFNSQKEDIEATLK-AEGDRGKKPRTEVKNWLQNVQRINSKAQSIEQEVKKR   60 (359)
Q Consensus         2 ~~l~~~~~~L~~~l~~i~~~l~-a~~~~~~~~~~~~~~W~~~l~~~~~~~ed~~d~~~~~   60 (359)
                      .+|++++++|+++|+.|+++|. ++.++....+++++.|+++||+++||+||++|+|..+
T Consensus        22 ~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~   81 (115)
T 3qfl_A           22 KGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQ   81 (115)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6899999999999999999999 8754223457899999999999999999999999753

>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=99.13  E-value=7.9e-10  Score=100.94  Aligned_cols=161  Identities=16%  Similarity=0.256  Sum_probs=104.4

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      ...++|++.  .++.+..++..+..+.+.++|++|+|||++|+.+++.+  ....+. ..++++.+...+...+ +.++.
T Consensus        20 ~~~~~g~~~--~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l--~~~~~~~~~~~~~~~~~~~~~~i-~~~~~   94 (323)
T 1sxj_B           20 LSDIVGNKE--TIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL--LGRSYADGVLELNASDDRGIDVV-RNQIK   94 (323)
T ss_dssp             GGGCCSCTH--HHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH--HGGGHHHHEEEECTTSCCSHHHH-HTHHH
T ss_pred             HHHHHCCHH--HHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh--cCCcccCCEEEecCccccChHHH-HHHHH
Confidence            467999977  88899999988776669999999999999999999873  111122 2444444433232222 22222


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------ccceee
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGCEE  236 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~~  236 (359)
                      .+.....              .+..+++.++|+||+                  ..+ .+|++|+         ...+..
T Consensus        95 ~~~~~~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~  160 (323)
T 1sxj_B           95 HFAQKKL--------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAI  160 (323)
T ss_dssp             HHHHBCC--------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHhccc--------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceE
Confidence            2210000              010226899999998                  345 7777776         123457


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH-HHHHH
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA-IFTVV  288 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla-i~~~~  288 (359)
                      +.+.+++.++..+++...+...+.   .-..+.+..|++.|+|.|.. +..+.
T Consensus       161 i~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~G~~r~a~~~l~  210 (323)
T 1sxj_B          161 LRYSKLSDEDVLKRLLQIIKLEDV---KYTNDGLEAIIFTAEGDMRQAINNLQ  210 (323)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTC---CBCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             EeecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            999999999999999887632221   12246678899999999954 44443

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.99  E-value=4.2e-09  Score=96.26  Aligned_cols=162  Identities=15%  Similarity=0.195  Sum_probs=102.9

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|++.  .++.+..++..+..+.+.++|++|+||||+|+.+++.+.  ...+. ..+.++.+....... ....+.
T Consensus        24 ~~~~~g~~~--~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~-~~~~~~   98 (327)
T 1iqp_A           24 LDDIVGQEH--IVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINV-IREKVK   98 (327)
T ss_dssp             TTTCCSCHH--HHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHT-THHHHH
T ss_pred             HHHhhCCHH--HHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhc--CCcccCceEEeeccccCchHH-HHHHHH
Confidence            456999966  888888888877766799999999999999999998731  11111 233343332111111 111111


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------ccceee
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGCEE  236 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~~  236 (359)
                      .+....               .+...++.++|+|++                  ..+ .+|+||.         ...+..
T Consensus        99 ~~~~~~---------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~  163 (327)
T 1iqp_A           99 EFARTK---------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAI  163 (327)
T ss_dssp             HHHHSC---------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             HHHhhC---------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcE
Confidence            100000               011126889999998                  345 7787776         123457


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC  290 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~  290 (359)
                      +.+.+++.++..+++...+...+.   .-..+....|++.++|.|..+..+...
T Consensus       164 ~~~~~l~~~~~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~g~~r~~~~~l~~  214 (327)
T 1iqp_A          164 FRFRPLRDEDIAKRLRYIAENEGL---ELTEEGLQAILYIAEGDMRRAINILQA  214 (327)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTC---EECHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             EEecCCCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            899999999999999887644322   122467788999999999876554433

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.92  E-value=2.7e-08  Score=90.29  Aligned_cols=146  Identities=10%  Similarity=0.135  Sum_probs=96.8

Q ss_pred             ccccccchHHHHHHHHHHh----cCCCccEEEEEcCCCCcHHHHHHHHHcCcccccC-----CCccEEEEEeCCCcCHHH
Q 038454          107 TTLVGENTKKIVKKVWEDL----MGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETN-----EFSDVIWVTVSQPLDLVK  177 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l----~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-----~F~~~~wv~~~~~~~~~~  177 (359)
                      ..+.||+.  ++.+|...+    ..+..+.+.|+|++|+|||++++.+++.+.....     .| ..++++...-.+...
T Consensus        20 ~~L~~Re~--E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~   96 (318)
T 3te6_A           20 ELLKSQVE--DFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDA   96 (318)
T ss_dssp             HHHHHHHH--HHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HH
T ss_pred             cccCCHHH--HHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHH
Confidence            34888876  666666555    4577889999999999999999999998422111     12 256777777778889


Q ss_pred             HHHHHHHHhcCCCCCCccHHHHHHHHHHHH--hcCCcEEEEEecC------------------CCC--eEEEeec-----
Q 038454          178 LQAEIAMALKLSLTEDEDKVSRARRLLGKL--KAKKKFVLILDDI------------------DNH--TFCWGLR-----  230 (359)
Q Consensus       178 ~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l--~~~k~~LlVlDdv------------------~~g--~ilvTtr-----  230 (359)
                      ++..|++++.............+..+...+  ...++++++||++                  ..+  .+|.++.     
T Consensus        97 ~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~  176 (318)
T 3te6_A           97 LYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTI  176 (318)
T ss_dssp             HHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCC
T ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccc
Confidence            999999999653221122223334444433  1237899999999                  223  3333343     


Q ss_pred             ----------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          231 ----------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       231 ----------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                                +++...+.++|++.++-.+++...+
T Consensus       177 ~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          177 REQINIMPSLKAHFTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             HHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHH
Confidence                      2233568999999999999988876

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.85  E-value=4.9e-08  Score=88.73  Aligned_cols=158  Identities=13%  Similarity=0.209  Sum_probs=101.6

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|++.  .+..+..++..+..+.+.++|++|+|||++|+.+++.+  ....+. ..+.++.+.......       
T Consensus        16 ~~~~~g~~~--~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l--~~~~~~~~~~~~~~~~~~~~~~-------   84 (319)
T 2chq_A           16 LDEVVGQDE--VIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL--FGENWRDNFIEMNASDERGIDV-------   84 (319)
T ss_dssp             GGGSCSCHH--HHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHH--HTTCHHHHCEEEETTSTTCTTT-------
T ss_pred             HHHHhCCHH--HHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHh--cCCcccCCeEEEeCccccChHH-------
Confidence            467999966  88889888888776669999999999999999999873  122221 233344333211110       


Q ss_pred             HhcCCCCCCccHHHHHHHHHHH--HhcCCcEEEEEecC------------------CCC-eEEEeec---------ccce
Q 038454          185 ALKLSLTEDEDKVSRARRLLGK--LKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGC  234 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~--l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~  234 (359)
                                 .......+...  +...++.++|+|++                  ..+ .+|++|.         ...+
T Consensus        85 -----------~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~  153 (319)
T 2chq_A           85 -----------VRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRC  153 (319)
T ss_dssp             -----------SSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTC
T ss_pred             -----------HHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhC
Confidence                       00111111100  11126889999998                  234 6777776         1234


Q ss_pred             eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          235 EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       235 ~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      ..+.+.+++.++..+++...+...+.   .-..+....+++.++|.|..+....
T Consensus       154 ~~i~~~~~~~~~~~~~l~~~~~~~~~---~i~~~~l~~l~~~~~G~~r~~~~~l  204 (319)
T 2chq_A          154 AVFRFKPVPKEAMKKRLLEICEKEGV---KITEDGLEALIYISGGDFRKAINAL  204 (319)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTCC---CBCHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            57999999999999999887644322   1234667888999999998655443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.84  E-value=2e-08  Score=83.88  Aligned_cols=47  Identities=21%  Similarity=0.324  Sum_probs=41.3

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...++|++.  +++.+..++.....+.+.|+|++|+|||+||+.+++.+
T Consensus        21 ~~~~~g~~~--~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           21 LDPVIGRDE--EIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             SCCCCSCHH--HHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccccccchH--HHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            457899976  89999999988777889999999999999999999873

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.82  E-value=2.6e-07  Score=84.24  Aligned_cols=174  Identities=12%  Similarity=0.055  Sum_probs=102.6

Q ss_pred             cccccccchHHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM-----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      ...++|++.  .+..+..++.     ......+.|+|++|+|||+||+.+++..   ..   ...+++.+......++..
T Consensus        11 ~~~~ig~~~--~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~---~~---~~~~~~~~~~~~~~~l~~   82 (324)
T 1hqc_A           11 LDEYIGQER--LKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GV---NLRVTSGPAIEKPGDLAA   82 (324)
T ss_dssp             TTTCCSCHH--HHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH---TC---CEEEECTTTCCSHHHHHH
T ss_pred             HHHhhCHHH--HHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh---CC---CEEEEeccccCChHHHHH
Confidence            467999976  6666665553     2344678999999999999999999872   22   234555444434333333


Q ss_pred             HHHHHhcCCC----CC-CccHHHHHHHHHHHHhcCCcEEEEEecC---------CCC-eEEEeecc---------cce-e
Q 038454          181 EIAMALKLSL----TE-DEDKVSRARRLLGKLKAKKKFVLILDDI---------DNH-TFCWGLRS---------MGC-E  235 (359)
Q Consensus       181 ~i~~~l~~~~----~~-~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------~~g-~ilvTtr~---------~~~-~  235 (359)
                      .+...+....    ++ ..-.......+.+.+.. ..+-+|.++-         .++ .++.+|..         ... .
T Consensus        83 ~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~-~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~  161 (324)
T 1hqc_A           83 ILANSLEEGDILFIDEIHRLSRQAEEHLYPAMED-FVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGI  161 (324)
T ss_dssp             HHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHH-SEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSC
T ss_pred             HHHHhccCCCEEEEECCcccccchHHHHHHHHHh-hhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccE
Confidence            2211111100    00 00112233444555554 4444444332         123 56666651         112 3


Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhh
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCM  291 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L  291 (359)
                      .+.+.+++.++..+++...+...+..   -..+....+++.|+|.|..+..+...+
T Consensus       162 ~i~l~~~~~~e~~~~l~~~~~~~~~~---~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          162 VEHLEYYTPEELAQGVMRDARLLGVR---ITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             EEecCCCCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            68999999999999988876443221   224677889999999999887766544

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.79  E-value=1.1e-07  Score=88.53  Aligned_cols=166  Identities=16%  Similarity=0.208  Sum_probs=98.0

Q ss_pred             cccccccchHHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      ...++|++.  .++.+..++..+. ...+.|+|++|+||||+|+.+++.+ .....+..   ..+...    .....+..
T Consensus        15 ~~~~vg~~~--~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l-~~~~~~~~---~~~~~~----~~~~~~~~   84 (373)
T 1jr3_A           15 FADVVGQEH--VLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL-NCETGITA---TPCGVC----DNCREIEQ   84 (373)
T ss_dssp             TTTSCSCHH--HHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHH-SCTTCSCS---SCCSSS----HHHHHHHT
T ss_pred             hhhccCcHH--HHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHh-CCCCCCCC---CCCccc----HHHHHHhc
Confidence            356999966  8888888886654 4578999999999999999998873 11111100   000000    00011110


Q ss_pred             Hh-------cCCC-CCCccHHHHHHHHHHHHh----cCCcEEEEEecC------------------CCC-eEEEeec---
Q 038454          185 AL-------KLSL-TEDEDKVSRARRLLGKLK----AKKKFVLILDDI------------------DNH-TFCWGLR---  230 (359)
Q Consensus       185 ~l-------~~~~-~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv------------------~~g-~ilvTtr---  230 (359)
                      ..       .... ......    ..+.+.+.    .+++.++|+||+                  ..+ .+|++|.   
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~  160 (373)
T 1jr3_A           85 GRFVDLIEIDAASRTKVEDT----RDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  160 (373)
T ss_dssp             SCCSSCEEEETTCSCCSSCH----HHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGG
T ss_pred             cCCCceEEecccccCCHHHH----HHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChH
Confidence            00       0000 001111    22222222    126789999999                  234 6666665   


Q ss_pred             ------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          231 ------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       231 ------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                            ...+..+.+.+++.++..+++...+...+.   .-..+....|++.++|.|..+..+.
T Consensus       161 ~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~---~~~~~a~~~l~~~~~G~~r~~~~~l  221 (373)
T 1jr3_A          161 KLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI---AHEPRALQLLARAAEGSLRDALSLT  221 (373)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC---CBCHHHHHHHHHHSSSCHHHHHHHH
T ss_pred             hCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHCCCCHHHHHHHH
Confidence                  123467899999999999999876532221   1124567889999999999887654

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.74  E-value=2.3e-07  Score=85.67  Aligned_cols=169  Identities=13%  Similarity=0.208  Sum_probs=102.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|++.  .++.+..++..+..+.+.++|++|+||||+|+.+++.+. ....+. .+..++.+.......+ .+.+.
T Consensus        36 ~~~i~g~~~--~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~-~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  111 (353)
T 1sxj_D           36 LDEVTAQDH--AVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELY-GPDLMKSRILELNASDERGISIV-REKVK  111 (353)
T ss_dssp             TTTCCSCCT--THHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHH-HHHHHTTSEEEECSSSCCCHHHH-TTHHH
T ss_pred             HHHhhCCHH--HHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhC-CCcccccceEEEccccccchHHH-HHHHH
Confidence            357899987  888999999887656699999999999999999998731 110111 2334444433333322 22222


Q ss_pred             HhcC-CCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------cccee
Q 038454          185 ALKL-SLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGCE  235 (359)
Q Consensus       185 ~l~~-~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~  235 (359)
                      .+.. ........      ........+.-+|++|++                  ... +++++|.         ...+.
T Consensus       112 ~~~~~~~~~~~~~------~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~  185 (353)
T 1sxj_D          112 NFARLTVSKPSKH------DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  185 (353)
T ss_dssp             HHHHSCCCCCCTT------HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             HHhhhcccccchh------hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCc
Confidence            2111 00000000      000111125678999998                  234 6777665         11235


Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                      .+.+.+++.++....+...+...+..   -..+..+.|++.++|.|..+..+
T Consensus       186 ~i~~~~~~~~~~~~~l~~~~~~~~~~---i~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          186 KFRFKALDASNAIDRLRFISEQENVK---CDDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCC---CCHHHHHHHHHHTSSCHHHHHHH
T ss_pred             eEEeCCCCHHHHHHHHHHHHHHhCCC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            68999999999999988876433221   22567788999999999875544

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.69  E-value=7.3e-08  Score=83.74  Aligned_cols=151  Identities=16%  Similarity=0.233  Sum_probs=95.3

Q ss_pred             ccccccch-HHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH
Q 038454          107 TTLVGENT-KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      ..++|.+. +..+..+..+...+..+.+.|+|++|+||||||+.+++.+   ......+.|++.+...+.   ...+   
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~---~~~~~~~~~~~~~~~~~~---~~~~---   98 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARA---NELERRSFYIPLGIHASI---STAL---   98 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHH---HHTTCCEEEEEGGGGGGS---CGGG---
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH---HHcCCeEEEEEHHHHHHH---HHHH---
Confidence            46777332 4466777777766667889999999999999999999873   112234567765432110   0000   


Q ss_pred             hcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC--eEEEeec-cc----c----
Q 038454          186 LKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH--TFCWGLR-SM----G----  233 (359)
Q Consensus       186 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g--~ilvTtr-~~----~----  233 (359)
                                        .+.+ . ++.+||+||+                     ..+  .+++||+ ..    .    
T Consensus        99 ------------------~~~~-~-~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~  158 (242)
T 3bos_A           99 ------------------LEGL-E-QFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPD  158 (242)
T ss_dssp             ------------------GTTG-G-GSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHH
T ss_pred             ------------------HHhc-c-CCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhh
Confidence                              0011 1 4567777877                     224  4777776 11    0    


Q ss_pred             ----e---eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHH
Q 038454          234 ----C---EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVG  289 (359)
Q Consensus       234 ----~---~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~  289 (359)
                          .   ..+.+++++.++..+++...+...+.   .-..+....+++.++|.+-.+..+..
T Consensus       159 l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~l~~~~~g~~r~l~~~l~  218 (242)
T 3bos_A          159 LVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGL---QLPEDVGRFLLNRMARDLRTLFDVLD  218 (242)
T ss_dssp             HHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTC---CCCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             hhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHccCCHHHHHHHHH
Confidence                1   56899999999999999887642222   12356678899999998877655443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.62  E-value=5.1e-07  Score=86.16  Aligned_cols=155  Identities=15%  Similarity=0.233  Sum_probs=96.6

Q ss_pred             cccccccchHHHH---HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHH
Q 038454          106 TTTLVGENTKKIV---KKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAE  181 (359)
Q Consensus       106 ~~~~vGr~~~~~~---~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~  181 (359)
                      -..++|.+.  .+   ..|...+..+..+.+.++|++|+||||||+.+++.   ....     ++.++.. .....+ +.
T Consensus        25 l~~ivGq~~--~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~---~~~~-----f~~l~a~~~~~~~i-r~   93 (447)
T 3pvs_A           25 LAQYIGQQH--LLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARY---ANAD-----VERISAVTSGVKEI-RE   93 (447)
T ss_dssp             TTTCCSCHH--HHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHH---TTCE-----EEEEETTTCCHHHH-HH
T ss_pred             HHHhCCcHH--HHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHH---hCCC-----eEEEEeccCCHHHH-HH
Confidence            357899865  55   66777777777788999999999999999999987   2222     2222211 122221 11


Q ss_pred             HHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------CCC--eEEEee-c----------ccc
Q 038454          182 IAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------DNH--TFCWGL-R----------SMG  233 (359)
Q Consensus       182 i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------~~g--~ilvTt-r----------~~~  233 (359)
                                       ............++.+|+||++               ..|  .+|.+| .          ...
T Consensus        94 -----------------~~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~~v~lI~att~n~~~~l~~aL~sR  156 (447)
T 3pvs_A           94 -----------------AIERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDGTITFIGATTENPSFELNSALLSR  156 (447)
T ss_dssp             -----------------HHHHHHHHHHTTCCEEEEEETTTCC------CCHHHHHTTSCEEEEEESSCGGGSSCHHHHTT
T ss_pred             -----------------HHHHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcCceEEEecCCCCcccccCHHHhCc
Confidence                             1111111111237899999999               234  444444 3          123


Q ss_pred             eeeeecCCCChHHHHHHHHHhhcCCCC----CCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          234 CEEVRVPPLSKEEALNLFLDKVGRNIL----HVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       234 ~~~~~l~~L~~~ea~~lf~~~~~~~~~----~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      +..+.+.+++.++...++.+.+.....    ....-..+..+.|++.++|.+-.+..+.
T Consensus       157 ~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~L  215 (447)
T 3pvs_A          157 ARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTL  215 (447)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHH
T ss_pred             eeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHH
Confidence            457899999999999998887643110    0111235667888888999887655443

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.60  E-value=1.3e-06  Score=78.10  Aligned_cols=175  Identities=13%  Similarity=0.163  Sum_probs=101.0

Q ss_pred             cccccccchHHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG-------------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      -..++|.+.  .++.|...+..             ...+.+.|+|++|+|||+||+.+++.+   ...   .+.++.+.-
T Consensus        16 ~~~i~G~~~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~---~~~---~~~v~~~~~   87 (285)
T 3h4m_A           16 YEDIGGLEK--QMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET---NAT---FIRVVGSEL   87 (285)
T ss_dssp             GGGSCSCHH--HHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT---TCE---EEEEEGGGG
T ss_pred             HHHhcCHHH--HHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCC---EEEEehHHH
Confidence            467899976  66666655522             345679999999999999999999872   221   223332211


Q ss_pred             cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC--------------------------------
Q 038454          173 LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI--------------------------------  220 (359)
Q Consensus       173 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--------------------------------  220 (359)
                                    ....  ..........+........+.+|+||++                                
T Consensus        88 --------------~~~~--~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~  151 (285)
T 3h4m_A           88 --------------VKKF--IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGF  151 (285)
T ss_dssp             --------------CCCS--TTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTT
T ss_pred             --------------HHhc--cchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCC
Confidence                          0000  1112222333333333336788999998                                


Q ss_pred             --CCC-eEEEeec----------cc-ce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCC-chhHH
Q 038454          221 --DNH-TFCWGLR----------SM-GC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAG-LQLAI  284 (359)
Q Consensus       221 --~~g-~ilvTtr----------~~-~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plai  284 (359)
                        ..+ .||.||.          .. .. ..+.+++.+.++..++|...+..........    ...++..+.| .|-.+
T Consensus       152 ~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~----~~~l~~~~~g~~~~~i  227 (285)
T 3h4m_A          152 DARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVN----LEEIAKMTEGCVGAEL  227 (285)
T ss_dssp             CSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHHCTTCCHHHH
T ss_pred             CCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCC----HHHHHHHcCCCCHHHH
Confidence              124 5677776          11 22 3589999999999999988765433212222    3557777776 45444


Q ss_pred             HHHHHh------hcC--CCChhHHHHHHHHHh
Q 038454          285 FTVVGC------MRG--VDEIHEWRNALNELR  308 (359)
Q Consensus       285 ~~~~~~------L~~--~~~~~~w~~~l~~~~  308 (359)
                      ..+...      .+.  .-+.+.+..+++...
T Consensus       228 ~~l~~~a~~~a~~~~~~~I~~~d~~~al~~~~  259 (285)
T 3h4m_A          228 KAICTEAGMNAIRELRDYVTMDDFRKAVEKIM  259 (285)
T ss_dssp             HHHHHHHHHHHHHTTCSSBCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCcCCHHHHHHHHHHHH
Confidence            443222      121  145566666666654

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.58  E-value=2.1e-06  Score=81.86  Aligned_cols=179  Identities=17%  Similarity=0.205  Sum_probs=108.6

Q ss_pred             cccc-ccchHHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc--cEEEEEeCCCcCHHHHHHHH
Q 038454          107 TTLV-GENTKKIVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS--DVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       107 ~~~v-Gr~~~~~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~--~~~wv~~~~~~~~~~~~~~i  182 (359)
                      ..|+ |.........+.......+ ...+.|+|++|+||||||+.+++.+   ...+.  .+++++..      .+...+
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l---~~~~~~~~v~~v~~~------~~~~~~  175 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYV---VQNEPDLRVMYITSE------KFLNDL  175 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHH---HHHCCSSCEEEEEHH------HHHHHH
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH---HHhCCCCeEEEeeHH------HHHHHH
Confidence            3455 7655444555555555443 6789999999999999999999873   22221  24555432      334444


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeecc-------cc
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLRS-------MG  233 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr~-------~~  233 (359)
                      ...+...     .    ...+.+.+.. +..+|+|||+                     ..| .|++||..       ..
T Consensus       176 ~~~~~~~-----~----~~~~~~~~~~-~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~  245 (440)
T 2z4s_A          176 VDSMKEG-----K----LNEFREKYRK-KVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQ  245 (440)
T ss_dssp             HHHHHTT-----C----HHHHHHHHTT-TCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCC
T ss_pred             HHHHHcc-----c----HHHHHHHhcC-CCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHH
Confidence            4444321     1    1223334443 5678999998                     456 78888871       10


Q ss_pred             ------e---eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHh------hcCC-CCh
Q 038454          234 ------C---EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGC------MRGV-DEI  297 (359)
Q Consensus       234 ------~---~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~------L~~~-~~~  297 (359)
                            .   ..+.+++++.++-.+++...+...+...++   +....|++.+.|.+-.+..+...      +.+. -+.
T Consensus       246 ~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~---e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~  322 (440)
T 2z4s_A          246 DRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPE---EVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDL  322 (440)
T ss_dssp             HHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             HHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCH---HHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCH
Confidence                  1   357899999999999998876432222222   44677889999988655433222      1222 456


Q ss_pred             hHHHHHHHHH
Q 038454          298 HEWRNALNEL  307 (359)
Q Consensus       298 ~~w~~~l~~~  307 (359)
                      +.+..++...
T Consensus       323 ~~~~~~l~~~  332 (440)
T 2z4s_A          323 KEAILLLKDF  332 (440)
T ss_dssp             HHHHHHTSTT
T ss_pred             HHHHHHHHHH
Confidence            6666666554

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.57  E-value=8.6e-07  Score=81.92  Aligned_cols=173  Identities=11%  Similarity=0.092  Sum_probs=97.6

Q ss_pred             cccccccchHHHHHHHHHHh-cCCCccEEEEEcCCCCcHHHHHHHHHcCcccc-cCC--Ccc------------------
Q 038454          106 TTTLVGENTKKIVKKVWEDL-MGDKVTKIGVWGMGGFGKTAIMRHINNRPQEE-TNE--FSD------------------  163 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l-~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~--F~~------------------  163 (359)
                      -..++|.+.  .+..+..++ ..+..+.+.|+|++|+||||+|+.+++.+... .+.  ++.                  
T Consensus        13 ~~~~vg~~~--~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~   90 (354)
T 1sxj_E           13 LNALSHNEE--LTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSS   90 (354)
T ss_dssp             GGGCCSCHH--HHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEEC
T ss_pred             HHHhcCCHH--HHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeecc
Confidence            467899865  888888888 66655559999999999999999998852111 000  000                  


Q ss_pred             --EEEEEeCCCc-CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CC
Q 038454          164 --VIWVTVSQPL-DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DN  222 (359)
Q Consensus       164 --~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~  222 (359)
                        .+.+..+... ......+.++..+.....-    .... .+ ..+.+ ++-++|||++                  ..
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~----~~~~-~l-s~l~~-~~~vlilDE~~~L~~~~~~~L~~~le~~~~  163 (354)
T 1sxj_E           91 PYHLEITPSDMGNNDRIVIQELLKEVAQMEQV----DFQD-SK-DGLAH-RYKCVIINEANSLTKDAQAALRRTMEKYSK  163 (354)
T ss_dssp             SSEEEECCC----CCHHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTT
T ss_pred             cceEEecHhhcCCcchHHHHHHHHHHHHhccc----cccc-cc-cccCC-CCeEEEEeCccccCHHHHHHHHHHHHhhcC
Confidence              1111111100 0000122222222211100    0000 00 00223 6779999998                  34


Q ss_pred             C-eEEEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHH
Q 038454          223 H-TFCWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVG  289 (359)
Q Consensus       223 g-~ilvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~  289 (359)
                      + .+|++|.         ...+..+.+.+++.++..+.+...+...+...+  ..+.+..|++.++|.+-.+..+..
T Consensus       164 ~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~~l~~i~~~~~G~~r~a~~~l~  238 (354)
T 1sxj_E          164 NIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE--TKDILKRIAQASNGNLRVSLLMLE  238 (354)
T ss_dssp             TEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC--CSHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             CCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCC--cHHHHHHHHHHcCCCHHHHHHHHH
Confidence            6 7777776         223467999999999999999887633222111  025678899999999876655543

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.56  E-value=1e-06  Score=85.92  Aligned_cols=166  Identities=13%  Similarity=0.144  Sum_probs=98.0

Q ss_pred             cccccccchHHHHHHHHHHhcC-----------------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG-----------------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT  168 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  168 (359)
                      -..++|++.  .++.+..|+..                 +..+.+.|+|++|+||||+|+.+++.+     .+. ++.++
T Consensus        38 ~~dliG~~~--~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l-----~~~-~i~in  109 (516)
T 1sxj_A           38 LQQVCGNKG--SVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GYD-ILEQN  109 (516)
T ss_dssp             GGGCCSCHH--HHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TCE-EEEEC
T ss_pred             HHHhcCCHH--HHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc-----CCC-EEEEe
Confidence            367999966  88888888865                 134789999999999999999999982     222 34455


Q ss_pred             eCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHH-HhcCCcEEEEEecC-------------------CCC-eEEE
Q 038454          169 VSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGK-LKAKKKFVLILDDI-------------------DNH-TFCW  227 (359)
Q Consensus       169 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~-l~~~k~~LlVlDdv-------------------~~g-~ilv  227 (359)
                      .+...... +....+........    ........... ....++.+|++|++                   ..+ .||+
T Consensus       110 ~s~~~~~~-~~~~~i~~~~~~~~----~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~~~~iIl  184 (516)
T 1sxj_A          110 ASDVRSKT-LLNAGVKNALDNMS----VVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLIL  184 (516)
T ss_dssp             TTSCCCHH-HHHHTGGGGTTBCC----STTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEE
T ss_pred             CCCcchHH-HHHHHHHHHhcccc----HHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhcCCCEEE
Confidence            54443332 22222221111000    00000000000 11137889999999                   123 4555


Q ss_pred             eec----------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch-hHHHHH
Q 038454          228 GLR----------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ-LAIFTV  287 (359)
Q Consensus       228 Ttr----------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P-lai~~~  287 (359)
                      ++.          ...+..+.+.+++.++..+.+...+...+...++   +....|++.++|.+ -++..+
T Consensus       185 i~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~---~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          185 ICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             EESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCHHHHHHHH
T ss_pred             EEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCH---HHHHHHHHHcCCcHHHHHHHH
Confidence            544          1123568999999999999988776433222222   34678899999954 455544

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.52  E-value=1.1e-06  Score=81.71  Aligned_cols=175  Identities=13%  Similarity=0.104  Sum_probs=97.4

Q ss_pred             cccccccch-HHHHHHHHHHhcCCCc--cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe----CCCcCHHHH
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMGDKV--TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV----SQPLDLVKL  178 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~~~~--~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~----~~~~~~~~~  178 (359)
                      ...++|++. .+.+..+...+..+..  +.+.|+|++|+|||+||+.+++.+   ..... .+.++.    +......+.
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l---~~~~~-~~~~~~~~~~~~~~~~~~~  118 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL---GPDTP-FTAIAGSEIFSLEMSKTEA  118 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH---CSSCC-EEEEEGGGGSCSSSCHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh---cccCC-cccccchhhhhcccchhHH
Confidence            457999976 2334456666666544  589999999999999999999883   22111 122221    122334444


Q ss_pred             HHHHHHHhcC-C---------------------------CCC-----CccHHHHHHHHHHHH-hcCC----cEEEEEecC
Q 038454          179 QAEIAMALKL-S---------------------------LTE-----DEDKVSRARRLLGKL-KAKK----KFVLILDDI  220 (359)
Q Consensus       179 ~~~i~~~l~~-~---------------------------~~~-----~~~~~~~~~~l~~~l-~~~k----~~LlVlDdv  220 (359)
                      +...+..... .                           ...     ............... ..++    +.+|+||++
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi  198 (368)
T 3uk6_A          119 LTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEV  198 (368)
T ss_dssp             HHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESG
T ss_pred             HHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhc
Confidence            4444333110 0                           000     011112222222211 1123    359999999


Q ss_pred             -----------------CCC-eEEEeec---------------------ccceeeeecCCCChHHHHHHHHHhhcCCCCC
Q 038454          221 -----------------DNH-TFCWGLR---------------------SMGCEEVRVPPLSKEEALNLFLDKVGRNILH  261 (359)
Q Consensus       221 -----------------~~g-~ilvTtr---------------------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~  261 (359)
                                       ... .++++|.                     ...+..+.+++++.++..+++...+...+. 
T Consensus       199 ~~l~~~~~~~L~~~le~~~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~~-  277 (368)
T 3uk6_A          199 HMLDIESFSFLNRALESDMAPVLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDV-  277 (368)
T ss_dssp             GGSBHHHHHHHHHHTTCTTCCEEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHTTC-
T ss_pred             cccChHHHHHHHHHhhCcCCCeeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHcCC-
Confidence                             222 3333331                     112345899999999999999987643222 


Q ss_pred             CCCchHHHHHHHHHHcC-CchhHHHHH
Q 038454          262 VPTLNEEIINSVVEECA-GLQLAIFTV  287 (359)
Q Consensus       262 ~~~~~~~~~~~i~~~c~-g~Plai~~~  287 (359)
                        .-..+....|++.+. |.|-.+..+
T Consensus       278 --~~~~~~l~~l~~~~~~G~~r~~~~l  302 (368)
T 3uk6_A          278 --EMSEDAYTVLTRIGLETSLRYAIQL  302 (368)
T ss_dssp             --CBCHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             --CCCHHHHHHHHHHhcCCCHHHHHHH
Confidence              223567788999997 777655443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.48  E-value=6.4e-06  Score=75.55  Aligned_cols=171  Identities=13%  Similarity=0.063  Sum_probs=94.2

Q ss_pred             CcccccccchHHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHH
Q 038454          105 PTTTLVGENTKKIVKKVWEDLM-----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQ  179 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~  179 (359)
                      .-..++|++.  .+..+..++.     ......|.|+|++|+|||+||+.+++.   ....   .+.++.........+ 
T Consensus        27 ~~~~iiG~~~--~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~---~~~~---~~~~~~~~~~~~~~~-   97 (338)
T 3pfi_A           27 NFDGYIGQES--IKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYE---MSAN---IKTTAAPMIEKSGDL-   97 (338)
T ss_dssp             SGGGCCSCHH--HHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHH---TTCC---EEEEEGGGCCSHHHH-
T ss_pred             CHHHhCChHH--HHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHH---hCCC---eEEecchhccchhHH-
Confidence            3467999976  6666666664     244567999999999999999999887   2222   233333322222222 


Q ss_pred             HHHHHHhcCCC----CC-CccHHHHHHHHHHHHhcCCcEEEEEecC---------CCC-eEEEeecc---------cce-
Q 038454          180 AEIAMALKLSL----TE-DEDKVSRARRLLGKLKAKKKFVLILDDI---------DNH-TFCWGLRS---------MGC-  234 (359)
Q Consensus       180 ~~i~~~l~~~~----~~-~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------~~g-~ilvTtr~---------~~~-  234 (359)
                      ..++.......    ++ ..-.......+.+.+.. ..+.++..+-         .++ .+|.+|..         ... 
T Consensus        98 ~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~  176 (338)
T 3pfi_A           98 AAILTNLSEGDILFIDEIHRLSPAIEEVLYPAMED-YRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFG  176 (338)
T ss_dssp             HHHHHTCCTTCEEEEETGGGCCHHHHHHHHHHHHT-SCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCS
T ss_pred             HHHHHhccCCCEEEEechhhcCHHHHHHHHHHHHh-ccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcC
Confidence            22222211100    00 00112334444555554 4444443331         123 45555551         122 


Q ss_pred             eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          235 EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       235 ~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      ..+.+++++.++...++...+...+.   .-..+....|++.+.|.|-.+..+.
T Consensus       177 ~~i~l~~~~~~e~~~il~~~~~~~~~---~~~~~~~~~l~~~~~G~~r~l~~~l  227 (338)
T 3pfi_A          177 MQFRLEFYKDSELALILQKAALKLNK---TCEEKAALEIAKRSRSTPRIALRLL  227 (338)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHTTC---EECHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             EEeeCCCcCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHHCcCHHHHHHHH
Confidence            46899999999999998877643221   1235667888889999996555443

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=98.42  E-value=7.4e-06  Score=74.71  Aligned_cols=153  Identities=18%  Similarity=0.241  Sum_probs=92.0

Q ss_pred             cccc-ccchHHHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          107 TTLV-GENTKKIVKKVWEDLMGD--KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       107 ~~~v-Gr~~~~~~~~l~~~l~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      ++|+ |.........+..+...+  ....+.|+|++|+||||||+.+++.+..  ..+ .+++++.      ..+...+.
T Consensus        11 ~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~--~~~-~~~~i~~------~~~~~~~~   81 (324)
T 1l8q_A           11 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKK--RGY-RVIYSSA------DDFAQAMV   81 (324)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHH--TTC-CEEEEEH------HHHHHHHH
T ss_pred             ccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHH--CCC-EEEEEEH------HHHHHHHH
Confidence            3455 655444455555555554  3567999999999999999999987311  122 2455543      23333443


Q ss_pred             HHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeec-c---------
Q 038454          184 MALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLR-S---------  231 (359)
Q Consensus       184 ~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr-~---------  231 (359)
                      ..+...     .    ...+...+.  +..+|+||++                     ..| .+++||. .         
T Consensus        82 ~~~~~~-----~----~~~~~~~~~--~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~  150 (324)
T 1l8q_A           82 EHLKKG-----T----INEFRNMYK--SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSD  150 (324)
T ss_dssp             HHHHHT-----C----HHHHHHHHH--TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCH
T ss_pred             HHHHcC-----c----HHHHHHHhc--CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhh
Confidence            333211     1    112222232  4678999998                     346 7777776 1         


Q ss_pred             -----cc-eeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHH
Q 038454          232 -----MG-CEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAI  284 (359)
Q Consensus       232 -----~~-~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai  284 (359)
                           .. ...+.+++ +.++..+++...+...+...   ..+....|++.+ |.+-.+
T Consensus       151 ~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l---~~~~l~~l~~~~-g~~r~l  204 (324)
T 1l8q_A          151 RLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNLEL---RKEVIDYLLENT-KNVREI  204 (324)
T ss_dssp             HHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCC---CHHHHHHHHHHC-SSHHHH
T ss_pred             HhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCCCC---CHHHHHHHHHhC-CCHHHH
Confidence                 01 13588999 99999999988764322212   245677888888 766543

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.42  E-value=1.7e-05  Score=73.52  Aligned_cols=158  Identities=14%  Similarity=0.176  Sum_probs=92.4

Q ss_pred             cccccccchHHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc
Q 038454          106 TTTLVGENTKKIVKKVWEDLM------------GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL  173 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~  173 (359)
                      -..++|.+.  .++.|.+.+.            ....+.|.|+|++|+|||+||+.+++..   ..   ..+.++.+.-.
T Consensus        83 ~~~i~G~~~--~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~---~~~~i~~~~l~  154 (357)
T 3d8b_A           83 WEDIAGVEF--AKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS---GA---TFFSISASSLT  154 (357)
T ss_dssp             GGGSCSCHH--HHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT---TC---EEEEEEGGGGC
T ss_pred             HHHhCChHH--HHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc---CC---eEEEEehHHhh
Confidence            356899876  5556555542            1345789999999999999999999872   11   13344443211


Q ss_pred             CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------------------
Q 038454          174 DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------------------  220 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------------------  220 (359)
                      .              ..  ..........+.......++.+|+||++                                 
T Consensus       155 ~--------------~~--~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~  218 (357)
T 3d8b_A          155 S--------------KW--VGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSS  218 (357)
T ss_dssp             C--------------SS--TTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----C
T ss_pred             c--------------cc--cchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccC
Confidence            1              00  0111222233333332236788888877                                 


Q ss_pred             CCC-eEEEeecc---------cce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCC-chhHHHHHH
Q 038454          221 DNH-TFCWGLRS---------MGC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAG-LQLAIFTVV  288 (359)
Q Consensus       221 ~~g-~ilvTtr~---------~~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plai~~~~  288 (359)
                      ..+ .||.||..         ... ..+.+...+.++..+++...+......   -.......|++.+.| .|-.|..+.
T Consensus       219 ~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~---l~~~~l~~la~~t~G~s~~dl~~l~  295 (357)
T 3d8b_A          219 EDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC---LSEEEIEQIVQQSDAFSGADMTQLC  295 (357)
T ss_dssp             CCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC---CCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC---ccHHHHHHHHHHcCCCCHHHHHHHH
Confidence            113 45556651         112 357888889999888888776332221   124567888999988 555666554


Q ss_pred             Hh
Q 038454          289 GC  290 (359)
Q Consensus       289 ~~  290 (359)
                      ..
T Consensus       296 ~~  297 (357)
T 3d8b_A          296 RE  297 (357)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.41  E-value=2e-05  Score=71.82  Aligned_cols=157  Identities=13%  Similarity=0.182  Sum_probs=89.5

Q ss_pred             ccccccchHHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcC
Q 038454          107 TTLVGENTKKIVKKVWEDLM------------GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLD  174 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~  174 (359)
                      ..++|.+.  .++.|.+.+.            ....+-|.++|++|+|||+||+.+++..  ...   ..+.++.+.-. 
T Consensus        12 ~di~G~~~--~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~--~~~---~~~~i~~~~l~-   83 (322)
T 1xwi_A           12 SDVAGLEG--AKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA--NNS---TFFSISSSDLV-   83 (322)
T ss_dssp             GGSCSCHH--HHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT--TSC---EEEEEECCSSC-
T ss_pred             HHhcCHHH--HHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc--CCC---cEEEEEhHHHH-
Confidence            56888866  4444443331            1234679999999999999999999872  011   12333333211 


Q ss_pred             HHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC--------------------------------CC
Q 038454          175 LVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI--------------------------------DN  222 (359)
Q Consensus       175 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--------------------------------~~  222 (359)
                                   .... ... ......+.......++.+|+||++                                ..
T Consensus        84 -------------~~~~-g~~-~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~  148 (322)
T 1xwi_A           84 -------------SKWL-GES-EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  148 (322)
T ss_dssp             -------------CSSC-CSC-HHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCT
T ss_pred             -------------hhhh-hHH-HHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCC
Confidence                         1100 111 223333333333337788999988                                12


Q ss_pred             C-eEEEeecc---------cce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCc-hhHHHHHHH
Q 038454          223 H-TFCWGLRS---------MGC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGL-QLAIFTVVG  289 (359)
Q Consensus       223 g-~ilvTtr~---------~~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~-Plai~~~~~  289 (359)
                      + .||.||..         ... ..+.++..+.++-.++|...+.......   .......|++.+.|. +-.|..+..
T Consensus       149 ~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l---~~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          149 GILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSL---TEADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             TEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCC---CHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC---CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            2 34445551         122 3578888889988899888764322111   245667889999887 444555443

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.41  E-value=2.9e-05  Score=68.22  Aligned_cols=158  Identities=15%  Similarity=0.161  Sum_probs=89.5

Q ss_pred             ccccccch-HHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHH
Q 038454          107 TTLVGENT-KKIVKKVWEDLMG---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLV  176 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  176 (359)
                      ..++|.+. .+.+.+++.++..         ...+.+.|+|++|+|||++|+.+++.   ....   .+.++.+.-.+  
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~---~~~~---~~~~~~~~~~~--   77 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATE---AQVP---FLAMAGAEFVE--   77 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHH---HTCC---EEEEETTTTSS--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHH---hCCC---EEEechHHHHh--
Confidence            56888876 3344445555433         23456899999999999999999987   2222   33444333111  


Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-----------------------------------C
Q 038454          177 KLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-----------------------------------D  221 (359)
Q Consensus       177 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------------------------------~  221 (359)
                                  . ... ........+........+.+|+||++                                   .
T Consensus        78 ------------~-~~~-~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~  143 (262)
T 2qz4_A           78 ------------V-IGG-LGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTT  143 (262)
T ss_dssp             ------------S-STT-HHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTT
T ss_pred             ------------h-ccC-hhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCC
Confidence                        0 001 11122222222222225788888888                                   0


Q ss_pred             CC-eEEEeec----------cc-ce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh-HHHHH
Q 038454          222 NH-TFCWGLR----------SM-GC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL-AIFTV  287 (359)
Q Consensus       222 ~g-~ilvTtr----------~~-~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-ai~~~  287 (359)
                      .+ .++.||.          .. .. ..+.+++.+.++-.+++...+.....  ..........+++.+.|.+- .|..+
T Consensus       144 ~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~--~~~~~~~~~~l~~~~~g~~~~~l~~l  221 (262)
T 2qz4_A          144 DHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKL--TQSSTFYSQRLAELTPGFSGADIANI  221 (262)
T ss_dssp             CCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTC--CBTHHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             CCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCC--CcchhhHHHHHHHHCCCCCHHHHHHH
Confidence            13 4555664          11 12 45788999999999998887633221  12222234778888888754 45444


Q ss_pred             H
Q 038454          288 V  288 (359)
Q Consensus       288 ~  288 (359)
                      .
T Consensus       222 ~  222 (262)
T 2qz4_A          222 C  222 (262)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.41  E-value=8.5e-06  Score=74.77  Aligned_cols=145  Identities=13%  Similarity=0.141  Sum_probs=89.0

Q ss_pred             HHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCccccc-------------------CCCccEEEEEeC---CC
Q 038454          116 KIVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQEET-------------------NEFSDVIWVTVS---QP  172 (359)
Q Consensus       116 ~~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~~F~~~~wv~~~---~~  172 (359)
                      +....+...+.+++ ...+.++|++|+|||++|+.+++.+....                   .+++ ..++...   ..
T Consensus         9 ~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~~~~~~~   87 (334)
T 1a5t_A            9 PDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAPEKGKNT   87 (334)
T ss_dssp             HHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECCCTTCSS
T ss_pred             HHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEeccccCCC
Confidence            35667777777765 45799999999999999999988631110                   0122 2333221   11


Q ss_pred             cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---
Q 038454          173 LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---  230 (359)
Q Consensus       173 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---  230 (359)
                      ..... .+.+...+....                ..+ ++-++|+|++                  .++ .+|++|.   
T Consensus        88 ~~i~~-ir~l~~~~~~~~----------------~~~-~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~  149 (334)
T 1a5t_A           88 LGVDA-VREVTEKLNEHA----------------RLG-GAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPE  149 (334)
T ss_dssp             BCHHH-HHHHHHHTTSCC----------------TTS-SCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGG
T ss_pred             CCHHH-HHHHHHHHhhcc----------------ccC-CcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChH
Confidence            12211 122222222110                012 6778889998                  234 5555555   


Q ss_pred             ------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          231 ------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       231 ------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                            ...+..+.+.+++.++..+.+....        .-..+.+..+++.++|.|..+..+
T Consensus       150 ~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~--------~~~~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          150 RLLATLRSRCRLHYLAPPPEQYAVTWLSREV--------TMSQDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHC--------CCCHHHHHHHHHHTTTCHHHHHHT
T ss_pred             hCcHHHhhcceeeeCCCCCHHHHHHHHHHhc--------CCCHHHHHHHHHHcCCCHHHHHHH
Confidence                  2345679999999999999988774        112355678999999999776544

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.40  E-value=5.6e-07  Score=74.70  Aligned_cols=46  Identities=22%  Similarity=0.312  Sum_probs=40.7

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|++.  ++..+...+.....+.+.|+|++|+|||+||+.+++.
T Consensus        21 ~~~~~g~~~--~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           21 LDPVIGRDT--EIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCCCCSCHH--HHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             cchhhcchH--HHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHH
Confidence            457899976  8999999998877778899999999999999999887

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.39  E-value=8.1e-06  Score=75.05  Aligned_cols=157  Identities=17%  Similarity=0.237  Sum_probs=94.3

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      ..++|.+.  .+..|..++..++.+.+.++|++|+||||+|+.+++.+  ....+. .+..++.+.......+. .++..
T Consensus        25 ~~~~g~~~--~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l--~~~~~~~~~~~~~~~~~~~~~~ir-~~i~~   99 (340)
T 1sxj_C           25 DEVYGQNE--VITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI--YGKNYSNMVLELNASDDRGIDVVR-NQIKD   99 (340)
T ss_dssp             GGCCSCHH--HHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH--HTTSHHHHEEEECTTSCCSHHHHH-THHHH
T ss_pred             HHhcCcHH--HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH--cCCCccceEEEEcCcccccHHHHH-HHHHH
Confidence            56788754  78888888888776669999999999999999999873  112221 12233333222222221 11111


Q ss_pred             hcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------ccceeee
Q 038454          186 LKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGCEEV  237 (359)
Q Consensus       186 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~~~  237 (359)
                      +.....              .+.+ .+-++|+|++                  ... .++++|.         ...+..+
T Consensus       100 ~~~~~~--------------~~~~-~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~  164 (340)
T 1sxj_C          100 FASTRQ--------------IFSK-GFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRF  164 (340)
T ss_dssp             HHHBCC--------------SSSC-SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             HHhhcc--------------cCCC-CceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeE
Confidence            110000              0012 4678888887                  234 6666655         1234578


Q ss_pred             ecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          238 RVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       238 ~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                      .+.+++.++..+.+...+-..+.   .-..+..+.+++.++|.+--+..
T Consensus       165 ~~~~l~~~~~~~~l~~~~~~~~~---~i~~~~~~~i~~~s~G~~r~~~~  210 (340)
T 1sxj_C          165 RFQPLPQEAIERRIANVLVHEKL---KLSPNAEKALIELSNGDMRRVLN  210 (340)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTC---CBCHHHHHHHHHHHTTCHHHHHH
T ss_pred             eccCCCHHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHcCCCHHHHHH
Confidence            99999999998888776532221   11245677889999998875443

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.38  E-value=7.2e-06  Score=74.75  Aligned_cols=154  Identities=9%  Similarity=0.104  Sum_probs=91.7

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .+..+..++..+.. .++.+.|++|+|||++|+.+++.+   .   ...+.++.+.. ... .++.++.
T Consensus        25 ~~~ivg~~~--~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l---~---~~~~~i~~~~~-~~~-~i~~~~~   94 (324)
T 3u61_B           25 IDECILPAF--DKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV---N---ADMMFVNGSDC-KID-FVRGPLT   94 (324)
T ss_dssp             TTTSCCCHH--HHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT---T---EEEEEEETTTC-CHH-HHHTHHH
T ss_pred             HHHHhCcHH--HHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---C---CCEEEEccccc-CHH-HHHHHHH
Confidence            357899966  88888888887654 567778889999999999999882   1   12445554332 222 2222222


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-------------------CCC-eEEEeec---------cccee
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-------------------DNH-TFCWGLR---------SMGCE  235 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-------------------~~g-~ilvTtr---------~~~~~  235 (359)
                      ......+               .. +++.+|++|++                   ..+ .+|+||.         ...+.
T Consensus        95 ~~~~~~~---------------~~-~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~  158 (324)
T 3u61_B           95 NFASAAS---------------FD-GRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCR  158 (324)
T ss_dssp             HHHHBCC---------------CS-SCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSE
T ss_pred             HHHhhcc---------------cC-CCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCc
Confidence            1111000               01 16778889998                   234 7777776         11235


Q ss_pred             eeecCCCChHHHHHH-------HHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          236 EVRVPPLSKEEALNL-------FLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       236 ~~~l~~L~~~ea~~l-------f~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                      .+.+++++.++-.++       +...+...+...++  .+....|++.++|.+-.+...
T Consensus       159 ~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~--~~~~~~l~~~~~gd~R~a~~~  215 (324)
T 3u61_B          159 VITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIAD--MKVVAALVKKNFPDFRKTIGE  215 (324)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSC--HHHHHHHHHHTCSCTTHHHHH
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCc--HHHHHHHHHhCCCCHHHHHHH
Confidence            689999998874333       22222211111111  266788999998877654433

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.34  E-value=5.3e-05  Score=67.98  Aligned_cols=156  Identities=12%  Similarity=0.156  Sum_probs=90.3

Q ss_pred             cccccccchHHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG------------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL  173 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~  173 (359)
                      -..++|.+.  .++.+...+..            ...+.+.|+|++|+|||+||+.+++..   ...   .+.++.+.-.
T Consensus        20 ~~~i~G~~~--~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~---~~~---~~~i~~~~l~   91 (297)
T 3b9p_A           20 WTDIAGQDV--AKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC---SAT---FLNISAASLT   91 (297)
T ss_dssp             GGGSCCCHH--HHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT---TCE---EEEEESTTTS
T ss_pred             HHHhCChHH--HHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCC---eEEeeHHHHh
Confidence            457899876  66666655421            235689999999999999999999872   211   2334433211


Q ss_pred             CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------------------
Q 038454          174 DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------------------  220 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------------------  220 (359)
                                    ...  ..........+........+.+|+||++                                 
T Consensus        92 --------------~~~--~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  155 (297)
T 3b9p_A           92 --------------SKY--VGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNP  155 (297)
T ss_dssp             --------------SSS--CSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC---
T ss_pred             --------------hcc--cchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccC
Confidence                          010  1112223333333332236788889987                                 


Q ss_pred             -CCC-eEEEeecc---c------ce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh-HHHHH
Q 038454          221 -DNH-TFCWGLRS---M------GC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL-AIFTV  287 (359)
Q Consensus       221 -~~g-~ilvTtr~---~------~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-ai~~~  287 (359)
                       ..+ .|+.||..   .      .. ..+.++..+.++...++...+.....   .-.......+++.+.|.+- .+..+
T Consensus       156 ~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~---~~~~~~~~~la~~~~g~~~~~l~~l  232 (297)
T 3b9p_A          156 DGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGS---PLDTEALRRLAKITDGYSGSDLTAL  232 (297)
T ss_dssp             ---CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSC---CSCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHcCCCCHHHHHHH
Confidence             023 45556651   1      11 34677777888888887776533221   1124566788999999875 55444


Q ss_pred             H
Q 038454          288 V  288 (359)
Q Consensus       288 ~  288 (359)
                      .
T Consensus       233 ~  233 (297)
T 3b9p_A          233 A  233 (297)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=98.33  E-value=1.1e-05  Score=73.48  Aligned_cols=156  Identities=15%  Similarity=0.191  Sum_probs=92.3

Q ss_pred             cccccccchHHHHHHHHHHhc----------C--CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc
Q 038454          106 TTTLVGENTKKIVKKVWEDLM----------G--DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL  173 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~----------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~  173 (359)
                      -..++|.+.  .++.|...+.          .  ...+-+.++|++|+|||+||+.+++.   ....   .+.++.    
T Consensus        17 ~~di~G~~~--~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~---~~~~---~~~v~~----   84 (322)
T 3eie_A           17 WEDVAGLEG--AKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE---ANST---FFSVSS----   84 (322)
T ss_dssp             GGGSCSCHH--HHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHH---HTCE---EEEEEH----
T ss_pred             HHHhcChHH--HHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHH---HCCC---EEEEch----
Confidence            356889866  6666665551          1  12457999999999999999999987   2222   222322    


Q ss_pred             CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC--------------------------------C
Q 038454          174 DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI--------------------------------D  221 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--------------------------------~  221 (359)
                        ..+        ....  ..........+.......++.+|+||++                                .
T Consensus        85 --~~l--------~~~~--~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  152 (322)
T 3eie_A           85 --SDL--------VSKW--MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDS  152 (322)
T ss_dssp             --HHH--------HTTT--GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSC
T ss_pred             --HHH--------hhcc--cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccC
Confidence              111        1110  1122333444444443336789999998                                1


Q ss_pred             CC-eEEEeecc---c------ce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCC-chhHHHHHH
Q 038454          222 NH-TFCWGLRS---M------GC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAG-LQLAIFTVV  288 (359)
Q Consensus       222 ~g-~ilvTtr~---~------~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plai~~~~  288 (359)
                      .+ .||.||..   .      .. ..+.++..+.++-.++|...+.....   .........|++.+.| .+-.|..+.
T Consensus       153 ~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~---~~~~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          153 QGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPC---VLTKEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             CCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCC---CCCHHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             CceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCC---CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            23 45556651   1      11 35788889999999999887644322   1123456788888887 454554444

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.30  E-value=3.3e-05  Score=68.50  Aligned_cols=46  Identities=15%  Similarity=0.141  Sum_probs=33.6

Q ss_pred             cccccccchHHHHHH-------HHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKK-------VWEDLM---GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~-------l~~~l~---~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+.  .++.       +...+.   ......+.|+|++|+|||+||+.+++.
T Consensus        32 ~~~~i~~~~--~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           32 MNGIIKWGD--PVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             TTCCCCCSH--HHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             hcCCCCccH--HHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            346788765  3333       333443   455678999999999999999999987

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.28  E-value=1.8e-05  Score=73.27  Aligned_cols=156  Identities=15%  Similarity=0.162  Sum_probs=89.4

Q ss_pred             cccccccchHHHHHHHHHHhc----C--------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc
Q 038454          106 TTTLVGENTKKIVKKVWEDLM----G--------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL  173 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~----~--------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~  173 (359)
                      -..++|.+.  .++.|...+.    .        ...+-|.|+|++|+|||+||+.+++.+   ...   .+.++.+   
T Consensus        50 ~~di~G~~~--~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~~---~~~v~~~---  118 (355)
T 2qp9_X           50 WEDVAGLEG--AKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NST---FFSVSSS---  118 (355)
T ss_dssp             GGGSCCGGG--HHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH---TCE---EEEEEHH---
T ss_pred             HHHhCCHHH--HHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCC---EEEeeHH---
Confidence            356899877  5556655541    1        123468999999999999999999982   222   2223221   


Q ss_pred             CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC--------------------------------C
Q 038454          174 DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI--------------------------------D  221 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--------------------------------~  221 (359)
                         ++.        .... ... ......+.......++.+|+||++                                .
T Consensus       119 ---~l~--------~~~~-g~~-~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~  185 (355)
T 2qp9_X          119 ---DLV--------SKWM-GES-EKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDS  185 (355)
T ss_dssp             ---HHH--------SCC----C-HHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---
T ss_pred             ---HHh--------hhhc-chH-HHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccC
Confidence               111        1100 111 222333333333237789999988                                1


Q ss_pred             CC-eEEEeeccc---------ce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCC-chhHHHHHH
Q 038454          222 NH-TFCWGLRSM---------GC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAG-LQLAIFTVV  288 (359)
Q Consensus       222 ~g-~ilvTtr~~---------~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g-~Plai~~~~  288 (359)
                      .+ .||.||...         .. ..+.++..+.++-.++|...+.......   .......|++.+.| .|-.|..+.
T Consensus       186 ~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~---~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          186 QGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVL---TKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCC---CHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            23 445566511         12 3578888999999999888764332211   24456788899988 454454443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.27  E-value=7.6e-05  Score=69.86  Aligned_cols=157  Identities=12%  Similarity=0.168  Sum_probs=91.2

Q ss_pred             cccccccchHHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc
Q 038454          106 TTTLVGENTKKIVKKVWEDLM------------GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL  173 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~  173 (359)
                      -..++|.+.  .++.|..++.            ....+.|.|+|++|+|||+||+.+++..   ...   .+.++.+.-.
T Consensus       114 ~~~iiG~~~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~---~~~---~~~v~~~~l~  185 (389)
T 3vfd_A          114 FDDIAGQDL--AKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES---NAT---FFNISAASLT  185 (389)
T ss_dssp             GGGSCSCHH--HHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT---TCE---EEEECSCCC-
T ss_pred             hHHhCCHHH--HHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh---cCc---EEEeeHHHhh
Confidence            467999976  6666666651            1234689999999999999999998872   111   2333332211


Q ss_pred             CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC--------------------------------C
Q 038454          174 DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI--------------------------------D  221 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--------------------------------~  221 (359)
                      +  ..       .      ... ......+..........+|+||++                                .
T Consensus       186 ~--~~-------~------g~~-~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  249 (389)
T 3vfd_A          186 S--KY-------V------GEG-EKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAG  249 (389)
T ss_dssp             ---------------------C-HHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC---
T ss_pred             c--cc-------c------chH-HHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccC
Confidence            1  00       0      011 122223333332226678889998                                0


Q ss_pred             CC--eEEEeec---------ccce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh-HHHHHH
Q 038454          222 NH--TFCWGLR---------SMGC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL-AIFTVV  288 (359)
Q Consensus       222 ~g--~ilvTtr---------~~~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl-ai~~~~  288 (359)
                      +.  .||.||.         .... ..+.+...+.++-.+++...+.....   .-.......|++.+.|..- +|..+.
T Consensus       250 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~---~l~~~~~~~la~~~~g~~~~~l~~L~  326 (389)
T 3vfd_A          250 DDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGS---PLTQKELAQLARMTDGYSGSDLTALA  326 (389)
T ss_dssp             --CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCC---CSCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            22  3455555         1122 35788899999999998887644322   1224567789999988544 555554


Q ss_pred             H
Q 038454          289 G  289 (359)
Q Consensus       289 ~  289 (359)
                      .
T Consensus       327 ~  327 (389)
T 3vfd_A          327 K  327 (389)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.21  E-value=1.4e-05  Score=74.45  Aligned_cols=176  Identities=17%  Similarity=0.208  Sum_probs=95.3

Q ss_pred             ccccccch-HHHHHHHHHH-hcC---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH
Q 038454          107 TTLVGENT-KKIVKKVWED-LMG---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL  175 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~-l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  175 (359)
                      ..+.|-+. .+++.+.+.+ +..         ..++=|.++|++|+|||.||+++++.   ....   .+.++.+.-.  
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e---~~~~---f~~v~~s~l~--  219 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHH---TDCK---FIRVSGAELV--  219 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHH---HTCE---EEEEEGGGGS--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHh---hCCC---ceEEEhHHhh--
Confidence            35667655 3444444444 222         23567999999999999999999998   2222   2334333211  


Q ss_pred             HHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC----------------------------------C
Q 038454          176 VKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI----------------------------------D  221 (359)
Q Consensus       176 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----------------------------------~  221 (359)
                                  ...  ....+..++.+...-+...+++|++|++                                  .
T Consensus       220 ------------sk~--vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~  285 (405)
T 4b4t_J          220 ------------QKY--IGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETS  285 (405)
T ss_dssp             ------------CSS--TTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCC
T ss_pred             ------------ccc--cchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCC
Confidence                        111  1122233333333333336777777777                                  2


Q ss_pred             CC-eEEEeec----------ccce--eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH-HHHH
Q 038454          222 NH-TFCWGLR----------SMGC--EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA-IFTV  287 (359)
Q Consensus       222 ~g-~ilvTtr----------~~~~--~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla-i~~~  287 (359)
                      .+ .||.||.          +.+-  ..+.++..+.++-.++|..+.-.-......+    ...|++.+.|.--| |..+
T Consensus       286 ~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd----l~~lA~~t~G~SGADi~~l  361 (405)
T 4b4t_J          286 KNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN----LRKVAEKMNGCSGADVKGV  361 (405)
T ss_dssp             CCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC----HHHHHHHCCSCCHHHHHHH
T ss_pred             CCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHCCCCCHHHHHHH
Confidence            34 5666776          1222  3588888888888888887653322212222    35577777775422 2222


Q ss_pred             ---HH--hhcCC---CChhHHHHHHHHHh
Q 038454          288 ---VG--CMRGV---DEIHEWRNALNELR  308 (359)
Q Consensus       288 ---~~--~L~~~---~~~~~w~~~l~~~~  308 (359)
                         |+  .++.+   -+.+.+..++++..
T Consensus       362 ~~eA~~~Air~~~~~vt~~Df~~Al~~v~  390 (405)
T 4b4t_J          362 CTEAGMYALRERRIHVTQEDFELAVGKVM  390 (405)
T ss_dssp             HHHHHHHHHHTTCSBCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCcCHHHHHHHHHHHh
Confidence               11  12332   34566766666544

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.20  E-value=5.4e-06  Score=70.09  Aligned_cols=60  Identities=18%  Similarity=0.138  Sum_probs=39.1

Q ss_pred             ccccccch--HHHHHHHHHHhcCC----CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe
Q 038454          107 TTLVGENT--KKIVKKVWEDLMGD----KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV  169 (359)
Q Consensus       107 ~~~vGr~~--~~~~~~l~~~l~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  169 (359)
                      .+|++.+.  ...++.+..++...    ....+.|+|++|+|||+||+.+++..   ......++|+++
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~---~~~~~~~~~~~~   90 (202)
T 2w58_A           25 SDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANEL---AKRNVSSLIVYV   90 (202)
T ss_dssp             TSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHH---HTTTCCEEEEEH
T ss_pred             hhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHH---HHcCCeEEEEEh
Confidence            45666542  33455556665433    22789999999999999999999883   222334566654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.18  E-value=1.5e-05  Score=76.60  Aligned_cols=128  Identities=15%  Similarity=0.236  Sum_probs=77.6

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCccccc--CCCcc--EEEEEeCCCcCHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEET--NEFSD--VIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~F~~--~~wv~~~~~~~~~~~~~~i  182 (359)
                      ++++|++.  ++..+...+......-+.++|++|+|||+||+.+++.+....  .....  ++.++.+            
T Consensus       180 d~iiGr~~--~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~------------  245 (468)
T 3pxg_A          180 DPVIGRSK--EIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG------------  245 (468)
T ss_dssp             CCCCCCHH--HHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------------
T ss_pred             CCccCcHH--HHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC------------
Confidence            46999976  899999999776667789999999999999999998731100  01111  2222222            


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-----------CCC--eEEEeec-c-------------ccee
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-----------DNH--TFCWGLR-S-------------MGCE  235 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------~~g--~ilvTtr-~-------------~~~~  235 (359)
                       .....      ........+...+...++.+|++|.-           ..|  .+|.+|. .             ..+.
T Consensus       246 -~~~~g------~~e~~~~~~~~~~~~~~~~iLfiD~~~~a~~~L~~~L~~g~v~vI~at~~~e~~~~~~~~~al~~Rf~  318 (468)
T 3pxg_A          246 -TKYRG------EFEDRLKKVMDEIRQAGNIILFIDAAIDASNILKPSLARGELQCIGATTLDEYRKYIEKDAALERRFQ  318 (468)
T ss_dssp             --------------CTTHHHHHHHHHTCCCCEEEECC--------CCCTTSSSCEEEEECCTTTTHHHHTTCSHHHHSEE
T ss_pred             -ccccc------hHHHHHHHHHHHHHhcCCeEEEEeCchhHHHHHHHhhcCCCEEEEecCCHHHHHHHhhcCHHHHHhCc
Confidence             00000      00111222333333336788889832           344  5666555 1             1234


Q ss_pred             eeecCCCChHHHHHHHHHhh
Q 038454          236 EVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~  255 (359)
                      .+.+++.+.++..+++...+
T Consensus       319 ~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          319 PIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             EEECCCCCHHHHHHHHHHTT
T ss_pred             cceeCCCCHHHHHHHHHHHH
Confidence            68999999999999998765

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.17  E-value=1.3e-05  Score=72.47  Aligned_cols=26  Identities=19%  Similarity=0.252  Sum_probs=22.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .....+.|+|++|+|||+||+.+++.
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~~   90 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAGL   90 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHH
Confidence            34557999999999999999988887

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.17  E-value=4.7e-05  Score=72.61  Aligned_cols=157  Identities=14%  Similarity=0.197  Sum_probs=87.8

Q ss_pred             cccccccchHHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc
Q 038454          106 TTTLVGENTKKIVKKVWEDLM------------GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL  173 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~  173 (359)
                      -..++|.+.  .+..|...+.            ....+-|.++|++|+|||+||+.+++.+   .    ..-++.++...
T Consensus       133 ~~di~G~~~--~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~---~----~~~~~~v~~~~  203 (444)
T 2zan_A          133 WSDVAGLEG--AKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA---N----NSTFFSISSSD  203 (444)
T ss_dssp             GGGSCSCHH--HHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC---C----SSEEEEECCC-
T ss_pred             HHHhcCHHH--HHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc---C----CCCEEEEeHHH
Confidence            356888866  5566655441            1234679999999999999999999872   1    11233333221


Q ss_pred             CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC--------------------------------C
Q 038454          174 DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI--------------------------------D  221 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--------------------------------~  221 (359)
                          +...   ..+..   ...    ...+........+.+|+||++                                .
T Consensus       204 ----l~~~---~~g~~---~~~----~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~  269 (444)
T 2zan_A          204 ----LVSK---WLGES---EKL----VKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDN  269 (444)
T ss_dssp             ---------------C---CCT----HHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCC
T ss_pred             ----HHhh---hcchH---HHH----HHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCC
Confidence                1100   01110   111    222222222237789999998                                1


Q ss_pred             CC-eEEEeecc---------cce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCc-hhHHHHHH
Q 038454          222 NH-TFCWGLRS---------MGC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGL-QLAIFTVV  288 (359)
Q Consensus       222 ~g-~ilvTtr~---------~~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~-Plai~~~~  288 (359)
                      .+ .||.||..         ... ..+.++..+.++-..+|...+.......   .......|++.+.|. +-.|..+.
T Consensus       270 ~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l---~~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          270 DGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSL---TEADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             SSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEEC---CHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCC---CHHHHHHHHHHcCCCCHHHHHHHH
Confidence            12 45556651         122 3577888888888888887764322111   235567888899884 44554443

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.15  E-value=4.8e-06  Score=69.14  Aligned_cols=87  Identities=16%  Similarity=0.179  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC
Q 038454          115 KKIVKKVWEDLMG---DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT  191 (359)
Q Consensus       115 ~~~~~~l~~~l~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  191 (359)
                      +..++.+..+..+   .....+.|+|++|+||||||+.+++.+ .....+. ++++      +..++...+.........
T Consensus        20 ~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~-~~~~g~~-~~~~------~~~~~~~~~~~~~~~~~~   91 (180)
T 3ec2_A           20 NRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAI-YEKKGIR-GYFF------DTKDLIFRLKHLMDEGKD   91 (180)
T ss_dssp             HHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHH-HHHSCCC-CCEE------EHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHH-HHHcCCe-EEEE------EHHHHHHHHHHHhcCchH
Confidence            3345555555543   335789999999999999999999873 1122222 2333      344555555444432211


Q ss_pred             CCccHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          192 EDEDKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       192 ~~~~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                        .       .+.+.+.  +.-+||||++
T Consensus        92 --~-------~~~~~~~--~~~llilDE~  109 (180)
T 3ec2_A           92 --T-------KFLKTVL--NSPVLVLDDL  109 (180)
T ss_dssp             --S-------HHHHHHH--TCSEEEEETC
T ss_pred             --H-------HHHHHhc--CCCEEEEeCC
Confidence              1       2222333  4568899998

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.15  E-value=3.1e-06  Score=67.83  Aligned_cols=44  Identities=16%  Similarity=0.304  Sum_probs=31.8

Q ss_pred             cccccchHHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENTKKIVKKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|++.  .+.++.+.+.  ......|.|+|.+|+|||++|+.+++.
T Consensus         2 ~iiG~s~--~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A            2 ELIGRSE--WINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             --CCSSH--HHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CceeCCH--HHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHh
Confidence            5788877  6666665552  122345789999999999999999987

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.13  E-value=3.6e-05  Score=72.74  Aligned_cols=149  Identities=14%  Similarity=0.190  Sum_probs=83.5

Q ss_pred             ccccccch-HHHHHHHHHH-hcC---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH
Q 038454          107 TTLVGENT-KKIVKKVWED-LMG---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL  175 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~-l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  175 (359)
                      ..+.|-+. .+++.+.+.+ +..         ..++=|.++|++|+|||+||+++++.   ....   .+.++.+.-.  
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e---~~~~---~~~v~~s~l~--  252 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAAT---IGAN---FIFSPASGIV--  252 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH---HTCE---EEEEEGGGTC--
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHH---hCCC---EEEEehhhhc--
Confidence            34666655 3344444444 322         24577999999999999999999998   2222   2334433211  


Q ss_pred             HHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC----------------------------------C
Q 038454          176 VKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI----------------------------------D  221 (359)
Q Consensus       176 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----------------------------------~  221 (359)
                                  ...  .......+..+...-....+++|++|++                                  .
T Consensus       253 ------------sk~--~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~  318 (437)
T 4b4t_L          253 ------------DKY--IGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNL  318 (437)
T ss_dssp             ------------CSS--SSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCT
T ss_pred             ------------ccc--chHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCC
Confidence                        111  1122233333333333337788888887                                  2


Q ss_pred             CC-eEEEeec----------ccc-e-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch
Q 038454          222 NH-TFCWGLR----------SMG-C-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ  281 (359)
Q Consensus       222 ~g-~ilvTtr----------~~~-~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  281 (359)
                      .+ .||.||.          +.+ . ..+.++..+.++-.++|..+...-......+    ...+++.+.|.-
T Consensus       319 ~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~d----l~~lA~~t~G~s  387 (437)
T 4b4t_L          319 GQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD----FEAAVKMSDGFN  387 (437)
T ss_dssp             TSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCC----HHHHHHTCCSCC
T ss_pred             CCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhCCCCC
Confidence            23 5666776          122 1 3578888888888888877653322212222    355677777654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.12  E-value=3.7e-05  Score=71.95  Aligned_cols=149  Identities=14%  Similarity=0.172  Sum_probs=82.9

Q ss_pred             ccccccch-HHHHHHHHHH-hcC---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH
Q 038454          107 TTLVGENT-KKIVKKVWED-LMG---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL  175 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~-l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  175 (359)
                      ..+.|-+. .+++.+.+.+ +..         ..++=|.++|++|+|||.||+++++.   ....|   +.++.+.    
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e---~~~~f---i~v~~s~----  251 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQ---TSATF---LRIVGSE----  251 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHH---HTCEE---EEEESGG----
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHH---hCCCE---EEEEHHH----
Confidence            34666655 3344444444 332         23577999999999999999999998   22222   2333221    


Q ss_pred             HHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC----------------------------------C
Q 038454          176 VKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI----------------------------------D  221 (359)
Q Consensus       176 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----------------------------------~  221 (359)
                                +....  ....+..++.+...-+...+++|++|++                                  .
T Consensus       252 ----------l~sk~--vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~  319 (437)
T 4b4t_I          252 ----------LIQKY--LGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDR  319 (437)
T ss_dssp             ----------GCCSS--SSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCS
T ss_pred             ----------hhhcc--CchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCC
Confidence                      11111  1122333334433333336778888877                                  2


Q ss_pred             CC-eEEEeec----------ccc-e-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch
Q 038454          222 NH-TFCWGLR----------SMG-C-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ  281 (359)
Q Consensus       222 ~g-~ilvTtr----------~~~-~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  281 (359)
                      .+ .||.||.          +.+ . ..+.++.-+.++-.++|..++..-......+    ...|++.+.|.-
T Consensus       320 ~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvd----l~~LA~~T~GfS  388 (437)
T 4b4t_I          320 GDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVN----LETLVTTKDDLS  388 (437)
T ss_dssp             SSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCC----HHHHHHHCCSCC
T ss_pred             CCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCCC
Confidence            34 5666776          111 1 3477888888888888877664322212222    345667776653

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.12  E-value=3e-05  Score=80.05  Aligned_cols=132  Identities=14%  Similarity=0.238  Sum_probs=80.6

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCccc--ccCCC-c-cEEEEEeCCCcCHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQE--ETNEF-S-DVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~--~~~~F-~-~~~wv~~~~~~~~~~~~~~i  182 (359)
                      ++++||+.  ++..++..+.......+.++|.+|+|||+||+.+++.+..  +.... . .+++++.+.-..        
T Consensus       170 d~viGr~~--~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~--------  239 (854)
T 1qvr_A          170 DPVIGRDE--EIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA--------  239 (854)
T ss_dssp             CCCCSCHH--HHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------
T ss_pred             cccCCcHH--HHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc--------
Confidence            56899976  9999999998776677899999999999999999987311  00111 1 233443322100        


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhc-CCcEEEEEecC------------------------CCC-eEEEeec------
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLKA-KKKFVLILDDI------------------------DNH-TFCWGLR------  230 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv------------------------~~g-~ilvTtr------  230 (359)
                          +..  ...........+...+.. +++.+|++|++                        ..+ .+|.+|.      
T Consensus       240 ----g~~--~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~~i~~I~at~~~~~~~  313 (854)
T 1qvr_A          240 ----GAK--YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYRE  313 (854)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCEEEEECHHHHHH
T ss_pred             ----cCc--cchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhCCCeEEEEecCchHHhh
Confidence                000  011233334444444433 36789999998                        122 4555554      


Q ss_pred             -------ccceeeeecCCCChHHHHHHHHHh
Q 038454          231 -------SMGCEEVRVPPLSKEEALNLFLDK  254 (359)
Q Consensus       231 -------~~~~~~~~l~~L~~~ea~~lf~~~  254 (359)
                             ...+..+.+++++.++..+++...
T Consensus       314 ~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          314 IEKDPALERRFQPVYVDEPTVEETISILRGL  344 (854)
T ss_dssp             HTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             hccCHHHHhCCceEEeCCCCHHHHHHHHHhh
Confidence                   111245899999999999998754

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.09  E-value=4.4e-05  Score=72.15  Aligned_cols=127  Identities=20%  Similarity=0.223  Sum_probs=74.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      .++-|.++|++|+|||.||+++++.   ....   .+.++.+.              +....  ....+..++.+...-+
T Consensus       242 pprGILLyGPPGTGKTlLAkAiA~e---~~~~---fi~vs~s~--------------L~sk~--vGesek~ir~lF~~Ar  299 (467)
T 4b4t_H          242 PPKGILLYGPPGTGKTLCARAVANR---TDAT---FIRVIGSE--------------LVQKY--VGEGARMVRELFEMAR  299 (467)
T ss_dssp             CCSEEEECSCTTSSHHHHHHHHHHH---HTCE---EEEEEGGG--------------GCCCS--SSHHHHHHHHHHHHHH
T ss_pred             CCCceEeeCCCCCcHHHHHHHHHhc---cCCC---eEEEEhHH--------------hhccc--CCHHHHHHHHHHHHHH
Confidence            4678999999999999999999998   2222   23333322              11111  1122233333333333


Q ss_pred             cCCcEEEEEecC----------------------------------CCC-eEEEeec----------ccc-e-eeeecCC
Q 038454          209 AKKKFVLILDDI----------------------------------DNH-TFCWGLR----------SMG-C-EEVRVPP  241 (359)
Q Consensus       209 ~~k~~LlVlDdv----------------------------------~~g-~ilvTtr----------~~~-~-~~~~l~~  241 (359)
                      ...+++|++|++                                  ..+ .||.||.          +.+ . ..+.++.
T Consensus       300 ~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~l  379 (467)
T 4b4t_H          300 TKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSL  379 (467)
T ss_dssp             HTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCC
T ss_pred             hcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChhhhccccccEEEEeCC
Confidence            337788888887                                  223 4566775          122 2 4578888


Q ss_pred             CChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch
Q 038454          242 LSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ  281 (359)
Q Consensus       242 L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  281 (359)
                      .+.++-.++|..++..-.......    ...|++.|.|.-
T Consensus       380 Pd~~~R~~Ilk~~l~~~~l~~dvd----l~~LA~~T~GfS  415 (467)
T 4b4t_H          380 PDLEGRANIFRIHSKSMSVERGIR----WELISRLCPNST  415 (467)
T ss_dssp             CCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHHCCSCC
T ss_pred             cCHHHHHHHHHHHhcCCCCCCCCC----HHHHHHHCCCCC
Confidence            888888888887754322212222    355777787753

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.08  E-value=0.00012  Score=66.05  Aligned_cols=149  Identities=12%  Similarity=0.137  Sum_probs=83.1

Q ss_pred             ccccccchHHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc
Q 038454          107 TTLVGENTKKIVKKVWEDLM-------------GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL  173 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~  173 (359)
                      ..++|.+.  .++.|.+++.             -...+.+.|+|++|+|||+||+.+++..   ...     ++.++   
T Consensus        15 ~di~G~~~--~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~-----~i~v~---   81 (301)
T 3cf0_A           15 EDIGGLED--VKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIK---   81 (301)
T ss_dssp             GGSCSCHH--HHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCE-----EEEEC---
T ss_pred             HHhCCHHH--HHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh---CCC-----EEEEE---
Confidence            46888876  4444444332             1345679999999999999999999872   221     22222   


Q ss_pred             CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------------------
Q 038454          174 DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------------------  220 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------------------  220 (359)
                       ...+....   .+..   ...   ....+...... .+.+|+||++                                 
T Consensus        82 -~~~l~~~~---~g~~---~~~---~~~~f~~a~~~-~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~  150 (301)
T 3cf0_A           82 -GPELLTMW---FGES---EAN---VREIFDKARQA-APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  150 (301)
T ss_dssp             -HHHHHHHH---HTTC---TTH---HHHHHHHHHHT-CSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSC
T ss_pred             -hHHHHhhh---cCch---HHH---HHHHHHHHHhc-CCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhccc
Confidence             22222211   1211   111   11122222233 6789999987                                 


Q ss_pred             -CCC-eEEEeec----------cc-ce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH
Q 038454          221 -DNH-TFCWGLR----------SM-GC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA  283 (359)
Q Consensus       221 -~~g-~ilvTtr----------~~-~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  283 (359)
                       ..+ .||.||.          .. .. ..+.++..+.++-.+++...+...........    ..+++.+.|.|-+
T Consensus       151 ~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~----~~la~~~~g~sg~  223 (301)
T 3cf0_A          151 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDL----EFLAKMTNGFSGA  223 (301)
T ss_dssp             TTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCH----HHHHHTCSSCCHH
T ss_pred             CCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchH----HHHHHHcCCCCHH
Confidence             123 5666666          11 11 35788999999988888777643322112222    3455667776643

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.07  E-value=0.0003  Score=61.66  Aligned_cols=48  Identities=23%  Similarity=0.225  Sum_probs=35.0

Q ss_pred             cccccccch-HHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMGD---------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..++|.+. .+.+.+++.++...         ..+-+.|+|++|+||||||+.+++.
T Consensus        11 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHH
Confidence            457899876 34444555555331         2346899999999999999999987

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.07  E-value=3.1e-05  Score=73.05  Aligned_cols=126  Identities=13%  Similarity=0.153  Sum_probs=71.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      .++-|.++|++|+|||.||+++++.   ....   .+.++.+.              +....  .......++.+...-+
T Consensus       214 ~prGvLLyGPPGTGKTllAkAiA~e---~~~~---f~~v~~s~--------------l~~~~--vGese~~ir~lF~~A~  271 (434)
T 4b4t_M          214 APKGALMYGPPGTGKTLLARACAAQ---TNAT---FLKLAAPQ--------------LVQMY--IGEGAKLVRDAFALAK  271 (434)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHH---HTCE---EEEEEGGG--------------GCSSC--SSHHHHHHHHHHHHHH
T ss_pred             CCCeeEEECcCCCCHHHHHHHHHHH---hCCC---EEEEehhh--------------hhhcc--cchHHHHHHHHHHHHH
Confidence            4577999999999999999999998   2222   23333322              11111  1122233333333222


Q ss_pred             cCCcEEEEEecC----------------------------------CCC-eEEEeec----------ccc-e-eeeecCC
Q 038454          209 AKKKFVLILDDI----------------------------------DNH-TFCWGLR----------SMG-C-EEVRVPP  241 (359)
Q Consensus       209 ~~k~~LlVlDdv----------------------------------~~g-~ilvTtr----------~~~-~-~~~~l~~  241 (359)
                      ...+++|++|++                                  ..+ .||.||.          +.+ . ..+.++.
T Consensus       272 ~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~l  351 (434)
T 4b4t_M          272 EKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPL  351 (434)
T ss_dssp             HHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCC
T ss_pred             hcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCC
Confidence            226778888887                                  233 4556776          112 1 3578888


Q ss_pred             CChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCc
Q 038454          242 LSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGL  280 (359)
Q Consensus       242 L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~  280 (359)
                      .+.++-.++|..++..-......+    ...|++.+.|.
T Consensus       352 Pd~~~R~~Il~~~~~~~~~~~dvd----l~~lA~~t~G~  386 (434)
T 4b4t_M          352 PSEDSRAQILQIHSRKMTTDDDIN----WQELARSTDEF  386 (434)
T ss_dssp             CCHHHHHHHHHHHHHHSCBCSCCC----HHHHHHHCSSC
T ss_pred             cCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCC
Confidence            888888888876653221111222    35577777764

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.04  E-value=7.9e-05  Score=75.97  Aligned_cols=133  Identities=18%  Similarity=0.210  Sum_probs=82.9

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccC---CCccEEE-EEeCCCcCHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETN---EFSDVIW-VTVSQPLDLVKLQAEI  182 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~---~F~~~~w-v~~~~~~~~~~~~~~i  182 (359)
                      ..++|++.  ++..+...+......-+.|+|.+|+|||++|+.+++.+....-   ...+.+| ++.+.-          
T Consensus       186 d~~iGr~~--~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l----------  253 (758)
T 1r6b_X          186 DPLIGREK--ELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL----------  253 (758)
T ss_dssp             CCCCSCHH--HHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC------------
T ss_pred             CCccCCHH--HHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH----------
Confidence            56899976  8999999998777778899999999999999999987311100   1122232 111110          


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------------CCC--eEEEeec------
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------------DNH--TFCWGLR------  230 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------------~~g--~ilvTtr------  230 (359)
                         +... ......+.....+.+.+...++.+|++|++                        ..|  .+|.+|.      
T Consensus       254 ---~~~~-~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~~~~~I~at~~~~~~~  329 (758)
T 1r6b_X          254 ---LAGT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSN  329 (758)
T ss_dssp             ----CCC-CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHC
T ss_pred             ---hccc-cccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCCCeEEEEEeCchHHhh
Confidence               0000 112233444445555554436788999998                        123  5555554      


Q ss_pred             --------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          231 --------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       231 --------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                              ......+.+++.+.++..+++....
T Consensus       330 ~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          330 IFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             CCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence                    0112458999999999988887654

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.99  E-value=8.3e-05  Score=70.07  Aligned_cols=25  Identities=24%  Similarity=0.430  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++=|.++|++|+|||+||+++++.
T Consensus       205 ~prGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          205 PPRGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            4566999999999999999999998

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.97  E-value=7.6e-05  Score=76.10  Aligned_cols=130  Identities=15%  Similarity=0.194  Sum_probs=78.3

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCC--ccEEEEEeCCCcCHHHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEF--SDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      .+++|++.  ++..+...+......-+.++|++|+|||++|+.+++.+......+  ...-++.++-             
T Consensus       180 d~iiG~~~--~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~-------------  244 (758)
T 3pxi_A          180 DPVIGRSK--EIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM-------------  244 (758)
T ss_dssp             CCCCCCHH--HHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------------
T ss_pred             CCccCchH--HHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc-------------
Confidence            57999976  999999999877667789999999999999999998731111111  1111222111             


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-----------CCC--eEEEeec-cc-------------ceeee
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-----------DNH--TFCWGLR-SM-------------GCEEV  237 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------~~g--~ilvTtr-~~-------------~~~~~  237 (359)
                        +....  ...+.....+.......++.+|++|.-           ..|  .+|.+|. ..             ....+
T Consensus       245 --g~~~~--G~~e~~l~~~~~~~~~~~~~iLfiD~~~~~~~~L~~~l~~~~v~~I~at~~~~~~~~~~~d~al~rRf~~i  320 (758)
T 3pxi_A          245 --GTKYR--GEFEDRLKKVMDEIRQAGNIILFIDAAIDASNILKPSLARGELQCIGATTLDEYRKYIEKDAALERRFQPI  320 (758)
T ss_dssp             ------------CTTHHHHHHHHHTCCCCEEEECC--------CCCTTSSSCEEEEECCTTTTHHHHTTCSHHHHSEEEE
T ss_pred             --ccccc--chHHHHHHHHHHHHHhcCCEEEEEcCchhHHHHHHHHHhcCCEEEEeCCChHHHHHHhhccHHHHhhCcEE
Confidence              10000  011112222233333237788899843           334  6666665 11             22468


Q ss_pred             ecCCCChHHHHHHHHHhh
Q 038454          238 RVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       238 ~l~~L~~~ea~~lf~~~~  255 (359)
                      .+++.+.++..+++....
T Consensus       321 ~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          321 QVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             ECCCCCHHHHHHHHHHTT
T ss_pred             EeCCCCHHHHHHHHHHHH
Confidence            999999999999998654

>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=97.89  E-value=0.00012  Score=66.09  Aligned_cols=121  Identities=13%  Similarity=0.048  Sum_probs=75.8

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCCcc
Q 038454          117 IVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLTEDED  195 (359)
Q Consensus       117 ~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~  195 (359)
                      .++.|...+.+++.+...++|++|+||||+|..+++.+...........+++.+. ...+..+ +++...+.....    
T Consensus         5 ~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~i-r~li~~~~~~p~----   79 (305)
T 2gno_A            5 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDI-RTIKDFLNYSPE----   79 (305)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHH-HHHHHHHTSCCS----
T ss_pred             HHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHH-HHHHHHHhhccc----
Confidence            6677777887777789999999999999999999875211111222345555443 3333333 334444432211    


Q ss_pred             HHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec-c------cceeeeecCCCChHHHHH
Q 038454          196 KVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR-S------MGCEEVRVPPLSKEEALN  249 (359)
Q Consensus       196 ~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr-~------~~~~~~~l~~L~~~ea~~  249 (359)
                                  .+ ++-++|+|++                  .+. .+|++|. .      ...+.+.+.+++.++..+
T Consensus        80 ------------~~-~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR~~~f~~l~~~~i~~  146 (305)
T 2gno_A           80 ------------LY-TRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPKEFRD  146 (305)
T ss_dssp             ------------SS-SSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCHHHHH
T ss_pred             ------------cC-CceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHceeEeCCCCCHHHHHH
Confidence                        12 5677888888                  234 5555554 0      001178999999999999


Q ss_pred             HHHHhh
Q 038454          250 LFLDKV  255 (359)
Q Consensus       250 lf~~~~  255 (359)
                      .+...+
T Consensus       147 ~L~~~~  152 (305)
T 2gno_A          147 LVKEKI  152 (305)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            988775

>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=97.86  E-value=0.00037  Score=67.11  Aligned_cols=153  Identities=15%  Similarity=0.149  Sum_probs=86.5

Q ss_pred             ccccccchHHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc
Q 038454          107 TTLVGENTKKIVKKVWEDLM-------------GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL  173 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~-------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~  173 (359)
                      ..++|.+.  .+.+|.+++.             .....-|.|+|++|+|||+||+.+++.   ....   .+.++.+   
T Consensus       204 ~~i~G~~~--~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~---~~~~---fv~vn~~---  272 (489)
T 3hu3_A          204 DDIGGCRK--QLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE---TGAF---FFLINGP---  272 (489)
T ss_dssp             GGCCSCHH--HHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHH---CSSE---EEEEEHH---
T ss_pred             HHcCCHHH--HHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHH---hCCC---EEEEEch---
Confidence            45788866  5555555442             234567999999999999999999887   2222   2333321   


Q ss_pred             CHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------------------CC-
Q 038454          174 DLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------------------DN-  222 (359)
Q Consensus       174 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------------------~~-  222 (359)
                         .+    .    .... ..........+.....+ ++.+|+||++                              .+ 
T Consensus       273 ---~l----~----~~~~-g~~~~~~~~~f~~A~~~-~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~  339 (489)
T 3hu3_A          273 ---EI----M----SKLA-GESESNLRKAFEEAEKN-APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRA  339 (489)
T ss_dssp             ---HH----H----TSCT-THHHHHHHHHHHHHHHT-CSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTS
T ss_pred             ---Hh----h----hhhc-chhHHHHHHHHHHHHhc-CCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCC
Confidence               11    1    1111 11112222223333333 7788999997                              12 


Q ss_pred             C-eEEEeeccc-----------ce-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCc-hhHHHHH
Q 038454          223 H-TFCWGLRSM-----------GC-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGL-QLAIFTV  287 (359)
Q Consensus       223 g-~ilvTtr~~-----------~~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~-Plai~~~  287 (359)
                      + .||.||...           .. ..+.+...+.++-.++|...+..........    ...++..+.|. +-.+..+
T Consensus       340 ~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~----l~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          340 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHVGADLAAL  414 (489)
T ss_dssp             CEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCC----HHHHHHTCTTCCHHHHHHH
T ss_pred             ceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhh----HHHHHHHccCCcHHHHHHH
Confidence            3 555566610           11 3588999999999999988764322212222    24566667664 5444443

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.85  E-value=0.00075  Score=61.68  Aligned_cols=70  Identities=4%  Similarity=-0.014  Sum_probs=46.6

Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhh------cC--CCChhHHHHHHHHH
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCM------RG--VDEIHEWRNALNEL  307 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L------~~--~~~~~~w~~~l~~~  307 (359)
                      .+.+++.+.++-.+++.+.+...+.   ....+.+..|++.+.|.|-.+..+...+      ..  .-+.+.-+.+++.+
T Consensus       174 ~~~Ld~~~~~~l~~iL~~~~~~~~~---~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~~~~~~It~~~v~~al~~~  250 (334)
T 1in4_A          174 ILELDFYTVKELKEIIKRAASLMDV---EIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTMEVL  250 (334)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHTTC---CBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHHH
T ss_pred             eeeCCCCCHHHHHHHHHHHHHHcCC---CcCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHh
Confidence            4789999999999999887632211   2235678899999999997654443222      22  24556666666665


Q ss_pred             h
Q 038454          308 R  308 (359)
Q Consensus       308 ~  308 (359)
                      .
T Consensus       251 ~  251 (334)
T 1in4_A          251 N  251 (334)
T ss_dssp             T
T ss_pred             C
Confidence            4

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.84  E-value=0.00067  Score=68.79  Aligned_cols=149  Identities=17%  Similarity=0.194  Sum_probs=85.4

Q ss_pred             ccccccch-HHHHHHHHHH-hcCC---------CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH
Q 038454          107 TTLVGENT-KKIVKKVWED-LMGD---------KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL  175 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~-l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  175 (359)
                      ..+.|-+. .+++.+++.+ |...         .++-|.++|++|+|||+||+++++..   ..+   .+.|+.+.    
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~---~~~v~~~~----  273 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGPE----  273 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCE---EEEEEHHH----
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCe---EEEEEhHH----
Confidence            34667665 4445555554 3332         35679999999999999999999982   222   23343211    


Q ss_pred             HHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-------------------------------CCC-
Q 038454          176 VKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-------------------------------DNH-  223 (359)
Q Consensus       176 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-------------------------------~~g-  223 (359)
                                +....  ....+..++.+.+.-....+.+|+||++                               ..+ 
T Consensus       274 ----------l~sk~--~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V  341 (806)
T 3cf2_A          274 ----------IMSKL--AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (806)
T ss_dssp             ----------HHSSC--TTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCE
T ss_pred             ----------hhccc--chHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCE
Confidence                      11111  1122333333433333337889999998                               123 


Q ss_pred             eEEEeec----------ccc-e-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch
Q 038454          224 TFCWGLR----------SMG-C-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ  281 (359)
Q Consensus       224 ~ilvTtr----------~~~-~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  281 (359)
                      -||.||.          +.+ . ..+.++..+.++-.++|..+........+..    ...|++.+.|..
T Consensus       342 ~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             EEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCC----HHHHHHHCCSCC
T ss_pred             EEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhcCCCC
Confidence            4555665          111 1 3588888888888888877653322212222    345777777764

>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=97.80  E-value=0.001  Score=63.60  Aligned_cols=48  Identities=25%  Similarity=0.214  Sum_probs=35.6

Q ss_pred             cccccccch-HHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMGD---------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..++|.+. .+++.+++..+.+.         -++-|.|+|++|+|||+||+.+++.
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            356888876 44555666655432         2345889999999999999999987

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.71  E-value=3.5e-05  Score=61.42  Aligned_cols=45  Identities=9%  Similarity=0.194  Sum_probs=29.6

Q ss_pred             ccccccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|++.  .+.++.+.+..  ....-|.|+|.+|+|||++|+.+++.
T Consensus         4 ~~~iG~s~--~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A            4 FDKLGNSA--AIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             ----CCCH--HHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCT
T ss_pred             cCceeCCH--HHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            45788876  55555554421  22245889999999999999998887

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.69  E-value=0.00017  Score=64.92  Aligned_cols=45  Identities=18%  Similarity=0.358  Sum_probs=33.0

Q ss_pred             ccccccchHHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMGD---------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .++.+...+...         ....+.++|++|+|||++|+.+++.
T Consensus        17 ~~i~G~~~--~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           17 KRVVGQDE--AIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             TTCCSCHH--HHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             hhcCCHHH--HHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHH
Confidence            35778865  555555554321         1357999999999999999999987

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.68  E-value=0.00012  Score=66.19  Aligned_cols=45  Identities=13%  Similarity=0.327  Sum_probs=32.9

Q ss_pred             ccccccchHHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|++.  .+.++...+..  .....|.|+|.+|+|||++|+.+++.
T Consensus         2 ~~iig~s~--~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~   48 (304)
T 1ojl_A            2 SHMIGSSP--AMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHAC   48 (304)
T ss_dssp             -CCCCCSH--HHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHH
T ss_pred             CCcEECCH--HHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHh
Confidence            35788877  55555554432  23356889999999999999999886

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.68  E-value=4.7e-05  Score=61.19  Aligned_cols=40  Identities=20%  Similarity=0.339  Sum_probs=28.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      .-..++|+|+.|+|||||++.+++.+ .. ..+ .+++++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~-~~-~g~-~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA-LE-AGK-NAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH-HT-TTC-CEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH-Hh-cCC-cEEEEcHHH
Confidence            45689999999999999999999873 21 222 256666543

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=97.40  E-value=0.00011  Score=66.38  Aligned_cols=66  Identities=20%  Similarity=0.294  Sum_probs=44.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe--CCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV--SQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~--~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      +++.|+|++|+|||+||.+++.. ..     ..++|++.  .+..+.               . ..+.+.....+.+.+.
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~-~G-----~~VlyIs~~~eE~v~~---------------~-~~~le~~l~~i~~~l~  181 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEA-LG-----GKDKYATVRFGEPLSG---------------Y-NTDFNVFVDDIARAML  181 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHH-HH-----TTSCCEEEEBSCSSTT---------------C-BCCHHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHh-CC-----CCEEEEEecchhhhhh---------------h-hcCHHHHHHHHHHHHh
Confidence            56789999999999999999875 11     12456666  322110               0 1345566666777777


Q ss_pred             cCCcEEEEEecC
Q 038454          209 AKKKFVLILDDI  220 (359)
Q Consensus       209 ~~k~~LlVlDdv  220 (359)
                      . .+ +||+|++
T Consensus       182 ~-~~-LLVIDsI  191 (331)
T 2vhj_A          182 Q-HR-VIVIDSL  191 (331)
T ss_dssp             H-CS-EEEEECC
T ss_pred             h-CC-EEEEecc
Confidence            6 55 9999998

>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=97.37  E-value=0.00057  Score=62.82  Aligned_cols=83  Identities=16%  Similarity=0.228  Sum_probs=55.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -.++.|+|++|+||||||.+++.... ..+  ..++|++....++..     .+..++....     ...+.++....+.
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~-~~g--g~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~  132 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQ-KMG--GVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVD  132 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHH-HTT--CCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH-hcC--CeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHH
Confidence            36999999999999999999988732 111  247888877766654     4455554321     1234555555555


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ..+...+.-++|+|.+
T Consensus       133 ~l~~~~~~dlvVIDSi  148 (356)
T 3hr8_A          133 ELVRSGVVDLIVVDSV  148 (356)
T ss_dssp             HHHHTSCCSEEEEECT
T ss_pred             HHhhhcCCCeEEehHh
Confidence            5555435668999997

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.35  E-value=0.00026  Score=64.05  Aligned_cols=47  Identities=11%  Similarity=0.193  Sum_probs=32.4

Q ss_pred             ccccccch--HHHHHHHHHHhcCC---CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENT--KKIVKKVWEDLMGD---KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~--~~~~~~l~~~l~~~---~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|++.+.  ...+..+..++..-   ....+.|+|++|+|||+||..+++.
T Consensus       124 d~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          124 SDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             GGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             hhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            44554432  22444555555431   2468999999999999999999987

>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=97.35  E-value=0.00091  Score=57.69  Aligned_cols=89  Identities=13%  Similarity=0.078  Sum_probs=53.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccC----CCccEEEEEeCCCcCHHHHHHHHHHHhcCCC---------CCCccH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETN----EFSDVIWVTVSQPLDLVKLQAEIAMALKLSL---------TEDEDK  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~---------~~~~~~  196 (359)
                      -.++.|+|++|+|||||+..++... ....    .-..++|++....++...+. .++..++...         ....+.
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~-~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTC-QLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH-hCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCH
Confidence            3689999999999999999998741 1111    12468888877655554442 3444444321         011122


Q ss_pred             H---HHHHHHHHHHhcCCcEEEEEecC
Q 038454          197 V---SRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       197 ~---~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      .   .....+.+.+...+.-+||+|++
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~  128 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSA  128 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETS
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCc
Confidence            2   22334555554447789999997

>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=97.33  E-value=0.00082  Score=61.14  Aligned_cols=90  Identities=14%  Similarity=0.214  Sum_probs=56.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCccccc--CC-CccEEEEEeCCCcCHHHHHHHHHHHhcCCCC---------CCccHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEET--NE-FSDVIWVTVSQPLDLVKLQAEIAMALKLSLT---------EDEDKV  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~-F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~---------~~~~~~  197 (359)
                      -.++.|+|.+|+||||||.+++.......  +. -..++|++....++..++.. ++..++....         ...+.+
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~~  185 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINTD  185 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCHH
Confidence            36899999999999999999987621110  01 23588999888777666543 3455543210         111222


Q ss_pred             ---HHHHHHHHHHhc-CCcEEEEEecC
Q 038454          198 ---SRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 ---~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                         .....+...+.. .+.-+||+|.+
T Consensus       186 ~~~~~l~~l~~~~~~~~~~~lvVIDsl  212 (324)
T 2z43_A          186 HQIAIVDDLQELVSKDPSIKLIVVDSV  212 (324)
T ss_dssp             HHHHHHHHHHHHHHHCTTEEEEEETTT
T ss_pred             HHHHHHHHHHHHHHhccCCCEEEEeCc
Confidence               344455555543 46789999997

>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=97.27  E-value=0.00095  Score=59.99  Aligned_cols=82  Identities=7%  Similarity=0.009  Sum_probs=54.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHH-HHHHHH
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSR-ARRLLG  205 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~-~~~l~~  205 (359)
                      ++-|.|++|+|||||+.+++.... ....=..++|++....++..     .+++++.+..     ...+.++. .. +.+
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~-~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~-i~~  102 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYM-RQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRID-MVN  102 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHH-HHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHH-HHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHH-HHH
Confidence            789999999999999999887732 11111358899988777764     2666765432     12344444 33 323


Q ss_pred             HH---hcCCcEEEEEecC
Q 038454          206 KL---KAKKKFVLILDDI  220 (359)
Q Consensus       206 ~l---~~~k~~LlVlDdv  220 (359)
                      .+   ...+.-|+|+|.+
T Consensus       103 ~l~~i~~~~~~lvVIDSI  120 (333)
T 3io5_A          103 QLDAIERGEKVVVFIDSL  120 (333)
T ss_dssp             HHHTCCTTCCEEEEEECS
T ss_pred             HHHHhhccCceEEEEecc
Confidence            33   4447889999998

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.27  E-value=0.00035  Score=71.15  Aligned_cols=45  Identities=20%  Similarity=0.334  Sum_probs=33.2

Q ss_pred             ccccccchHHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMG-------D--KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .+..+...+..       .  ....+.++|++|+|||++|+.+++.
T Consensus       491 ~~viGq~~--a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~  544 (758)
T 3pxi_A          491 SRVIGQDE--AVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAES  544 (758)
T ss_dssp             TTSCSCHH--HHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CcCcChHH--HHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            46888866  56555555531       1  1236999999999999999999987

>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=97.27  E-value=0.0016  Score=59.79  Aligned_cols=90  Identities=17%  Similarity=0.183  Sum_probs=56.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccC---CCccEEEEEeCCCcCHHHHHHHHHHHhcCCC------------CCCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETN---EFSDVIWVTVSQPLDLVKLQAEIAMALKLSL------------TEDE  194 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~---~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------------~~~~  194 (359)
                      -.++.|+|.+|+||||||.+++........   .-..++|++....++...+.. ++..++...            ....
T Consensus       122 G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~~e  200 (343)
T 1v5w_A          122 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYTSE  200 (343)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCCHH
Confidence            368999999999999999998876211100   123588999888777766543 344444321            1122


Q ss_pred             cHHHHHHHHHHHHhc--CCcEEEEEecC
Q 038454          195 DKVSRARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       195 ~~~~~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                      ........+.+.+..  .+.-+||+|.+
T Consensus       201 ~~~~ll~~l~~~i~~~~~~~~lvVIDsl  228 (343)
T 1v5w_A          201 HQMELLDYVAAKFHEEAGIFKLLIIDSI  228 (343)
T ss_dssp             HHHHHHHHHHHHHHHSCSSEEEEEEETS
T ss_pred             HHHHHHHHHHHHHHhcCCCccEEEEech
Confidence            223444445555543  36779999997

>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=97.24  E-value=0.0015  Score=55.34  Aligned_cols=83  Identities=16%  Similarity=0.122  Sum_probs=50.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhc-----------CCC-CCCccHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALK-----------LSL-TEDEDKV  197 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~-----------~~~-~~~~~~~  197 (359)
                      -.++.|+|.+|+|||||+..++..   .   -..++|++....++...+.. +...++           ... .......
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~~---~---~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGLL---S---GKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQR   92 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHH---H---CSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH---c---CCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHH
Confidence            368999999999999999999862   1   12478888766556554443 332222           111 1112223


Q ss_pred             HHHHHHHHHHhcCCcEEEEEecC
Q 038454          198 SRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       198 ~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      .....+...+.. +.-+||+|.+
T Consensus        93 ~~~~~~~~l~~~-~~~lliiD~~  114 (220)
T 2cvh_A           93 RVIGSLKKTVDS-NFALVVVDSI  114 (220)
T ss_dssp             HHHHHHHHHCCT-TEEEEEEECC
T ss_pred             HHHHHHHHHhhc-CCCEEEEcCc
Confidence            344444444433 5789999997

>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=97.21  E-value=0.001  Score=60.34  Aligned_cols=90  Identities=13%  Similarity=0.175  Sum_probs=56.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccc-----------cCCC--ccEEEEEeCCCcCHHHHHHHHHHHhcCCC------
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEE-----------TNEF--SDVIWVTVSQPLDLVKLQAEIAMALKLSL------  190 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~-----------~~~F--~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------  190 (359)
                      -.++.|+|.+|+|||+||.+++......           .+..  ..++|++....++..++.. ++..++.+.      
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~  176 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLDN  176 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhcC
Confidence            3689999999999999999988651101           0111  3588999888777776654 345554321      


Q ss_pred             ---CCCccHH---HHHHHHHHHHhc-CCcEEEEEecC
Q 038454          191 ---TEDEDKV---SRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       191 ---~~~~~~~---~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                         ....+.+   .....+.+.+.. .+.-+||+|.+
T Consensus       177 l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl  213 (322)
T 2i1q_A          177 TFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSL  213 (322)
T ss_dssp             EEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECS
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECc
Confidence               0112222   344455555554 36679999997

>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=97.21  E-value=0.00093  Score=61.41  Aligned_cols=83  Identities=14%  Similarity=0.148  Sum_probs=53.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -.++.|+|.+|+||||||.+++.... . . =..++|++....++..     .+..++....     ...+.++....+.
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~~~-~-~-g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~  132 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVANAQ-A-A-GGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  132 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH-H-T-TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-h-C-CCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            46899999999999999999987622 1 1 1348899887766653     2445553221     1224444444444


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ......+.-+||+|.+
T Consensus       133 ~l~~~~~~~lIVIDsl  148 (349)
T 2zr9_A          133 MLVRSGALDIIVIDSV  148 (349)
T ss_dssp             HHHTTTCCSEEEEECG
T ss_pred             HHHhcCCCCEEEEcCh
Confidence            4443335679999997

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.20  E-value=0.00095  Score=57.05  Aligned_cols=45  Identities=22%  Similarity=0.219  Sum_probs=30.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      .+++|+|.+|+|||||++.++..... .+  ..++|++...  ....+..
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~~~-~~--~~v~~~~~~~--~~~~~~~   68 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKGLR-DG--DPCIYVTTEE--SRDSIIR   68 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHH-HT--CCEEEEESSS--CHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHH-CC--CeEEEEEccc--CHHHHHH
Confidence            68999999999999999999866221 11  2366666433  3444433

>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=97.18  E-value=0.0012  Score=61.14  Aligned_cols=83  Identities=17%  Similarity=0.203  Sum_probs=54.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -.++.|.|.+|+||||||.+++.... . .. ..++|++....++..     .+..++.+..     ...+.++....+.
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~-~-~g-~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~  145 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQ-K-AG-GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  145 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH-H-TT-CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHH-H-CC-CeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHH
Confidence            36899999999999999999987732 1 11 358899988766654     2444544211     1234555555555


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ........-+||+|.+
T Consensus       146 ~l~~~~~~~lVVIDsl  161 (366)
T 1xp8_A          146 LLVRSGAIDVVVVDSV  161 (366)
T ss_dssp             HHHTTTCCSEEEEECT
T ss_pred             HHHhcCCCCEEEEeCh
Confidence            5554435569999998

>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=97.09  E-value=0.0013  Score=60.50  Aligned_cols=83  Identities=13%  Similarity=0.202  Sum_probs=52.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -.++.|.|.+|+||||||.+++.... ..+  ..++|++....++...     +..++....     ...+.+.....+.
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~~~-~~g--~~vlyid~E~s~~~~~-----a~~~g~~~~~l~i~~~~~~e~~~~~~~  134 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAAAQ-REG--KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  134 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHH-HTT--CCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-HCC--CeEEEEeCCCCccHHH-----HHHcCCChhheeeeCCCCHHHHHHHHH
Confidence            46899999999999999999987722 111  2588999877766432     344544221     1123444444444


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ......+.-+||+|.+
T Consensus       135 ~l~~~~~~~lVVIDsl  150 (356)
T 1u94_A          135 ALARSGAVDVIVVDSV  150 (356)
T ss_dssp             HHHHHTCCSEEEEECG
T ss_pred             HHHhccCCCEEEEcCH
Confidence            3333325568999997

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.01  E-value=0.0012  Score=59.03  Aligned_cols=25  Identities=24%  Similarity=0.448  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++.+.++|++|+|||+||+.+++.
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4568899999999999999999998

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=96.97  E-value=0.0043  Score=58.52  Aligned_cols=26  Identities=27%  Similarity=0.286  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+.+|.++|.+|+||||++..++..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l  124 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYF  124 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHH
Confidence            46899999999999999999998763

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.92  E-value=0.001  Score=56.28  Aligned_cols=37  Identities=19%  Similarity=0.245  Sum_probs=29.5

Q ss_pred             HHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          117 IVKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       117 ~~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|.+.+..  +...+|+|+|++|+|||||++.+...
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45566666653  45679999999999999999999877

>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=96.85  E-value=0.00051  Score=60.46  Aligned_cols=48  Identities=19%  Similarity=0.212  Sum_probs=34.6

Q ss_pred             cccccccch-HHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMG---------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..++|.+. .+.+.+++.++..         ...+-+.|+|++|+|||+||+.+++.
T Consensus        10 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           10 FKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             STTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHH
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            356899887 4445555554432         22345889999999999999999987

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.85  E-value=0.0052  Score=52.32  Aligned_cols=45  Identities=22%  Similarity=0.302  Sum_probs=30.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc-c-cccC-CCccEEEEEeCCCcCH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP-Q-EETN-EFSDVIWVTVSQPLDL  175 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~-~-~~~~-~F~~~~wv~~~~~~~~  175 (359)
                      .+++|+|++|+|||||++.++... . .... .-...+|+........
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~   73 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRP   73 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCH
Confidence            689999999999999999998641 1 1111 1234778776554443

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=96.85  E-value=0.00071  Score=60.67  Aligned_cols=45  Identities=24%  Similarity=0.301  Sum_probs=34.5

Q ss_pred             ccccccchHHHHHHHHHHhcC--------------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMG--------------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .++.+...+..              .....+.++|++|+|||++|+.+++.
T Consensus        15 ~~i~G~~~--~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           15 QHIIGQAD--AKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             TTCCSCHH--HHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhcCChHH--HHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46889866  66666655532              23467889999999999999999987

>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=96.79  E-value=0.0016  Score=57.21  Aligned_cols=45  Identities=22%  Similarity=0.273  Sum_probs=30.1

Q ss_pred             ccccccchHHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .+..+.+.+.  ......|.|+|.+|+|||+||+.+++.
T Consensus         6 ~~~ig~~~--~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A            6 DNLLGEAN--SFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             ----CCCH--HHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHT
T ss_pred             ccceeCCH--HHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            45788876  5555544332  122356889999999999999999987

>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=96.78  E-value=0.0078  Score=58.68  Aligned_cols=45  Identities=22%  Similarity=0.273  Sum_probs=31.6

Q ss_pred             ccccccchHHHHHHHHHHh------cCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDL------MGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l------~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  ....+...+      .......+.++|++|+||||||+.++..
T Consensus        81 ~di~G~~~--vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~  131 (543)
T 3m6a_A           81 EEHHGLEK--VKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKS  131 (543)
T ss_dssp             HHCSSCHH--HHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHH
T ss_pred             HHhccHHH--HHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            45778755  333332222      1224568999999999999999999987

>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=96.77  E-value=0.0041  Score=55.68  Aligned_cols=86  Identities=15%  Similarity=0.120  Sum_probs=46.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      ...+++++|.+|+||||++..++..+ ...... .+..+.... .....+.+.......+.+.....+.......+. .+
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l-~~~~G~-~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~-~~  180 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAIS-MLEKHK-KIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKE-LF  180 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH-HHTTCC-CEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHH-HG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HHhcCC-EEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHH-Hh
Confidence            35799999999999999999998773 211222 345555432 223333444444444433222223333322232 33


Q ss_pred             hcCCcEEEEEec
Q 038454          208 KAKKKFVLILDD  219 (359)
Q Consensus       208 ~~~k~~LlVlDd  219 (359)
                       . +.=++++|-
T Consensus       181 -~-~~dlvIiDT  190 (296)
T 2px0_A          181 -S-EYDHVFVDT  190 (296)
T ss_dssp             -G-GSSEEEEEC
T ss_pred             -c-CCCEEEEeC
Confidence             3 445777884

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.74  E-value=0.0064  Score=54.96  Aligned_cols=50  Identities=12%  Similarity=0.068  Sum_probs=34.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -.++.|.|.+|+||||||.+++... .. .. ..++|++..  .+..++...++.
T Consensus        68 G~l~li~G~pG~GKTtl~l~ia~~~-a~-~g-~~vl~~slE--~s~~~l~~R~~~  117 (315)
T 3bh0_A           68 RNFVLIAARPSMGKTAFALKQAKNM-SD-ND-DVVNLHSLE--MGKKENIKRLIV  117 (315)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHH-HT-TT-CEEEEEESS--SCHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH-HH-cC-CeEEEEECC--CCHHHHHHHHHH
Confidence            3689999999999999999998762 12 22 457787765  345555555443

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.73  E-value=0.0058  Score=57.11  Aligned_cols=90  Identities=11%  Similarity=0.143  Sum_probs=52.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccc--cC-CCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC---------CCccH-
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEE--TN-EFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT---------EDEDK-  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~--~~-~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~---------~~~~~-  196 (359)
                      -.++.|+|.+|+|||||+..++-.....  .+ .-..++|++....+....+ ..+++.++....         ...+. 
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~~  256 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNAD  256 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCChH
Confidence            3689999999999999999775321110  11 2235888887766665544 335555543210         11122 


Q ss_pred             --HHHHHHHHHHHhcCCcEEEEEecC
Q 038454          197 --VSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       197 --~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                        ......+...+...+.-+||+|.+
T Consensus       257 ~~~~~l~~~~~~l~~~~~~llVIDs~  282 (400)
T 3lda_A          257 HQLRLLDAAAQMMSESRFSLIVVDSV  282 (400)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEecch
Confidence              233344444444446789999997

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=96.71  E-value=0.0008  Score=62.06  Aligned_cols=100  Identities=13%  Similarity=0.145  Sum_probs=52.2

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcC-HHHHHHHHHHHhcCCCCCCccHH
Q 038454          120 KVWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLD-LVKLQAEIAMALKLSLTEDEDKV  197 (359)
Q Consensus       120 ~l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~~~~~  197 (359)
                      +.++.+.. ..-..++|+|.+|+|||||++.+.+.+......+. ++++-+++... ..++.+.+-..+-....+.....
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~~Ev~~~~~~~~~~vV~atadep~~~  241 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERPEEVTEMQRLVKGEVVASTFDEPASR  241 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCHHHHHHHHTTCSSEEEEECTTSCHHH
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCChHHHHHHHHHhCeEEEEeCCCCCHHH
Confidence            34444432 33468999999999999999998876322223344 34566776543 23332222000000111111111


Q ss_pred             HH-----HHHHHHHHhc-CCcEEEEEecC
Q 038454          198 SR-----ARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 ~~-----~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ..     .-...+++.. ++.+||++||+
T Consensus       242 r~~~a~~alt~AEyfrd~G~dVLil~Dsl  270 (422)
T 3ice_A          242 HVQVAEMVIEKAKRLVEHKKDVIILLDSI  270 (422)
T ss_dssp             HHHHHHHHHHHHHHHHHTSCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCEEEEEeCc
Confidence            11     1112333332 49999999998

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.68  E-value=0.0083  Score=56.51  Aligned_cols=26  Identities=23%  Similarity=0.111  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...+|.++|.+|+||||++..++..+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999999998763

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.66  E-value=0.00095  Score=54.69  Aligned_cols=23  Identities=26%  Similarity=0.304  Sum_probs=21.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.|.|++|+||||+|+.+.+.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999999987

>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=96.64  E-value=0.0083  Score=61.01  Aligned_cols=45  Identities=18%  Similarity=0.271  Sum_probs=33.0

Q ss_pred             ccccccchHHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMG---------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .+..+...+..         .....+.++|++|+|||++|+.+++.
T Consensus       458 ~~v~g~~~--~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~  511 (758)
T 1r6b_X          458 MLVFGQDK--AIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA  511 (758)
T ss_dssp             TTSCSCHH--HHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             hhccCHHH--HHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHH
Confidence            45788865  55555554421         12347999999999999999999987

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.62  E-value=0.0039  Score=55.20  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.++|++|+||||||+.++..
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999999987

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.60  E-value=0.0011  Score=53.87  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|+|.|++|+||||+|+.+ ..
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~   23 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KE   23 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HH
T ss_pred             cEEEEECCCCCCHHHHHHHH-HH
Confidence            47999999999999999999 54

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.60  E-value=0.034  Score=52.83  Aligned_cols=48  Identities=19%  Similarity=0.160  Sum_probs=32.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  182 (359)
                      .++.|.|.+|+||||||..++.... .... ..++|++...  +..++...+
T Consensus       204 ~liiI~G~pG~GKTtl~l~ia~~~~-~~~g-~~Vl~~s~E~--s~~~l~~r~  251 (454)
T 2r6a_A          204 DLIIVAARPSVGKTAFALNIAQNVA-TKTN-ENVAIFSLEM--SAQQLVMRM  251 (454)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH-HHSS-CCEEEEESSS--CHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH-HhCC-CcEEEEECCC--CHHHHHHHH
Confidence            6899999999999999999988732 1111 2477777543  334554444

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.59  E-value=0.0011  Score=53.80  Aligned_cols=23  Identities=17%  Similarity=0.094  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|+|.|++|+||||+|+.+...
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999887

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.59  E-value=0.02  Score=54.10  Aligned_cols=26  Identities=19%  Similarity=0.216  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+++|.++|.+|+||||++..++..+
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999998773

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.57  E-value=0.0024  Score=53.69  Aligned_cols=37  Identities=14%  Similarity=0.304  Sum_probs=29.3

Q ss_pred             HHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          117 IVKKVWEDLMG---DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       117 ~~~~l~~~l~~---~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++.|.+.+..   ....+|+|.|.+|+|||||++.+...
T Consensus         6 ~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~   45 (201)
T 1rz3_A            6 RIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQT   45 (201)
T ss_dssp             HHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45566665543   34579999999999999999999876

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.57  E-value=0.0099  Score=53.44  Aligned_cols=88  Identities=17%  Similarity=0.144  Sum_probs=47.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhcCCC---CCCccHHHH-HHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALKLSL---TEDEDKVSR-ARRL  203 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~---~~~~~~~~~-~~~l  203 (359)
                      ...+|.|+|.+|+||||++..++..+. . .. ..+.++..... ....+.+...+..++.+.   ....+.... ...+
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~-~-~g-~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al  179 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFV-D-EG-KSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAV  179 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH-H-TT-CCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHH-h-cC-CEEEEEccccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            357999999999999999999998732 1 11 12455544321 112223344455554321   112222222 2334


Q ss_pred             HHHHhcCCcEEEEEecC
Q 038454          204 LGKLKAKKKFVLILDDI  220 (359)
Q Consensus       204 ~~~l~~~k~~LlVlDdv  220 (359)
                      ...+.. ..-++++|..
T Consensus       180 ~~a~~~-~~dvvIiDtp  195 (306)
T 1vma_A          180 AHALAR-NKDVVIIDTA  195 (306)
T ss_dssp             HHHHHT-TCSEEEEEEC
T ss_pred             HHHHhc-CCCEEEEECC
Confidence            444544 4457788864

>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=96.56  E-value=0.0021  Score=61.27  Aligned_cols=48  Identities=25%  Similarity=0.297  Sum_probs=35.8

Q ss_pred             cccccccch-HHHHHHHHHHhcCCC--ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMGDK--VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~~~--~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|.+. .+.+..++.++..+.  .+-+.++|++|+|||+||+.+++.
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~   86 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQE   86 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHH
Confidence            367999976 333345555555543  357999999999999999999987

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=96.54  E-value=0.0053  Score=58.19  Aligned_cols=88  Identities=16%  Similarity=0.237  Sum_probs=50.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHHHH---
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKVSR---  199 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~~~---  199 (359)
                      ..++|+|.+|+|||||+..+.... ... .-+..+++.+++.. ...++..++...-..       ...........   
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~-~~~-~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~  229 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNI-AQE-HGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVA  229 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHH-HHH-TCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhh-hhc-cCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHH
Confidence            358999999999999999998772 221 22345667777654 344555555432000       01111111111   


Q ss_pred             --HHHHHHHHhc--CCcEEEEEecC
Q 038454          200 --ARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       200 --~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                        .-.+.+++..  ++++||++||+
T Consensus       230 ~~~ltiAEyFrd~~G~~VLl~~D~i  254 (473)
T 1sky_E          230 LTGLTMAEYFRDEQGQDGLLFIDNI  254 (473)
T ss_dssp             HHHHHHHHHHHHHSCCEEEEEEECT
T ss_pred             HHHHHHHHHHHHhcCCcEEEEeccH
Confidence              1234444442  49999999999

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.53  E-value=0.0013  Score=53.80  Aligned_cols=22  Identities=27%  Similarity=0.246  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5799999999999999999987

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.53  E-value=0.0077  Score=51.80  Aligned_cols=38  Identities=18%  Similarity=0.107  Sum_probs=28.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      .++.|.|.+|+||||||.+++....  .. =..++|++...
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~~~~--~~-~~~v~~~~~e~   61 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLWNGL--KM-GEPGIYVALEE   61 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHH--HT-TCCEEEEESSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH--hc-CCeEEEEEccC
Confidence            6899999999999999998876622  11 13477777554

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=96.52  E-value=0.0012  Score=60.25  Aligned_cols=46  Identities=17%  Similarity=0.297  Sum_probs=33.6

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..++|.+.  .+..+...+......-+.|+|.+|+|||+||+.+++.
T Consensus        23 f~~i~G~~~--~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~   68 (350)
T 1g8p_A           23 FSAIVGQED--MKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAAL   68 (350)
T ss_dssp             GGGSCSCHH--HHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             chhccChHH--HHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHh
Confidence            356899865  4444444443333445999999999999999999987

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.51  E-value=0.031  Score=52.96  Aligned_cols=51  Identities=14%  Similarity=0.027  Sum_probs=35.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -.++.|.|.+|+||||||..++.... .... ..++|++...  +..++...++.
T Consensus       200 G~l~ii~G~pg~GKT~lal~ia~~~a-~~~g-~~vl~~slE~--~~~~l~~R~~~  250 (444)
T 2q6t_A          200 GSLNIIAARPAMGKTAFALTIAQNAA-LKEG-VGVGIYSLEM--PAAQLTLRMMC  250 (444)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHH-HTTC-CCEEEEESSS--CHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHH-HhCC-CeEEEEECCC--CHHHHHHHHHH
Confidence            36899999999999999999988732 1111 2477776643  45566655544

>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=96.50  E-value=0.004  Score=54.21  Aligned_cols=47  Identities=23%  Similarity=0.304  Sum_probs=33.0

Q ss_pred             ccccccch-HHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENT-KKIVKKVWEDLMGD---------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+. ...+..+...+...         -.+-+.|+|++|+||||||+.+++.
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            56888765 34445555444321         1223899999999999999999987

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.48  E-value=0.009  Score=54.43  Aligned_cols=49  Identities=12%  Similarity=0.108  Sum_probs=34.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      .++.|.|.+|+||||||..++.... . . =..++|++.-  .+..++...++.
T Consensus        47 ~LiiIaG~pG~GKTt~al~ia~~~a-~-~-g~~Vl~fSlE--ms~~ql~~Rlls   95 (338)
T 4a1f_A           47 SLVIIGARPSMGKTSLMMNMVLSAL-N-D-DRGVAVFSLE--MSAEQLALRALS   95 (338)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHH-H-T-TCEEEEEESS--SCHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH-H-c-CCeEEEEeCC--CCHHHHHHHHHH
Confidence            6899999999999999999988732 2 1 1246777653  345555555544

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.48  E-value=0.0015  Score=54.17  Aligned_cols=24  Identities=25%  Similarity=0.257  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+++|+|++|+|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999876

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=96.47  E-value=0.0095  Score=56.64  Aligned_cols=89  Identities=19%  Similarity=0.235  Sum_probs=58.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcCC-------C------CCCcc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKLS-------L------TEDED  195 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~------~~~~~  195 (359)
                      -..++|.|.+|+|||+|+..+.+.+  .+.+-+.++++-+++.. ...++.+++...=...       .      ..+..
T Consensus       165 Gqr~gIfgg~GvGKT~L~~~l~~~~--a~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~p  242 (498)
T 1fx0_B          165 GGKIGLFGGAGVGKTVLIMELINNI--AKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEP  242 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHHHT--TTTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTSC
T ss_pred             CCeEEeecCCCCCchHHHHHHHHHH--HhhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCCC
Confidence            3569999999999999999998873  23345678888888765 4566777776531111       0      00111


Q ss_pred             H------HHHHHHHHHHHhc--CCcEEEEEecC
Q 038454          196 K------VSRARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       196 ~------~~~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                      .      ....-.+.++++.  ++.+||++||+
T Consensus       243 ~~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsi  275 (498)
T 1fx0_B          243 PGARMRVGLTALTMAEYFRDVNEQDVLLFIDNI  275 (498)
T ss_dssp             HHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECS
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccH
Confidence            1      1223344566665  59999999999

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.47  E-value=0.0017  Score=54.56  Aligned_cols=28  Identities=29%  Similarity=0.378  Sum_probs=24.4

Q ss_pred             cCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          126 MGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       126 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ......+|+|+|++|+|||||++.+...
T Consensus        21 ~~~~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           21 LDQKGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             HTSCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3345579999999999999999999987

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.44  E-value=0.0014  Score=53.46  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|+|+|++|+|||||++.++..
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999987

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.44  E-value=0.0016  Score=54.67  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|.|+|++|+||||+++.++..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~   48 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARK   48 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999987

>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=96.43  E-value=0.00078  Score=57.73  Aligned_cols=85  Identities=15%  Similarity=-0.019  Sum_probs=45.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCC--CccHHHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTE--DEDKVSRARRLLGKL  207 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~~l~~~l  207 (359)
                      -.++.++|..|+||||++..++++. . ..... ++.+.......   ....+++.++.....  .....+....+.+.+
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~-~-~~g~k-Vli~~~~~d~r---~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~   85 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRL-E-YADVK-YLVFKPKIDTR---SIRNIQSRTGTSLPSVEVESAPEILNYIMSNS   85 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHH-H-HTTCC-EEEEEECCCGG---GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTT
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHH-H-hcCCE-EEEEEeccCch---HHHHHHHhcCCCccccccCCHHHHHHHHHHHh
Confidence            4689999999999999999998883 2 22222 34443322211   112334444432221  112233333333333


Q ss_pred             hcCCcEEEEEecC
Q 038454          208 KAKKKFVLILDDI  220 (359)
Q Consensus       208 ~~~k~~LlVlDdv  220 (359)
                      ..++.-+||+|.+
T Consensus        86 ~~~~~dvViIDEa   98 (223)
T 2b8t_A           86 FNDETKVIGIDEV   98 (223)
T ss_dssp             SCTTCCEEEECSG
T ss_pred             hCCCCCEEEEecC
Confidence            3323459999998

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.42  E-value=0.0018  Score=54.41  Aligned_cols=26  Identities=27%  Similarity=0.487  Sum_probs=22.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+|+|+|+.|+|||||++.++..
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            34579999999999999999999887

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.42  E-value=0.0017  Score=53.57  Aligned_cols=24  Identities=29%  Similarity=0.423  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.|.|+|++|+||||+|+.++..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~   28 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKL   28 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999999999987

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.40  E-value=0.0017  Score=53.48  Aligned_cols=23  Identities=17%  Similarity=0.380  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|++|+|||||++.+...
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            58999999999999999999876

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=96.38  E-value=0.02  Score=54.30  Aligned_cols=89  Identities=18%  Similarity=0.222  Sum_probs=56.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcCC------------CCCCccH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKLS------------LTEDEDK  196 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~------------~~~~~~~  196 (359)
                      -..++|.|.+|+|||+|+..+.+.+  .+.+-+.++++-+++.. ...++.+++...=...            ...+...
T Consensus       153 GQr~~Ifgg~G~GKT~L~~~i~~~~--~~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvvV~~t~d~p~  230 (482)
T 2ck3_D          153 GGKIGLFGGAGVGKTVLIMELINNV--AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPP  230 (482)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHT--TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCH
T ss_pred             CCeeeeecCCCCChHHHHHHHHHhh--HhhCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEEEEECCCCCH
Confidence            3579999999999999999998873  22344567778887765 4566777776542211            0011111


Q ss_pred             H------HHHHHHHHHHhc--CCcEEEEEecC
Q 038454          197 V------SRARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       197 ~------~~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                      .      ...-.+.++++.  ++.+||++||+
T Consensus       231 ~~r~~~~~~a~tiAEyfrd~~G~dVLll~Dsi  262 (482)
T 2ck3_D          231 GARARVALTGLTVAEYFRDQEGQDVLLFIDNI  262 (482)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCSCEEEEEECT
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCcEEEEeccH
Confidence            1      122234455554  59999999999

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.37  E-value=0.016  Score=53.05  Aligned_cols=90  Identities=22%  Similarity=0.320  Sum_probs=51.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcc-c-ccCCCc-cEEEEEeCCCcCHHHHHHHHHHHhcCCC------------CCCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQ-E-ETNEFS-DVIWVTVSQPLDLVKLQAEIAMALKLSL------------TEDE  194 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~-~-~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~------------~~~~  194 (359)
                      -.++.|+|++|+|||||+..++.... . ..+... .++|++....+....+ ..+...++...            ....
T Consensus       131 G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~~~  209 (349)
T 1pzn_A          131 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFNSN  209 (349)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCSHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCChH
Confidence            47999999999999999999987621 0 011112 3588887665443333 23333332210            0011


Q ss_pred             cHHHHHHHHHHHHhc-----CCcEEEEEecC
Q 038454          195 DKVSRARRLLGKLKA-----KKKFVLILDDI  220 (359)
Q Consensus       195 ~~~~~~~~l~~~l~~-----~k~~LlVlDdv  220 (359)
                      .....+..+...+..     .+.-+||+|.+
T Consensus       210 ~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~  240 (349)
T 1pzn_A          210 HQMLLVQQAEDKIKELLNTDRPVKLLIVDSL  240 (349)
T ss_dssp             HHHHHHHHHHHHHHHSSSSSSCEEEEEEETS
T ss_pred             HHHHHHHHHHHHHHHhccccCCCCEEEEeCc
Confidence            122334444444432     36789999998

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.36  E-value=0.0016  Score=59.18  Aligned_cols=43  Identities=16%  Similarity=0.317  Sum_probs=35.0

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|++.  .+..+...+..+  .-+.++|++|+|||+||+.+++.
T Consensus        27 ~~i~g~~~--~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~   69 (331)
T 2r44_A           27 KVVVGQKY--MINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKT   69 (331)
T ss_dssp             TTCCSCHH--HHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHH
T ss_pred             cceeCcHH--HHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHH
Confidence            46888865  777777766654  36899999999999999999987

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.32  E-value=0.0032  Score=53.62  Aligned_cols=36  Identities=22%  Similarity=0.238  Sum_probs=28.2

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+...+.......|+|+|.+|+|||||+..+...
T Consensus        26 a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           26 ADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             HHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            334444444556789999999999999999999876

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.31  E-value=0.0084  Score=66.22  Aligned_cols=84  Identities=13%  Similarity=0.180  Sum_probs=56.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRL  203 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l  203 (359)
                      ..++|.|+|++|+|||+||.++... ..  ..=..++|+++...++...     ++.++.+..     .....+.....+
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~e-a~--~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~ 1497 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAA-AQ--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1497 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHH-HH--TTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH-HH--HcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHH
Confidence            4579999999999999999999877 22  2222478888877766665     445552211     122344555555


Q ss_pred             HHHHhcCCcEEEEEecC
Q 038454          204 LGKLKAKKKFVLILDDI  220 (359)
Q Consensus       204 ~~~l~~~k~~LlVlDdv  220 (359)
                      .+..+..+.-+||+|.+
T Consensus      1498 ~~lvr~~~~~lVVIDsi 1514 (2050)
T 3cmu_A         1498 DALARSGAVDVIVVDSV 1514 (2050)
T ss_dssp             HHHHHHTCCSEEEESCG
T ss_pred             HHHHhcCCCCEEEEcCh
Confidence            55555547789999998

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.31  E-value=0.0052  Score=54.34  Aligned_cols=48  Identities=23%  Similarity=0.282  Sum_probs=33.6

Q ss_pred             cccccccch-HHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMGD---------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..++|.+. ...+..+...+...         -.+-+.|+|++|+||||||+.+++.
T Consensus        39 ~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           39 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             GGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHH
Confidence            457888876 34445555444321         1123899999999999999999987

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.31  E-value=0.0018  Score=54.31  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|.|++|+||||+|+.+...
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999887

>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=96.30  E-value=0.0019  Score=53.61  Aligned_cols=23  Identities=22%  Similarity=0.426  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.|+|++|+|||||++.+..+
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            56899999999999999999876

>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=96.27  E-value=0.0028  Score=53.58  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|+|++|+|||||++.+...
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhh
Confidence            4578999999999999999999987

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.27  E-value=0.0022  Score=53.00  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+|.|.|++|+||||+|+.+.+.+
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            479999999999999999999873

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.26  E-value=0.0024  Score=52.87  Aligned_cols=24  Identities=25%  Similarity=0.212  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~   28 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATG   28 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999887

>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=96.26  E-value=0.042  Score=49.79  Aligned_cols=58  Identities=21%  Similarity=0.267  Sum_probs=36.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKL  188 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~  188 (359)
                      ....+++|+|+.|+||||+++.++..+ .. ... .+.++...- .....+.+......++.
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l-~~-~~g-~V~l~g~D~~r~~a~eql~~~~~~~gv  185 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWL-KN-HGF-SVVIAASDTFRAGAIEQLEEHAKRIGV  185 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHH-HH-TTC-CEEEEEECCSSTTHHHHHHHHHHHTTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH-Hh-cCC-EEEEEeecccccchHHHHHHHHHHcCc
Confidence            346799999999999999999998873 21 122 244443322 23344445555566553

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=96.25  E-value=0.015  Score=54.64  Aligned_cols=25  Identities=20%  Similarity=0.096  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..++.++|.+|+||||++..++..+
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999998873

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.25  E-value=0.0028  Score=53.75  Aligned_cols=37  Identities=24%  Similarity=0.341  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          117 IVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       117 ~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.+...+.....++|+|+|.+|+|||||+..+...
T Consensus        17 ~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           17 LAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             HHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            3444555554556789999999999999999999876

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.25  E-value=0.0049  Score=55.01  Aligned_cols=27  Identities=26%  Similarity=0.057  Sum_probs=23.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +...+|+|.|.+|+||||||+.+...+
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999988773

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.24  E-value=0.0038  Score=64.40  Aligned_cols=44  Identities=18%  Similarity=0.363  Sum_probs=32.4

Q ss_pred             cccccchHHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENTKKIVKKVWEDLMG-------D--KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|.+.  .+..+...+..       .  ....+.|+|++|+|||++|+.+++.
T Consensus       559 ~viG~~~--a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~  611 (854)
T 1qvr_A          559 RVVGQDE--AIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT  611 (854)
T ss_dssp             HSCSCHH--HHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             ccCCcHH--HHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            5788866  55555554421       1  2257999999999999999999987

>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=96.24  E-value=0.0027  Score=53.04  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=22.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +...+|+|+|+.|+||||+++.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34678999999999999999998864

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.23  E-value=0.0023  Score=52.58  Aligned_cols=24  Identities=25%  Similarity=0.461  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|.|+|++|+||||+++.+.+.
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~   34 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASK   34 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHH
Confidence            467899999999999999999877

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.22  E-value=0.0025  Score=52.66  Aligned_cols=23  Identities=22%  Similarity=0.250  Sum_probs=21.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.|.|++|+||||+++.+...
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~   26 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDN   26 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999987

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.22  E-value=0.0028  Score=61.06  Aligned_cols=43  Identities=14%  Similarity=0.196  Sum_probs=35.1

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .+..+...+..+  .-|.++|++|+|||+||+.+++.
T Consensus        22 ~~ivGq~~--~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~   64 (500)
T 3nbx_X           22 KGLYERSH--AIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFA   64 (500)
T ss_dssp             TTCSSCHH--HHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGG
T ss_pred             hhhHHHHH--HHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHH
Confidence            45888865  777777666655  46899999999999999999987

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.22  E-value=0.0029  Score=52.28  Aligned_cols=26  Identities=27%  Similarity=0.302  Sum_probs=23.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...+|.|.|++|+||||+++.++..+
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999999873

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.20  E-value=0.0041  Score=57.34  Aligned_cols=44  Identities=20%  Similarity=0.239  Sum_probs=32.8

Q ss_pred             cccccchHHHHHHHHHHhc-------------C--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENTKKIVKKVWEDLM-------------G--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l~-------------~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|.+.  .++.+...+.             .  .....+.++|++|+|||++|+.+++.
T Consensus        16 ~i~G~~~--~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~   74 (363)
T 3hws_A           16 YVIGQEQ--AKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARL   74 (363)
T ss_dssp             HCCSCHH--HHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             hccCHHH--HHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4688865  5666555551             1  13457999999999999999999987

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.20  E-value=0.0033  Score=51.98  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|++|+||||+++.+...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999876

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.19  E-value=0.0027  Score=51.87  Aligned_cols=24  Identities=21%  Similarity=0.371  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|+|++|+||||+++.+...
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~   31 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQ   31 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            468999999999999999999876

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.18  E-value=0.0027  Score=53.16  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||++.+...
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            68999999999999999999875

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.14  E-value=0.0026  Score=53.53  Aligned_cols=24  Identities=21%  Similarity=0.488  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|+|++|+|||||++.+...
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999887

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.14  E-value=0.0029  Score=52.35  Aligned_cols=24  Identities=25%  Similarity=0.189  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|.|++|+||||+|+.+...
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~   26 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEK   26 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            367999999999999999999876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.13  E-value=0.0026  Score=52.05  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.|.|++|+||||+|+.++..
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~   27 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKD   27 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            36899999999999999999987

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.13  E-value=0.0031  Score=53.22  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|+|+.|+|||||++.+...
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            4468999999999999999999876

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.12  E-value=0.019  Score=51.33  Aligned_cols=88  Identities=18%  Similarity=0.180  Sum_probs=49.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC-cCHHHHHHHHHHHhcCCC---CCCccHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP-LDLVKLQAEIAMALKLSL---TEDEDKVSRARRLLG  205 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~---~~~~~~~~~~~~l~~  205 (359)
                      ..+++++|.+|+||||++..++..+. . .. ..+.++..... ....+.+.......+.+.   ....+.........+
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~-~-~g-~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~  174 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYK-K-KG-FKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVE  174 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH-H-TT-CCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-H-CC-CeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHH
Confidence            46899999999999999999987732 1 11 23555554332 223333444455554421   112345555555555


Q ss_pred             HHhcCCcEEEEEecC
Q 038454          206 KLKAKKKFVLILDDI  220 (359)
Q Consensus       206 ~l~~~k~~LlVlDdv  220 (359)
                      .+..+.-=++++|-.
T Consensus       175 ~~~~~~~D~ViIDTp  189 (297)
T 1j8m_F          175 KFLSEKMEIIIVDTA  189 (297)
T ss_dssp             HHHHTTCSEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            554213336777763

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.12  E-value=0.029  Score=56.94  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+-|.++|++|+|||.||+++++.
T Consensus       511 ~~gvLl~GPPGtGKT~lAkaiA~e  534 (806)
T 3cf2_A          511 SKGVLFYGPPGCGKTLLAKAIANE  534 (806)
T ss_dssp             CSCCEEESSTTSSHHHHHHHHHHT
T ss_pred             CceEEEecCCCCCchHHHHHHHHH
Confidence            456889999999999999999998

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.12  E-value=0.0025  Score=52.54  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~   25 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKA   25 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999886

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.11  E-value=0.0031  Score=51.09  Aligned_cols=24  Identities=17%  Similarity=0.365  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|.|++|+||||+|+.+...
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~   30 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLA   30 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999887

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.11  E-value=0.0032  Score=52.24  Aligned_cols=24  Identities=29%  Similarity=0.224  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|.|++|+||||+|+.+++.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~   32 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQK   32 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999876

>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=96.10  E-value=0.0031  Score=52.22  Aligned_cols=23  Identities=17%  Similarity=0.309  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|++|+|||||++.+...
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            47899999999999999999764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.10  E-value=0.0031  Score=52.69  Aligned_cols=22  Identities=36%  Similarity=0.668  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|.|+.|+||||+++.+.+.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~   23 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKK   23 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            6899999999999999999987

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.09  E-value=0.0053  Score=56.12  Aligned_cols=37  Identities=19%  Similarity=0.202  Sum_probs=28.1

Q ss_pred             HHHHHHHHh----cCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          117 IVKKVWEDL----MGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       117 ~~~~l~~~l----~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.++..+    ..+....|.|+|++|+||||+++.++..
T Consensus         7 L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~   47 (359)
T 2ga8_A            7 LADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQI   47 (359)
T ss_dssp             HHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHH
Confidence            344444444    3556677999999999999999988876

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.09  E-value=0.0054  Score=54.67  Aligned_cols=25  Identities=28%  Similarity=0.246  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|.|.|++|+||||+|+.+...
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~   56 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEE   56 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.08  E-value=0.0032  Score=52.76  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|+|++|+||||+++.+...
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            368999999999999999999887

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.07  E-value=0.0054  Score=56.80  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+.++|++|+|||++|+.+++.
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHH
Confidence            356899999999999999999987

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.07  E-value=0.0038  Score=52.30  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|.|++|+||||+|+.+++.
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999876

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.07  E-value=0.046  Score=52.51  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=21.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|+|+|.+|+||||++..++..
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~  124 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYY  124 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999999876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.07  E-value=0.0031  Score=55.11  Aligned_cols=23  Identities=22%  Similarity=0.189  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.|.|++|+||||||+.++..
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhc
Confidence            47899999999999999999876

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.06  E-value=0.0033  Score=52.72  Aligned_cols=22  Identities=27%  Similarity=0.518  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      .+|+|+|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3799999999999999999987

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.05  E-value=0.0065  Score=58.42  Aligned_cols=48  Identities=23%  Similarity=0.282  Sum_probs=35.6

Q ss_pred             cccccccch-HHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          106 TTTLVGENT-KKIVKKVWEDLMGD---------KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       106 ~~~~vGr~~-~~~~~~l~~~l~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..++|.+. ..++.++...+.+.         -.+-+.|+|++|+||||||+.+++.
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            457889876 45556666665432         1234899999999999999999987

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.04  E-value=0.003  Score=51.61  Aligned_cols=23  Identities=17%  Similarity=0.312  Sum_probs=20.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      ..+++|+|+.|+|||||++.++.
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHcc
Confidence            36899999999999999997553

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.03  E-value=0.0034  Score=53.56  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|+|+|++|+||||+++.+...
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.02  E-value=0.0036  Score=52.08  Aligned_cols=24  Identities=21%  Similarity=0.211  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|.|++|+||||+|+.+...
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~   35 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEK   35 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999887

>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=96.02  E-value=0.0041  Score=52.31  Aligned_cols=24  Identities=25%  Similarity=0.481  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|+|++|+||||+|+.+...
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999876

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.01  E-value=0.0031  Score=51.22  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~   25 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARA   25 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999887

>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=96.01  E-value=0.0037  Score=52.53  Aligned_cols=22  Identities=32%  Similarity=0.376  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      .+|+|+|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.00  E-value=0.0043  Score=51.22  Aligned_cols=24  Identities=25%  Similarity=0.166  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|.|++|+||||+|+.+...
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~   29 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999876

>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=95.97  E-value=0.004  Score=51.29  Aligned_cols=22  Identities=41%  Similarity=0.607  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|+|+.|+|||||++.++..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999876

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.97  E-value=0.0039  Score=51.36  Aligned_cols=23  Identities=17%  Similarity=0.222  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|+|.|++|+||||+++.+.+.
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~   27 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQE   27 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999876

>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=95.96  E-value=0.0048  Score=51.64  Aligned_cols=24  Identities=17%  Similarity=0.254  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|.|.|++|+||||+|+.+...
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~   43 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEK   43 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999999887

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.96  E-value=0.0028  Score=51.99  Aligned_cols=24  Identities=29%  Similarity=0.311  Sum_probs=17.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999876

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=95.96  E-value=0.033  Score=53.69  Aligned_cols=51  Identities=10%  Similarity=-0.045  Sum_probs=35.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -.++.|.|.+|+||||||.+++.... . .+=..++|++...  +..++...++.
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a-~-~~g~~vl~~s~E~--s~~~l~~r~~~  292 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWG-T-AMGKKVGLAMLEE--SVEETAEDLIG  292 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHT-T-TSCCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHH-H-hcCCcEEEEeccC--CHHHHHHHHHH
Confidence            36899999999999999999988721 1 1112477877644  45566555543

>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=95.95  E-value=0.021  Score=50.98  Aligned_cols=87  Identities=14%  Similarity=0.103  Sum_probs=47.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcCCCC---CCccHHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKLSLT---EDEDKVSRARRLLG  205 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~---~~~~~~~~~~~l~~  205 (359)
                      ..+++|+|.+|+||||++..++..+. .. . ..+.++...... .....+.......+...-   ...+..........
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~-~~-~-~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~  174 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYK-GK-G-RRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEE  174 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHH-HT-T-CCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-Hc-C-CeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHH
Confidence            47899999999999999999988732 11 1 124555443221 112223344444443211   12344444443334


Q ss_pred             HH-hcCCcEEEEEecC
Q 038454          206 KL-KAKKKFVLILDDI  220 (359)
Q Consensus       206 ~l-~~~k~~LlVlDdv  220 (359)
                      .+ .. ..=++|+|--
T Consensus       175 ~~~~~-~~D~viiDtp  189 (295)
T 1ls1_A          175 KARLE-ARDLILVDTA  189 (295)
T ss_dssp             HHHHH-TCCEEEEECC
T ss_pred             HHHhC-CCCEEEEeCC
Confidence            43 23 4457778864

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.94  E-value=0.0042  Score=52.18  Aligned_cols=23  Identities=22%  Similarity=0.336  Sum_probs=21.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.|.|++|+||||+|+.+...
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            57999999999999999999987

>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=95.94  E-value=0.0041  Score=54.55  Aligned_cols=24  Identities=21%  Similarity=0.404  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999886

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.93  E-value=0.0035  Score=52.52  Aligned_cols=23  Identities=17%  Similarity=0.407  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++++|+|+.|+|||||++.+...
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            57999999999999999999865

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.93  E-value=0.0044  Score=53.78  Aligned_cols=25  Identities=24%  Similarity=0.393  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|+|++|+|||||++.+++.
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~   50 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQN   50 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999999965

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.91  E-value=0.0041  Score=53.00  Aligned_cols=25  Identities=28%  Similarity=0.268  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.|.|++|+||||.|+.++++
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~   52 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQK   52 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            5689999999999999999999987

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.88  E-value=0.0045  Score=50.01  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|.|++|+||||+|+.+.+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRS   23 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999886

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.86  E-value=0.0047  Score=51.08  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|+|.|+.|+||||+|+.+.+.
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~   23 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEY   23 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999987

>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=95.85  E-value=0.0055  Score=51.11  Aligned_cols=87  Identities=16%  Similarity=0.058  Sum_probs=45.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC---CcCHHHHHHHHHH---HhcC--CCCCC------ccH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ---PLDLVKLQAEIAM---ALKL--SLTED------EDK  196 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~---~~~~~~~~~~i~~---~l~~--~~~~~------~~~  196 (359)
                      ..|.|++..|.||||+|-..+-+.  ....+. +.++....   ......++..+.-   +++.  .....      ...
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA--~g~G~r-V~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a  105 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARA--VGHGKN-VGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAAC  105 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHH--HHTTCC-EEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH--HHCCCe-EEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHH
Confidence            567777778899999999888772  223333 55554433   2334444444310   0000  11110      011


Q ss_pred             HHHHHHHHHHHhcCCcEEEEEecC
Q 038454          197 VSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       197 ~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ........+.+..++-=|||||++
T Consensus       106 ~~~l~~a~~~l~~~~yDlvILDEi  129 (196)
T 1g5t_A          106 MAVWQHGKRMLADPLLDMVVLDEL  129 (196)
T ss_dssp             HHHHHHHHHHTTCTTCSEEEEETH
T ss_pred             HHHHHHHHHHHhcCCCCEEEEeCC
Confidence            223344445555535559999998

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.85  E-value=0.0059  Score=53.25  Aligned_cols=25  Identities=32%  Similarity=0.325  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|.|.|++|+||||+|+.+...
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~   55 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKE   55 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4578999999999999999999887

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.84  E-value=0.005  Score=51.79  Aligned_cols=25  Identities=16%  Similarity=0.036  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..+|+|.|+.|+||||+++.+.+.+
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999873

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.83  E-value=0.032  Score=52.44  Aligned_cols=26  Identities=15%  Similarity=0.187  Sum_probs=23.4

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+|.|+|++|+||||+|+.++.+
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            35689999999999999999999887

>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=95.82  E-value=0.0051  Score=52.29  Aligned_cols=24  Identities=21%  Similarity=0.325  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|.|.|++|+||||+|+.++..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~   27 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQER   27 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999999999887

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.81  E-value=0.0052  Score=51.77  Aligned_cols=25  Identities=20%  Similarity=0.148  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..+|+|.|+.|+||||+|+.+.+.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999873

>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=95.80  E-value=0.0054  Score=50.01  Aligned_cols=26  Identities=23%  Similarity=0.201  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..++++|.|..|+|||||+..+...+
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhh
Confidence            35789999999999999999998873

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.80  E-value=0.0051  Score=53.58  Aligned_cols=26  Identities=27%  Similarity=0.264  Sum_probs=22.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+|+|.|++|+||||+|+.+...
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~   45 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQL   45 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            35678999999999999999999886

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=95.80  E-value=0.0052  Score=55.54  Aligned_cols=40  Identities=18%  Similarity=0.267  Sum_probs=28.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS  170 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~  170 (359)
                      ++.+||+|.|-||+||||.+..++.-+.+  ..+ .+.-|++.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~--~Gk-kVllID~D   85 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSI--LGK-RVLQIGCD   85 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHH--TTC-CEEEEEES
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHH--CCC-eEEEEecC
Confidence            46799999999999999999988776422  222 25555554

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.79  E-value=0.0056  Score=51.25  Aligned_cols=25  Identities=16%  Similarity=0.320  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|+|+|++|+|||||++.+...
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhh
Confidence            3578999999999999999999876

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=95.78  E-value=0.0053  Score=51.71  Aligned_cols=24  Identities=21%  Similarity=0.376  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            368999999999999999999876

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.78  E-value=0.0053  Score=51.27  Aligned_cols=25  Identities=32%  Similarity=0.458  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|+|+.|+||||+++.+...
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            3578999999999999999999876

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.75  E-value=0.0059  Score=50.99  Aligned_cols=24  Identities=25%  Similarity=0.133  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|.|+.|+||||+++.+.+.
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            368999999999999999999988

>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=95.74  E-value=0.1  Score=47.37  Aligned_cols=133  Identities=10%  Similarity=0.003  Sum_probs=78.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHH
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKL  207 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l  207 (359)
                      .-.++..++|..|.||++.+..+.+.+  ....|+....+.+....++.++...+-..                    -+
T Consensus        16 ~~~~~yl~~G~e~~~~~~~~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------------pl   73 (343)
T 1jr3_D           16 GLRAAYLLLGNDPLLLQESQDAVRQVA--AAQGFEEHHTFSIDPNTDWNAIFSLCQAM--------------------SL   73 (343)
T ss_dssp             CCCSEEEEEESCHHHHHHHHHHHHHHH--HHHTCCEEEEEECCTTCCHHHHHHHHHHH--------------------HH
T ss_pred             CCCcEEEEECCcHHHHHHHHHHHHHHH--HhCCCCeeEEEEecCCCCHHHHHHHhcCc--------------------CC
Confidence            446799999999999999999998863  12234322222333445565554443211                    01


Q ss_pred             hcCCcEEEEEecC-------------------CCC-eEEEee-c--------------ccceeeeecCCCChHHHHHHHH
Q 038454          208 KAKKKFVLILDDI-------------------DNH-TFCWGL-R--------------SMGCEEVRVPPLSKEEALNLFL  252 (359)
Q Consensus       208 ~~~k~~LlVlDdv-------------------~~g-~ilvTt-r--------------~~~~~~~~l~~L~~~ea~~lf~  252 (359)
                      -+ ++-++|+|++                   .++ .+|+++ .              ...+..+...+++.++....+.
T Consensus        74 f~-~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~  152 (343)
T 1jr3_D           74 FA-SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVA  152 (343)
T ss_dssp             CC-SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHH
T ss_pred             cc-CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHH
Confidence            11 3334444443                   123 333332 1              2234678899999999988887


Q ss_pred             HhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHH
Q 038454          253 DKVGRNILHVPTLNEEIINSVVEECAGLQLAIFT  286 (359)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~  286 (359)
                      ..+-..+.   .-..+.+..+++.++|.+..+..
T Consensus       153 ~~~~~~g~---~i~~~a~~~l~~~~~gdl~~~~~  183 (343)
T 1jr3_D          153 ARAKQLNL---ELDDAANQVLCYCYEGNLLALAQ  183 (343)
T ss_dssp             HHHHHTTC---EECHHHHHHHHHSSTTCHHHHHH
T ss_pred             HHHHHcCC---CCCHHHHHHHHHHhchHHHHHHH
Confidence            77633221   12246678888999998877765

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.74  E-value=0.021  Score=63.12  Aligned_cols=83  Identities=13%  Similarity=0.190  Sum_probs=56.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -.++.|+|.+|+||||||.+++... .  ..=..++|++....++...     ++.++.+..     +..+.++....+.
T Consensus       383 G~lilI~G~pGsGKTtLaLqia~~~-a--~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~~  454 (2050)
T 3cmu_A          383 GRIVEIYGPESSGKTTLTLQVIAAA-Q--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  454 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHH-H--TTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH-H--hcCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHHH
Confidence            4699999999999999999998873 2  2223588998877766542     455655321     2345556655555


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ......+.-+||+|.+
T Consensus       455 ~lv~~~~~~lIVIDSL  470 (2050)
T 3cmu_A          455 ALARSGAVDVIVVDSV  470 (2050)
T ss_dssp             HHHHHTCCSEEEESCG
T ss_pred             HHHHhcCCcEEEECCH
Confidence            5444436679999988

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.72  E-value=0.0056  Score=52.36  Aligned_cols=24  Identities=21%  Similarity=0.367  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|.|.|++|+||||+|+.++..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~   30 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTH   30 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999999999877

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=95.72  E-value=0.014  Score=55.64  Aligned_cols=39  Identities=21%  Similarity=0.290  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          115 KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       115 ~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+.+..+..++.++. +.+.|.|.+|+|||+++..+...+
T Consensus        31 ~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           31 KNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             HHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            445666666766654 489999999999999999998874

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.70  E-value=0.005  Score=52.08  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999876

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.69  E-value=0.0017  Score=59.92  Aligned_cols=52  Identities=17%  Similarity=0.160  Sum_probs=34.0

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          120 KVWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       120 ~l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      +.++.+.. +.-..++|+|.+|+|||+|+..+++........+.+ +++-+++.
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~-V~~lIGER  216 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIR-IILLIDER  216 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEE-EEEECSCC
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEE-EEEEeccC
Confidence            45555543 334678999999999999999998873211233333 45666654

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=95.68  E-value=0.018  Score=62.82  Aligned_cols=83  Identities=12%  Similarity=0.176  Sum_probs=55.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -+++.|.|.+|+||||||.+++... ...  =..++|++....++...     +..++.+..     ...+.++....+.
T Consensus       383 G~lilI~G~pGsGKTtLaLq~a~~~-~~~--G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~i~~~~~~e~~l~~l~  454 (1706)
T 3cmw_A          383 GRIVEIYGPESSGKTTLTLQVIAAA-QRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  454 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHH-HHT--TCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH-HHh--CCCeEEEEccCchHHHH-----HHHcCCCHHHeEEcCCCCHHHHHHHHH
Confidence            4789999999999999999998872 222  23588998887776542     455554321     1234555555555


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ......+.-++|+|.+
T Consensus       455 ~lv~~~~~~lVVIDSL  470 (1706)
T 3cmw_A          455 ALARSGAVDVIVVDSV  470 (1706)
T ss_dssp             HHHHHTCCSEEEESCS
T ss_pred             HHHHhcCCCEEEECCH
Confidence            4444436669999998

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.67  E-value=0.0053  Score=52.31  Aligned_cols=24  Identities=21%  Similarity=0.492  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.+...
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            368999999999999999999876

>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=95.67  E-value=0.0065  Score=54.83  Aligned_cols=26  Identities=27%  Similarity=0.242  Sum_probs=23.1

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+|+|.|+.|+|||||++.+..-
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhh
Confidence            34579999999999999999999876

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.65  E-value=0.0087  Score=54.14  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.+|+|.|+.|+|||||++.+..-
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~l  115 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKAL  115 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4569999999999999999998765

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.64  E-value=0.0068  Score=52.54  Aligned_cols=25  Identities=28%  Similarity=0.303  Sum_probs=22.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|.|+.|+|||||++.+...
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999998875

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.63  E-value=0.006  Score=51.92  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|.|.|++|+||||+|+.++..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~   28 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTK   28 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999999987

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.63  E-value=0.019  Score=49.35  Aligned_cols=49  Identities=20%  Similarity=0.195  Sum_probs=31.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEI  182 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  182 (359)
                      -.++.|.|.+|+|||+||.+++.+ . ....-..++|++...  +..++...+
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~-~-~~~~~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYK-G-AEEYGEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHH-H-HHHHCCCEEEEESSS--CHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH-H-HHhcCCCceeecccC--CHHHHHHHH
Confidence            368999999999999999987654 1 111122466666543  344444443

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.62  E-value=0.0056  Score=51.80  Aligned_cols=22  Identities=23%  Similarity=0.357  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999876

>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=95.60  E-value=0.0077  Score=54.12  Aligned_cols=25  Identities=28%  Similarity=0.392  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+++|+|++|+|||||+..++..
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagl  125 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRY  125 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            3579999999999999999999876

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.60  E-value=0.0066  Score=52.93  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|+|+.|+||||+++.++..
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999855

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.58  E-value=0.008  Score=50.46  Aligned_cols=37  Identities=16%  Similarity=0.057  Sum_probs=27.4

Q ss_pred             HHHHHHHHhcCC-CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          117 IVKKVWEDLMGD-KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       117 ~~~~l~~~l~~~-~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -+..+..++..- ....+.|+|++|+||||+|..+++.
T Consensus        44 f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           44 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHH
Confidence            344555555431 2347999999999999999999887

>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=95.57  E-value=0.0063  Score=57.49  Aligned_cols=45  Identities=24%  Similarity=0.301  Sum_probs=32.2

Q ss_pred             ccccccchHHHHHHHHHHhcC--------------CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMG--------------DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .+..+...+.+              -..+-|.++|++|+||||+|+.++..
T Consensus        15 ~~IvGqe~--ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~   73 (444)
T 1g41_A           15 QHIIGQAD--AKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (444)
T ss_dssp             TTCCSCHH--HHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCHHH--HHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHH
Confidence            46788765  44444433311              13456999999999999999999987

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=95.56  E-value=0.021  Score=54.34  Aligned_cols=86  Identities=16%  Similarity=0.140  Sum_probs=51.7

Q ss_pred             ccEEEEEcCCCCcHHHHHH-HHHcCcccccCCCcc-EEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMR-HINNRPQEETNEFSD-VIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKVSR  199 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~~F~~-~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~~~  199 (359)
                      -..++|.|.+|+|||+||. .+++. .    .-+. ++++-+++.. ...++.+.+...=..       ...+.......
T Consensus       162 GQR~~Ifg~~g~GKT~Lal~~I~~~-~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~  236 (502)
T 2qe7_A          162 GQRELIIGDRQTGKTTIAIDTIINQ-K----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLY  236 (502)
T ss_dssp             TCBCEEEECSSSCHHHHHHHHHHGG-G----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHH
T ss_pred             CCEEEEECCCCCCchHHHHHHHHHh-h----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHH
Confidence            3568999999999999964 67776 2    2343 5677777765 455666666542111       11111111111


Q ss_pred             -----HHHHHHHHhc-CCcEEEEEecC
Q 038454          200 -----ARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       200 -----~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                           .-.+.++++. ++.+||++||+
T Consensus       237 ~a~~~a~tiAEyfrd~G~dVLl~~Dsl  263 (502)
T 2qe7_A          237 LAPYAGCAMGEYFMYKGKHALVVYDDL  263 (502)
T ss_dssp             HHHHHHHHHHHHHHTTTCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHHcCCcEEEEEecH
Confidence                 1234455544 58999999999

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=95.56  E-value=0.023  Score=54.21  Aligned_cols=85  Identities=16%  Similarity=0.193  Sum_probs=51.5

Q ss_pred             cEEEEEcCCCCcHHHHHH-HHHcCcccccCCCcc-EEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHHHH-
Q 038454          131 TKIGVWGMGGFGKTAIMR-HINNRPQEETNEFSD-VIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKVSR-  199 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~-~v~~~~~~~~~~F~~-~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~~~-  199 (359)
                      ..++|.|.+|+|||+||. .+++. .    .-+. ++++-+++.. ...++.+.+...=..       ...+....... 
T Consensus       176 QR~~I~g~~g~GKT~Lal~~I~~~-~----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~~  250 (515)
T 2r9v_A          176 QRELIIGDRQTGKTAIAIDTIINQ-K----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYI  250 (515)
T ss_dssp             CBEEEEEETTSSHHHHHHHHHHTT-T----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHH
T ss_pred             CEEEEEcCCCCCccHHHHHHHHHh-h----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHH
Confidence            568999999999999964 67776 2    2443 5677777764 455666666542111       11111111111 


Q ss_pred             ----HHHHHHHHhc-CCcEEEEEecC
Q 038454          200 ----ARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       200 ----~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                          .-.+.++++. ++.+||++||+
T Consensus       251 a~~~a~tiAEyfrd~G~dVLli~Dsl  276 (515)
T 2r9v_A          251 APYAGCAMGEYFAYSGRDALVVYDDL  276 (515)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEeccH
Confidence                2234455544 58999999999

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.53  E-value=0.0085  Score=53.19  Aligned_cols=24  Identities=25%  Similarity=0.590  Sum_probs=21.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      ...+|+|.|++|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999983

>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=95.53  E-value=0.0074  Score=51.47  Aligned_cols=24  Identities=21%  Similarity=0.191  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.+...
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcc
Confidence            368999999999999999999876

>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=95.52  E-value=0.0075  Score=49.36  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|.|+.|+||||+++.+...
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~   28 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEY   28 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            367999999999999999999886

>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=95.51  E-value=0.0077  Score=52.20  Aligned_cols=25  Identities=16%  Similarity=0.130  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|.|++|+||||+|+.+.+.
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~   52 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKS   52 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999876

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.50  E-value=0.0082  Score=48.38  Aligned_cols=25  Identities=28%  Similarity=0.264  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-.+++|+|+.|+|||||++.++.-
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999876

>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=95.50  E-value=0.0037  Score=52.69  Aligned_cols=24  Identities=21%  Similarity=0.397  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+|+|.|+.|+||||+++.+...+
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            368999999999999999998773

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.47  E-value=0.0082  Score=50.87  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=20.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999875

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.42  E-value=0.011  Score=49.99  Aligned_cols=26  Identities=15%  Similarity=0.305  Sum_probs=23.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+|.|.|+.|+||||+++.+...
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            34578999999999999999999887

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.42  E-value=0.0049  Score=55.05  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=19.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..+|+|.|..|+||||+|+.+.+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~   28 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQI   28 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999876

>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=95.42  E-value=0.017  Score=53.02  Aligned_cols=36  Identities=17%  Similarity=0.456  Sum_probs=27.9

Q ss_pred             HHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++..+.  .++..+|+|+|.+|+|||||+..+...
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~  102 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMH  102 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            334444443  456789999999999999999998866

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=95.40  E-value=0.028  Score=52.89  Aligned_cols=89  Identities=12%  Similarity=0.188  Sum_probs=53.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCccccc-CCCc-cEEEEEeCCCc-CHHHHHHHHHHH--hcC-----CCCCCccHHH--
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEET-NEFS-DVIWVTVSQPL-DLVKLQAEIAMA--LKL-----SLTEDEDKVS--  198 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~-~~~wv~~~~~~-~~~~~~~~i~~~--l~~-----~~~~~~~~~~--  198 (359)
                      ..++|.|.+|+|||+|+.++++. .... ++-+ .++++-+++.. ...++.+++...  +..     ...+......  
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~-~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~  230 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQ-ATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIA  230 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHH-CBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHH
T ss_pred             CEEEEeCCCCcChHHHHHHHHHH-HHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHH
Confidence            44789999999999999999987 3321 1111 46677676654 456666665543  110     1111111111  


Q ss_pred             ---HHHHHHHHHhc--CCcEEEEEecC
Q 038454          199 ---RARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       199 ---~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                         ..-.+.++++.  ++.+||++||+
T Consensus       231 a~~~a~tiAEyfrd~~G~~VLl~~Dsl  257 (465)
T 3vr4_D          231 TPRMALTAAEYLAYEKGMHVLVIMTDM  257 (465)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence               12335566663  58999999999

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=95.38  E-value=0.027  Score=61.52  Aligned_cols=83  Identities=13%  Similarity=0.181  Sum_probs=61.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -++|-|+|+.|+||||||.++... .  ...=..++|+...+..+..-     ++.++.+..     ...+.++.+..+.
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~-~--~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~ 1502 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAA-A--QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1502 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHH-H--HHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH-H--HhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHH
Confidence            479999999999999999999876 2  22224588998887777664     667766432     2345566677777


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ..++.+..-++|+|.|
T Consensus      1503 ~~~~s~~~~~vvvDsv 1518 (1706)
T 3cmw_A         1503 ALARSGAVDVIVVDSV 1518 (1706)
T ss_dssp             HHHHHTCCSEEEESCS
T ss_pred             HHHHcCCCCEEEEccH
Confidence            7777767789999998

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.36  E-value=0.0076  Score=52.51  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|+|+|++|+||||+++.++..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~   71 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARS   71 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999999986

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.36  E-value=0.006  Score=52.32  Aligned_cols=24  Identities=17%  Similarity=0.211  Sum_probs=16.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHH-cC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHIN-NR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~-~~  153 (359)
                      -.+++|+|+.|+|||||++.+. ..
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC--
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3689999999999999999998 54

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.35  E-value=0.009  Score=49.96  Aligned_cols=23  Identities=17%  Similarity=0.306  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|+|.|+.|+||||+|+.+...
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~   25 (208)
T 3ake_A            3 GIVTIDGPSASGKSSVARRVAAA   25 (208)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            38999999999999999999886

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.27  E-value=0.011  Score=53.66  Aligned_cols=25  Identities=16%  Similarity=0.198  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .++|.|+|+.|+||||||..++..+
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHC
Confidence            3689999999999999999999884

>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=95.25  E-value=0.011  Score=48.47  Aligned_cols=24  Identities=17%  Similarity=0.356  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++++|+|..|+|||||+..+...
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHh
Confidence            578999999999999999999876

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.25  E-value=0.0089  Score=49.72  Aligned_cols=23  Identities=22%  Similarity=0.354  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||++.++..
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhh
Confidence            36899999999999999999876

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.24  E-value=0.011  Score=58.34  Aligned_cols=43  Identities=14%  Similarity=0.228  Sum_probs=35.5

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .++.+...+..+  ..+.|+|++|+||||||+.++..
T Consensus        41 ~~i~G~~~--~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~   83 (604)
T 3k1j_A           41 DQVIGQEH--AVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAEL   83 (604)
T ss_dssp             HHCCSCHH--HHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHT
T ss_pred             ceEECchh--hHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhcc
Confidence            46888855  777776666666  57999999999999999999987

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.23  E-value=0.006  Score=49.90  Aligned_cols=23  Identities=17%  Similarity=0.286  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++++|+|..|+|||||++.+..-
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999876

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.22  E-value=0.01  Score=50.13  Aligned_cols=22  Identities=23%  Similarity=0.237  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEK   23 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999887

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.22  E-value=0.025  Score=48.70  Aligned_cols=52  Identities=13%  Similarity=0.153  Sum_probs=33.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      ...|.|.|+.|+||||+++.+.+.+  ...++..+....-.....+.+.+++++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l--~~~~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL--QQNGIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH--HHTTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH--HhcCCCeeeeecCCCCCHHHHHHHHHH
Confidence            4689999999999999999999884  234555444444333323344444443

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.21  E-value=0.0091  Score=50.65  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|.|.|++|+||||+|+.++..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~   28 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKE   28 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999887

>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=95.21  E-value=0.011  Score=53.17  Aligned_cols=26  Identities=19%  Similarity=0.162  Sum_probs=22.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+|+|+|..|+|||||++.+...
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34579999999999999999999876

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.20  E-value=0.012  Score=50.91  Aligned_cols=25  Identities=20%  Similarity=0.271  Sum_probs=22.4

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .. .+++|+|+.|+|||||.+.++.-
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCC
Confidence            35 78999999999999999999875

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=95.19  E-value=0.0096  Score=50.25  Aligned_cols=22  Identities=18%  Similarity=0.265  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +|.|.|++|+||||.|+.++++
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~   23 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKE   23 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999988

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.17  E-value=0.055  Score=51.23  Aligned_cols=39  Identities=13%  Similarity=0.059  Sum_probs=28.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      -.++.|.|.+|+||||||.+++... ... . ..++|++...
T Consensus       197 G~liiIaG~pG~GKTtlal~ia~~~-a~~-g-~~vl~fSlEm  235 (444)
T 3bgw_A          197 RNFVLIAARPSMGKTAFALKQAKNM-SDN-D-DVVNLHSLEM  235 (444)
T ss_dssp             SCEEEEEECSSSSHHHHHHHHHHHH-HHT-T-CEEEEECSSS
T ss_pred             CcEEEEEeCCCCChHHHHHHHHHHH-HHc-C-CEEEEEECCC
Confidence            3689999999999999999998873 222 1 2477776543

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.16  E-value=0.011  Score=50.42  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~   23 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDK   23 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999887

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.14  E-value=0.012  Score=52.74  Aligned_cols=25  Identities=20%  Similarity=0.218  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .++|.|.|+.|+||||||..++..+
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            3689999999999999999999873

>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=95.14  E-value=0.01  Score=51.14  Aligned_cols=24  Identities=21%  Similarity=0.321  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            368999999999999999998875

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.13  E-value=0.011  Score=53.74  Aligned_cols=23  Identities=22%  Similarity=0.229  Sum_probs=21.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|+|.|++|+||||||..++..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~   30 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKK   30 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHHH
Confidence            58999999999999999999987

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.12  E-value=0.012  Score=50.64  Aligned_cols=24  Identities=25%  Similarity=0.369  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~   32 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARA   32 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999876

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.12  E-value=0.011  Score=50.69  Aligned_cols=23  Identities=17%  Similarity=0.335  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999999875

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.11  E-value=0.029  Score=47.53  Aligned_cols=52  Identities=17%  Similarity=0.213  Sum_probs=34.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      ..|.+.|..|+||||+++.+.+.+  ....+..+.+..-.....+.+.+++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l--~~~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL--EQLGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH--HHTTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH--HHcCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            579999999999999999999884  2334433444433333335555666554

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.10  E-value=0.013  Score=50.22  Aligned_cols=24  Identities=17%  Similarity=0.187  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|.|.|++|+||||+|+.+++.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~   39 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKN   39 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999999987

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.08  E-value=0.013  Score=52.48  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+++|+|+.|+||||+++.++..
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~  123 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHR  123 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            469999999999999999999887

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.08  E-value=0.012  Score=52.58  Aligned_cols=23  Identities=26%  Similarity=0.274  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999999875

>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=95.08  E-value=0.029  Score=49.87  Aligned_cols=50  Identities=14%  Similarity=0.109  Sum_probs=32.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      -.+++|.|.+|+|||||++.++... ..... ..++|++...  +..++...+.
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~~-~~~~G-~~v~~~~~e~--~~~~~~~r~~   84 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQW-GTAMG-KKVGLAMLEE--SVEETAEDLI   84 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHH-HHTSC-CCEEEEESSS--CHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH-HHHcC-CeEEEEeCcC--CHHHHHHHHH
Confidence            3689999999999999999998873 21111 1366665433  3344444433

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.03  E-value=0.01  Score=50.10  Aligned_cols=23  Identities=26%  Similarity=0.138  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||++.++.-
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            58999999999999999998764

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.02  E-value=0.011  Score=53.41  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=21.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|.|+|+.|+||||||..++..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999987

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=95.02  E-value=0.037  Score=52.76  Aligned_cols=89  Identities=19%  Similarity=0.224  Sum_probs=52.3

Q ss_pred             cEEEEEcCCCCcHHHHH-HHHHcCcccc----cCCCc-cEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccH
Q 038454          131 TKIGVWGMGGFGKTAIM-RHINNRPQEE----TNEFS-DVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDK  196 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa-~~v~~~~~~~----~~~F~-~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~  196 (359)
                      ..++|.|.+|+|||+|| ..+.+. ...    .++-+ .++++-+++.. ...++.+.+...=..       ...+....
T Consensus       163 QR~~I~g~~g~GKT~Lal~~I~~q-~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~  241 (510)
T 2ck3_A          163 QRELIIGDRQTGKTSIAIDTIINQ-KRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAP  241 (510)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHT-HHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHH
T ss_pred             CEEEEecCCCCCchHHHHHHHHHH-HhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCHH
Confidence            56899999999999995 467776 221    12344 36777787765 455666666542111       11111111


Q ss_pred             HHH-----HHHHHHHHhc-CCcEEEEEecC
Q 038454          197 VSR-----ARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       197 ~~~-----~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ...     .-.+.++++. ++.+||++||+
T Consensus       242 ~r~~a~~~a~tiAEyfrd~G~dVLli~Dsl  271 (510)
T 2ck3_A          242 LQYLAPYSGCSMGEYFRDNGKHALIIYDDL  271 (510)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCcEEEEEcCH
Confidence            111     1234455544 58999999999

>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=94.98  E-value=0.014  Score=48.22  Aligned_cols=24  Identities=21%  Similarity=0.451  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            467999999999999999999876

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.97  E-value=0.015  Score=46.00  Aligned_cols=23  Identities=17%  Similarity=0.407  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.|+|.+|+|||||+..+.+.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999876

>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=94.95  E-value=0.016  Score=46.59  Aligned_cols=23  Identities=22%  Similarity=0.410  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|+|+|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999875

>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=94.95  E-value=0.013  Score=50.63  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999999876

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=94.94  E-value=0.023  Score=53.55  Aligned_cols=89  Identities=17%  Similarity=0.222  Sum_probs=53.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCccccc--------CCCc-cEEEEEeCCCc-CHHHHHHHHHHH--hcC-----CCCCC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEET--------NEFS-DVIWVTVSQPL-DLVKLQAEIAMA--LKL-----SLTED  193 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------~~F~-~~~wv~~~~~~-~~~~~~~~i~~~--l~~-----~~~~~  193 (359)
                      ..++|.|.+|+|||+|+.++++. ....        ++-+ .++++-+++.. ...++.+++...  +..     ...+.
T Consensus       148 Qr~~Ifgg~G~GKt~L~~~Ia~~-~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~  226 (464)
T 3gqb_B          148 QKLPIFSGSGLPANEIAAQIARQ-ATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADD  226 (464)
T ss_dssp             CBCCEEEETTSCHHHHHHHHHHH-CBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTS
T ss_pred             CEEEEecCCCCCchHHHHHHHHH-HHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCC
Confidence            45789999999999999999887 3321        1222 46667676654 455666655442  110     11111


Q ss_pred             ccHHH-----HHHHHHHHHhc--CCcEEEEEecC
Q 038454          194 EDKVS-----RARRLLGKLKA--KKKFVLILDDI  220 (359)
Q Consensus       194 ~~~~~-----~~~~l~~~l~~--~k~~LlVlDdv  220 (359)
                      .....     ..-.+.++++.  ++.+||++||+
T Consensus       227 p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~Ddl  260 (464)
T 3gqb_B          227 PTIERILTPRMALTVAEYLAFEHDYHVLVILTDM  260 (464)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence            12211     22344566663  58999999999

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=94.93  E-value=0.029  Score=53.46  Aligned_cols=85  Identities=16%  Similarity=0.174  Sum_probs=49.5

Q ss_pred             cEEEEEcCCCCcHHHHH-HHHHcCcccccCCCc-cEEEEEeCCCc-CHHHHHHHHHHHhcC--------CCCC----Ccc
Q 038454          131 TKIGVWGMGGFGKTAIM-RHINNRPQEETNEFS-DVIWVTVSQPL-DLVKLQAEIAMALKL--------SLTE----DED  195 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~-~~~wv~~~~~~-~~~~~~~~i~~~l~~--------~~~~----~~~  195 (359)
                      ..++|.|.+|+|||+|| ..+++. .  .  -+ .++++-+++.. ...++.+.+...=..        ..++    ..-
T Consensus       164 QR~~Ifg~~g~GKT~Lal~~I~~~-~--~--~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~  238 (507)
T 1fx0_A          164 QRELIIGDRQTGKTAVATDTILNQ-Q--G--QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYL  238 (507)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTC-C--T--TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTH
T ss_pred             CEEEEecCCCCCccHHHHHHHHHh-h--c--CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHH
Confidence            56899999999999996 477776 2  2  34 35677777764 345555555432110        1111    011


Q ss_pred             HHHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          196 KVSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       196 ~~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      .....-.+.++++. ++.+||++||+
T Consensus       239 a~~~a~tiAEyfrd~G~dVLli~Dsl  264 (507)
T 1fx0_A          239 APYTGAALAEYFMYRERHTLIIYDDL  264 (507)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecH
Confidence            12222333444433 49999999998

>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=94.90  E-value=0.015  Score=50.51  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++.+.|.||+||||++..++..
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~   37 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRY   37 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHH
Confidence            578999999999999999999866

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.89  E-value=0.013  Score=51.41  Aligned_cols=24  Identities=33%  Similarity=0.441  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999999865

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=94.88  E-value=0.015  Score=48.51  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.|.|++|+||||||..+..+
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            67999999999999999999987

>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=94.87  E-value=0.013  Score=51.75  Aligned_cols=23  Identities=22%  Similarity=0.472  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||++.+..-
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            68999999999999999999765

>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=94.87  E-value=0.026  Score=48.40  Aligned_cols=25  Identities=28%  Similarity=0.357  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...|+|.|++|+||||+++.+.+.+
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999884

>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=94.87  E-value=0.013  Score=48.05  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||+..+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999874

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.87  E-value=0.03  Score=47.76  Aligned_cols=57  Identities=18%  Similarity=0.134  Sum_probs=35.3

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      ......|.|.|+.|+||||+++.+.+.+ .....++......-.......+.+++++.
T Consensus        18 ~~~~~~i~~~G~~g~GKst~~~~l~~~l-~~~~g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           18 GPGSMFITFEGIDGSGKTTQSHLLAEYL-SEIYGVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHHHHH-HHHHCGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH-hhccCceeeEeeeCCCCChHHHHHHHHHh
Confidence            3345789999999999999999999884 21034444432333333334455555554

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=94.84  E-value=0.026  Score=53.40  Aligned_cols=89  Identities=16%  Similarity=0.201  Sum_probs=53.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCC--CccEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHH---
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNE--FSDVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKV---  197 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~--F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~---  197 (359)
                      ..++|.|.+|+|||+|+.+++++ ....+.  =+.++++-+++.. ...++.+++...=..       ...+.....   
T Consensus       153 Qr~~Ifgg~G~GKt~Ll~~Ia~~-~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~~  231 (469)
T 2c61_A          153 QKLPIFSASGLPHNEIALQIARQ-ASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIV  231 (469)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHH-CBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH-HhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHHH
Confidence            45788899999999999999987 322111  1346677676654 456676666653111       111111111   


Q ss_pred             --HHHHHHHHHHh--cCCcEEEEEecC
Q 038454          198 --SRARRLLGKLK--AKKKFVLILDDI  220 (359)
Q Consensus       198 --~~~~~l~~~l~--~~k~~LlVlDdv  220 (359)
                        ...-.+.++++  .++.+||++||+
T Consensus       232 ~~~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          232 TPRMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             HHHHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEeCH
Confidence              12233445655  259999999998

>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=94.83  E-value=0.016  Score=50.45  Aligned_cols=23  Identities=17%  Similarity=0.299  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999873

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=94.80  E-value=0.022  Score=46.56  Aligned_cols=26  Identities=23%  Similarity=0.533  Sum_probs=22.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .....|+|+|.+|+|||||...+.+.
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567999999999999999999876

>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=94.80  E-value=0.014  Score=50.39  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999875

>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=94.79  E-value=0.014  Score=50.96  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999765

>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=94.79  E-value=0.015  Score=51.23  Aligned_cols=24  Identities=21%  Similarity=0.434  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            368999999999999999999875

>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=94.77  E-value=0.016  Score=51.82  Aligned_cols=25  Identities=24%  Similarity=0.169  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.|.|+.|+||||||..++..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHh
Confidence            3568999999999999999999987

>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=94.77  E-value=0.016  Score=51.13  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++.|+|.+|+|||||+..++..
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~~   53 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAAQ   53 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999998865

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=94.77  E-value=0.12  Score=59.22  Aligned_cols=51  Identities=22%  Similarity=0.247  Sum_probs=37.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  186 (359)
                      +-|.++|++|+|||++|+.+... .   ..+ ..+.++.+...+...++..+-..+
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~-~---~~~-~~~~infsa~ts~~~~~~~i~~~~ 1318 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRN-S---SLY-DVVGINFSKDTTTEHILSALHRHT 1318 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS-C---SSC-EEEEEECCTTCCHHHHHHHHHHHB
T ss_pred             CeEEEECCCCCCHHHHHHHHHhc-C---CCC-ceEEEEeecCCCHHHHHHHHHHHh
Confidence            56889999999999999887766 1   122 245677777777777666665544

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.76  E-value=0.018  Score=52.97  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=22.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+++|+|+.|+||||+++.++..
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~  180 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHR  180 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhh
Confidence            469999999999999999999887

>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=94.76  E-value=0.013  Score=49.69  Aligned_cols=23  Identities=26%  Similarity=0.556  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            57999999999999999999876

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=94.75  E-value=0.01  Score=58.51  Aligned_cols=45  Identities=18%  Similarity=0.263  Sum_probs=32.5

Q ss_pred             ccccccchHHHHHHHHHHhcCCCcc-----------EEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVT-----------KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~-----------vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.++|.+.  .+..+...+..+..+           -|.++|++|+|||+||+.+++.
T Consensus       295 ~~I~G~e~--vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~  350 (595)
T 3f9v_A          295 PSIYGHWE--LKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRV  350 (595)
T ss_dssp             STTSCCHH--HHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTT
T ss_pred             chhcChHH--HHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHh
Confidence            56778754  555555444444211           5899999999999999999887

>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=94.75  E-value=0.015  Score=49.82  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999876

>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=94.75  E-value=0.015  Score=51.01  Aligned_cols=24  Identities=29%  Similarity=0.351  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHcC
Confidence            468999999999999999999875

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=94.74  E-value=0.13  Score=48.90  Aligned_cols=85  Identities=16%  Similarity=0.232  Sum_probs=50.4

Q ss_pred             cEEEEEcCCCCcHHHHH-HHHHcCcccccCCCc-cEEEEEeCCCc-CHHHHHHHHHHHhcC-------CCCCCccHHHH-
Q 038454          131 TKIGVWGMGGFGKTAIM-RHINNRPQEETNEFS-DVIWVTVSQPL-DLVKLQAEIAMALKL-------SLTEDEDKVSR-  199 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~-~~~wv~~~~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~~~-  199 (359)
                      ..++|.|..|+|||+|| ..+.+.   .  +-+ .++++-+++.. ...++.+.+...=..       ...+....... 
T Consensus       163 QR~~Ifg~~g~GKT~l~l~~I~n~---~--~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~  237 (513)
T 3oaa_A          163 QRELIIGDRQTGKTALAIDAIINQ---R--DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYL  237 (513)
T ss_dssp             CBCEEEESSSSSHHHHHHHHHHTT---S--SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHH
T ss_pred             CEEEeecCCCCCcchHHHHHHHhh---c--cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHH
Confidence            56899999999999996 466665   2  233 35788888765 455666665443111       11111111111 


Q ss_pred             ----HHHHHHHHhc-CCcEEEEEecC
Q 038454          200 ----ARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       200 ----~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                          .-.+.+++++ ++.+||++||+
T Consensus       238 a~~~a~tiAEyfrd~G~dVLli~Dsl  263 (513)
T 3oaa_A          238 APYAGCAMGEYFRDRGEDALIIYDDL  263 (513)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEETH
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEecCh
Confidence                1223444443 49999999999

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=94.74  E-value=0.044  Score=47.97  Aligned_cols=37  Identities=19%  Similarity=0.116  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCC-C-ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          117 IVKKVWEDLMGD-K-VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       117 ~~~~l~~~l~~~-~-~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..-+..|+... . ...|.++|++|+|||.+|..+++.
T Consensus        89 ~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            344566777654 2 457999999999999999999985

>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=94.73  E-value=0.016  Score=50.43  Aligned_cols=23  Identities=30%  Similarity=0.510  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||++.++.-
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999999776

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.73  E-value=0.036  Score=45.31  Aligned_cols=35  Identities=23%  Similarity=0.527  Sum_probs=27.0

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+.+ +.......|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            5 FTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            344555 44455677999999999999999999854

>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=94.73  E-value=0.017  Score=50.82  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999874

>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=94.72  E-value=0.017  Score=45.70  Aligned_cols=22  Identities=36%  Similarity=0.582  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.++|.+|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999999865

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.71  E-value=0.025  Score=49.50  Aligned_cols=25  Identities=28%  Similarity=0.283  Sum_probs=22.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-.+++|+|+.|+|||||++.+...
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHh
Confidence            3468999999999999999998775

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.70  E-value=0.039  Score=45.28  Aligned_cols=25  Identities=20%  Similarity=0.226  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4568999999999999999999876

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.70  E-value=0.021  Score=46.39  Aligned_cols=35  Identities=29%  Similarity=0.545  Sum_probs=26.6

Q ss_pred             HHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          119 KKVWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       119 ~~l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++++.+.. .....|+|+|.+|+|||||...+...
T Consensus         6 ~~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A            6 SSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             HHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             HHHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            344454444 55677999999999999999998754

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=94.69  E-value=0.016  Score=50.23  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999999765

>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=94.69  E-value=0.02  Score=47.61  Aligned_cols=24  Identities=21%  Similarity=0.451  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||.+.+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            456899999999999999999876

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.68  E-value=0.02  Score=51.75  Aligned_cols=26  Identities=23%  Similarity=0.355  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...+|+|+|.+|+||||++..++..+
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999998873

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=94.66  E-value=0.074  Score=51.20  Aligned_cols=48  Identities=17%  Similarity=0.248  Sum_probs=36.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcC-HHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLD-LVKLQAEI  182 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i  182 (359)
                      -..++|.|..|+|||+|+.++++.     .+-+.++++-+++... ..++.+++
T Consensus       227 Gqr~~I~g~~g~GKT~L~~~ia~~-----~~~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          227 GGTAAIPGPAGSGKTVTQHQLAKW-----SDAQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             TCEEEECSCCSHHHHHHHHHHHHH-----SSCSEEEEEECCSSSSHHHHHHHHT
T ss_pred             CCeEEeecCCCCCHHHHHHHHHhc-----cCCCEEEEEEecccHHHHHHHHHHH
Confidence            357999999999999999999875     1234678888887655 45555554

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=94.64  E-value=0.039  Score=50.46  Aligned_cols=30  Identities=30%  Similarity=0.330  Sum_probs=24.9

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          125 LMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       125 l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +.+...+++.+.|-||+||||+|..++..+
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~l   42 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQL   42 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            345567899999999999999999988663

>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=94.63  E-value=0.017  Score=50.54  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999999875

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.62  E-value=0.017  Score=50.58  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            368999999999999999999875

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=94.61  E-value=0.022  Score=46.50  Aligned_cols=23  Identities=22%  Similarity=0.410  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|+|+|.+|+|||||...+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57999999999999999999874

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.61  E-value=0.017  Score=50.89  Aligned_cols=24  Identities=21%  Similarity=0.272  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999999875

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=94.60  E-value=0.027  Score=45.46  Aligned_cols=25  Identities=20%  Similarity=0.376  Sum_probs=22.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +...|+|+|.+|+|||||...+.+.
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567999999999999999999875

>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=94.60  E-value=0.019  Score=51.48  Aligned_cols=25  Identities=16%  Similarity=0.165  Sum_probs=22.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-.+++|+|+.|+|||||++.+..-
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhh
Confidence            4478999999999999999998865

>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=94.58  E-value=0.02  Score=45.65  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|.|+|.+|+|||||+..+.+.
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            346899999999999999999875

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.56  E-value=0.022  Score=48.88  Aligned_cols=25  Identities=24%  Similarity=0.372  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|.|+.|+||||+++.+...
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~   39 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKD   39 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999999876

>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=94.55  E-value=0.018  Score=50.07  Aligned_cols=23  Identities=17%  Similarity=0.374  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999998875

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.52  E-value=0.025  Score=48.19  Aligned_cols=38  Identities=21%  Similarity=0.123  Sum_probs=26.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      -.|.+.|.||+||||+|..++..+  ....++ +.++.+..
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l--~~~G~~-V~v~d~D~   44 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQ--LRQGVR-VMAGVVET   44 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH--HHTTCC-EEEEECCC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHH--HHCCCC-EEEEEeCC
Confidence            348889999999999999998873  233444 44444443

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=94.52  E-value=0.026  Score=46.42  Aligned_cols=25  Identities=24%  Similarity=0.468  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +...|+|+|.+|+|||||...+.+.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4577999999999999999999876

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.52  E-value=0.019  Score=50.54  Aligned_cols=24  Identities=21%  Similarity=0.237  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            368999999999999999998765

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=94.52  E-value=0.045  Score=49.75  Aligned_cols=30  Identities=30%  Similarity=0.246  Sum_probs=24.7

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          125 LMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       125 l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +.+...+++.+.|-||+||||+|..++..+
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~l   40 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQL   40 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHH
Confidence            344556888999999999999999988763

>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=94.48  E-value=0.057  Score=45.68  Aligned_cols=24  Identities=21%  Similarity=0.187  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..|.|.|+.|+||||+++.+.+.+
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999884

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.46  E-value=0.019  Score=50.10  Aligned_cols=23  Identities=22%  Similarity=0.419  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999876

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.46  E-value=0.019  Score=50.85  Aligned_cols=24  Identities=29%  Similarity=0.483  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            368999999999999999999875

>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=94.42  E-value=0.027  Score=47.38  Aligned_cols=26  Identities=19%  Similarity=0.224  Sum_probs=22.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +....|.|+|.+|+|||||+..+.+.
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34567999999999999999999876

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=94.41  E-value=0.022  Score=46.63  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.|+|+|.+|+|||||+..+...
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            46889999999999999999876

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.40  E-value=0.044  Score=50.13  Aligned_cols=25  Identities=20%  Similarity=0.370  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..+|+|+|.+|+|||||...+...
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~   97 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKM   97 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            4689999999999999999999864

>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=94.40  E-value=0.023  Score=45.12  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|+|+|.+|+|||||...+.+.
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            45899999999999999999865

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=94.38  E-value=0.13  Score=48.82  Aligned_cols=22  Identities=18%  Similarity=0.428  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|+|.+|+|||||...+...
T Consensus       226 kV~ivG~~nvGKSSLln~L~~~  247 (462)
T 3geh_A          226 KVAIVGRPNVGKSSLLNAWSQS  247 (462)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4899999999999999998765

>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=94.37  E-value=0.029  Score=45.04  Aligned_cols=24  Identities=21%  Similarity=0.410  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||...+...
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            346899999999999999999876

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.37  E-value=0.022  Score=50.17  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|+|+.|+|||||.+.++..
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999865

>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=94.37  E-value=0.024  Score=54.08  Aligned_cols=25  Identities=24%  Similarity=0.355  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+++|+|..|+|||||++.++..
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHH
Confidence            3569999999999999999999877

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=94.37  E-value=0.031  Score=46.40  Aligned_cols=25  Identities=24%  Similarity=0.469  Sum_probs=21.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +...|+|+|.+|+|||||...+.+.
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3456899999999999999998764

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.36  E-value=0.024  Score=48.79  Aligned_cols=25  Identities=12%  Similarity=0.259  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...|+|.|..|+||||+++.+++.+
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999999873

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.34  E-value=0.072  Score=44.41  Aligned_cols=50  Identities=16%  Similarity=0.126  Sum_probs=32.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHH
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      .|+|-|.-|+||||.++.+++.+.  ....+ +.+..-.......+..+.++.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~--~~g~~-v~~treP~~t~~~~~ir~~l~   51 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLE--KRGKK-VILKREPGGTETGEKIRKILL   51 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH--HTTCC-EEEEESSCSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH--HCCCc-EEEEECCCCCcHHHHHHHHhh
Confidence            478889999999999999998842  22233 444443334445555555553

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.33  E-value=0.025  Score=45.83  Aligned_cols=23  Identities=22%  Similarity=0.413  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|+|+|.+|+|||||...+...
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            46899999999999999999875

>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=94.33  E-value=0.025  Score=52.29  Aligned_cols=26  Identities=19%  Similarity=-0.023  Sum_probs=23.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+++|+|++|+|||||++.++..
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            34579999999999999999999875

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.26  E-value=0.026  Score=45.04  Aligned_cols=23  Identities=26%  Similarity=0.644  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||...+.+.
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35889999999999999999875

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=94.26  E-value=0.093  Score=50.72  Aligned_cols=85  Identities=13%  Similarity=0.141  Sum_probs=52.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHH----HhcC----------CCCCCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAM----ALKL----------SLTEDE  194 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~----~l~~----------~~~~~~  194 (359)
                      -..++|.|..|+|||+|+.++++. .    +-+.++++-+++.. ...++++++-+    .++.          ... +.
T Consensus       232 Gqr~~Ifgg~g~GKT~L~~~ia~~-~----~~~v~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~m~rtvvV~~ts-d~  305 (600)
T 3vr4_A          232 GGAAAVPGPFGAGKTVVQHQIAKW-S----DVDLVVYVGCGERGNEMTDVVNEFPELIDPNTGESLMERTVLIANTS-NM  305 (600)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHH-S----SCSEEEEEEEEECHHHHHHHHHHTTTCBCTTTCSBGGGGEEEEEEET-TS
T ss_pred             CCEEeeecCCCccHHHHHHHHHhc-c----CCCEEEEEEecccHHHHHHHHHHHHhhcccccccccccceEEEEECC-CC
Confidence            357999999999999999999886 2    23567788777663 44555544322    1111          001 11


Q ss_pred             cHHH------HHHHHHHHHhc-CCcEEEEEecC
Q 038454          195 DKVS------RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       195 ~~~~------~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ....      ..-.+.+++++ ++.+||++|++
T Consensus       306 p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~  338 (600)
T 3vr4_A          306 PVAAREASIYTGITIAEYFRDMGYDVAIMADST  338 (600)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEecch
Confidence            1111      12233455544 58999999999

>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=94.25  E-value=0.025  Score=45.14  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-.|+|+|.+|+|||||...+.+.
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346899999999999999999865

>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=94.25  E-value=0.026  Score=44.78  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||...+.+.
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            35899999999999999998765

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=94.25  E-value=0.022  Score=45.41  Aligned_cols=22  Identities=32%  Similarity=0.487  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||...+.+.
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCc
Confidence            5899999999999999998765

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.24  E-value=0.026  Score=44.88  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||...+.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999999865

>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=94.24  E-value=0.026  Score=44.96  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||...+.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4889999999999999999866

>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=94.21  E-value=0.026  Score=44.99  Aligned_cols=23  Identities=30%  Similarity=0.471  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||...+.+.
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            45899999999999999999876

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=94.21  E-value=0.026  Score=46.09  Aligned_cols=24  Identities=33%  Similarity=0.346  Sum_probs=21.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||+..+.+.
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            346889999999999999999876

>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=94.17  E-value=0.021  Score=48.84  Aligned_cols=24  Identities=25%  Similarity=0.273  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|.|+.|+|||||++.+...
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            468999999999999999988764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.16  E-value=0.035  Score=45.40  Aligned_cols=24  Identities=21%  Similarity=0.432  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+.+.
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            457999999999999999999876

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=94.15  E-value=0.027  Score=45.47  Aligned_cols=25  Identities=32%  Similarity=0.531  Sum_probs=21.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||...+.+.
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3457899999999999999998775

>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=94.13  E-value=0.024  Score=51.17  Aligned_cols=25  Identities=36%  Similarity=0.497  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++++|+|+.|+|||||.+.+...
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhh
Confidence            4689999999999999999999865

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.13  E-value=0.033  Score=44.42  Aligned_cols=23  Identities=22%  Similarity=0.346  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||+..+...
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~~   25 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGGL   25 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhc
Confidence            35899999999999999998653

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.12  E-value=0.025  Score=49.61  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999875

>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=94.12  E-value=0.02  Score=53.98  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+|.|+|.+|+||||++..++..
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~  122 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARY  122 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999999886

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=94.11  E-value=0.028  Score=46.08  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||+..+.+.
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46999999999999999888765

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=94.09  E-value=0.028  Score=45.33  Aligned_cols=24  Identities=33%  Similarity=0.459  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457999999999999999999876

>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=94.08  E-value=0.029  Score=45.20  Aligned_cols=24  Identities=29%  Similarity=0.524  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            346899999999999999999865

>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=94.07  E-value=0.028  Score=51.54  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            368999999999999999999875

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=94.06  E-value=0.029  Score=44.71  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45899999999999999999865

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=94.05  E-value=0.029  Score=45.81  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||...+.+.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            5889999999999999999876

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=94.03  E-value=0.026  Score=46.65  Aligned_cols=26  Identities=27%  Similarity=0.369  Sum_probs=22.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....-|+|+|.+|+|||||+..+...
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhC
Confidence            34467999999999999999999754

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.01  E-value=0.031  Score=45.05  Aligned_cols=24  Identities=33%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+.+.
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            346899999999999999998865

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.00  E-value=0.028  Score=46.38  Aligned_cols=23  Identities=17%  Similarity=-0.062  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++.++|+.|+||||++..++++
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~   26 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEI   26 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999877766

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=94.00  E-value=0.03  Score=45.93  Aligned_cols=24  Identities=21%  Similarity=0.397  Sum_probs=21.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||+..+.+.
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            346899999999999999998865

>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=93.99  E-value=0.035  Score=45.34  Aligned_cols=23  Identities=26%  Similarity=0.182  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.+|+|..|+|||||+.+++--
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~   49 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFV   49 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999998764

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=93.99  E-value=0.034  Score=46.41  Aligned_cols=27  Identities=26%  Similarity=0.334  Sum_probs=21.3

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....-.|+|+|.+|+|||||...+.+.
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhC
Confidence            344567899999999999999998865

>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=93.98  E-value=0.032  Score=44.46  Aligned_cols=23  Identities=17%  Similarity=0.306  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||...+.+.
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45899999999999999999864

>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=93.98  E-value=0.028  Score=52.17  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|+|.|+.|+||||||..++..
T Consensus         3 ~~i~i~GptgsGKttla~~La~~   25 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQK   25 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHH
Confidence            58999999999999999999877

>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=93.96  E-value=0.031  Score=44.39  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||...+.+.
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            3789999999999999999754

>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=93.93  E-value=0.02  Score=50.14  Aligned_cols=25  Identities=20%  Similarity=0.336  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +...|+|.|..|+||||+|+.+.+.
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            3578999999999999999998887

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.93  E-value=0.028  Score=47.41  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|+|.|+.|+||||+++.+...
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~   26 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASE   26 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999999876

>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=93.92  E-value=0.032  Score=45.97  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=20.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+.+.
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            457899999999999999999875

>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=93.91  E-value=0.033  Score=44.83  Aligned_cols=24  Identities=21%  Similarity=0.436  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|.|+|.+|+|||||...+.+.
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            457999999999999999999876

>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=93.89  E-value=0.03  Score=49.90  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            368999999999999999999876

>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=93.89  E-value=0.021  Score=51.19  Aligned_cols=24  Identities=25%  Similarity=0.369  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTTS
T ss_pred             CCEEEEECCCCchHHHHHHHHHcC
Confidence            468999999999999999998765

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=93.89  E-value=0.034  Score=44.45  Aligned_cols=24  Identities=29%  Similarity=0.484  Sum_probs=21.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356899999999999999999765

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=93.88  E-value=0.028  Score=45.37  Aligned_cols=25  Identities=20%  Similarity=0.446  Sum_probs=21.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...-|+|+|.+|+|||||+..+...
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3456899999999999999999765

>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=93.88  E-value=0.033  Score=53.89  Aligned_cols=25  Identities=28%  Similarity=0.291  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|.++|++|+||||+|+.++..
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~   58 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRY   58 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999999876

>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=93.87  E-value=0.033  Score=45.33  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||...+.+.
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            35899999999999999999876

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=93.86  E-value=0.036  Score=45.16  Aligned_cols=26  Identities=23%  Similarity=0.519  Sum_probs=22.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .....|+|+|.+|+|||||...+.+.
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcC
Confidence            44567999999999999999999876

>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=93.85  E-value=0.034  Score=45.13  Aligned_cols=24  Identities=33%  Similarity=0.480  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-.|+|+|.+|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356899999999999999999866

>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=93.84  E-value=0.034  Score=45.24  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|.|+|.+|+|||||+..+.+.
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            456899999999999999999865

>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=93.82  E-value=0.033  Score=51.14  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHhcC
Confidence            368999999999999999998875

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.82  E-value=0.034  Score=50.98  Aligned_cols=23  Identities=39%  Similarity=0.611  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        42 e~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            68999999999999999999865

>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=93.82  E-value=0.035  Score=44.70  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||...+...
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45899999999999999999864

>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=93.81  E-value=0.039  Score=50.62  Aligned_cols=23  Identities=22%  Similarity=0.218  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.+...
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            59999999999999999998776

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.79  E-value=0.035  Score=48.51  Aligned_cols=37  Identities=16%  Similarity=0.425  Sum_probs=26.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS  170 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~  170 (359)
                      ++|+|.|-||+||||+|..++..+.  .... .++-|+..
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la--~~G~-~VlliD~D   38 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLH--AMGK-TIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--TTTC-CEEEEEEC
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHH--HCCC-cEEEEcCC
Confidence            5788889999999999999988742  1222 35566554

>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=93.76  E-value=0.036  Score=44.96  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||...+.+.
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999998865

>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=93.76  E-value=0.036  Score=45.26  Aligned_cols=24  Identities=25%  Similarity=0.429  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||+..+.+.
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999999865

>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=93.74  E-value=0.026  Score=45.64  Aligned_cols=23  Identities=22%  Similarity=0.439  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+|+|||||+..+.+.
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            45899999999999999999865

>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=93.74  E-value=0.046  Score=52.59  Aligned_cols=26  Identities=4%  Similarity=-0.178  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...+|.+.|++|+||||+|+.++..+
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHH
Confidence            44689999999999999999999984

>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=93.73  E-value=0.037  Score=44.90  Aligned_cols=24  Identities=29%  Similarity=0.457  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||+..+.+.
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC
Confidence            356899999999999999999865

>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=93.73  E-value=0.069  Score=50.08  Aligned_cols=27  Identities=22%  Similarity=0.055  Sum_probs=23.3

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...-.+++|+|+.|+|||||.+.+...
T Consensus       164 ~~~ggii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          164 KRPHGIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             TSSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             HhcCCeEEEECCCCCCHHHHHHHHHhh
Confidence            344578999999999999999998876

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=93.72  E-value=0.063  Score=48.05  Aligned_cols=32  Identities=22%  Similarity=0.356  Sum_probs=25.8

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +++|...+..   .+++++|++|+|||||.+.+. .
T Consensus       156 i~~L~~~l~G---~i~~l~G~sG~GKSTLln~l~-~  187 (302)
T 2yv5_A          156 IDELVDYLEG---FICILAGPSGVGKSSILSRLT-G  187 (302)
T ss_dssp             HHHHHHHTTT---CEEEEECSTTSSHHHHHHHHH-S
T ss_pred             HHHHHhhccC---cEEEEECCCCCCHHHHHHHHH-H
Confidence            4455555542   589999999999999999999 6

>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=93.70  E-value=0.037  Score=45.44  Aligned_cols=24  Identities=29%  Similarity=0.501  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456999999999999999998875

>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=93.70  E-value=0.038  Score=44.72  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+...
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            356899999999999999998876

>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=93.70  E-value=0.036  Score=50.84  Aligned_cols=24  Identities=21%  Similarity=0.286  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCC
Confidence            368999999999999999999875

>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=93.69  E-value=0.036  Score=51.22  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcC
Confidence            368999999999999999999875

>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=93.67  E-value=0.037  Score=45.33  Aligned_cols=24  Identities=33%  Similarity=0.378  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||++.+.+.
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhh
Confidence            346899999999999999877765

>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=93.67  E-value=0.036  Score=44.91  Aligned_cols=24  Identities=21%  Similarity=0.375  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||+..+.+.
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            457999999999999999999854

>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=93.66  E-value=0.038  Score=44.66  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|.|+|.+|+|||||...+...
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            46899999999999999998865

>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=93.65  E-value=0.044  Score=45.18  Aligned_cols=25  Identities=24%  Similarity=0.546  Sum_probs=21.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...-|+|+|.+|+|||||+..+.+.
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456999999999999999999865

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=93.65  E-value=0.14  Score=50.82  Aligned_cols=63  Identities=16%  Similarity=0.090  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          115 KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       115 ~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      ....+.+...|...  .+..|+|++|.|||+.+.++...+  ....  ..+.|+...+..+..++..+.
T Consensus       192 ~~Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l--~~~~--~~ILv~a~TN~AvD~i~erL~  254 (646)
T 4b3f_X          192 TSQKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQA--VKQG--LKVLCCAPSNIAVDNLVERLA  254 (646)
T ss_dssp             HHHHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHH--HHTT--CCEEEEESSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHH--HhCC--CeEEEEcCchHHHHHHHHHHH
Confidence            33455666666544  467899999999997666655542  2222  356677666655666666554

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.65  E-value=0.038  Score=50.80  Aligned_cols=24  Identities=21%  Similarity=0.319  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            368999999999999999999875

>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=93.64  E-value=0.038  Score=45.74  Aligned_cols=24  Identities=29%  Similarity=0.457  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+...
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            456999999999999999999765

>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=93.60  E-value=0.04  Score=44.45  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+.+.
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            346899999999999999998865

>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=93.60  E-value=0.039  Score=50.97  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCcHHHHHHHHHHcC
Confidence            68999999999999999999865

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=93.60  E-value=0.041  Score=48.70  Aligned_cols=37  Identities=22%  Similarity=0.385  Sum_probs=26.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS  170 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~  170 (359)
                      ++|+|.|-||+||||+|..++..+.+  ... .++-|+..
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~--~G~-rVlliD~D   39 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAE--MGK-KVMIVGCD   39 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHH--TTC-CEEEEEEC
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHH--CCC-eEEEEecC
Confidence            67888999999999999999887422  222 25555554

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=93.58  E-value=0.039  Score=45.76  Aligned_cols=25  Identities=32%  Similarity=0.525  Sum_probs=21.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||...+.+.
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3457999999999999999999876

>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=93.57  E-value=0.036  Score=51.04  Aligned_cols=24  Identities=13%  Similarity=0.322  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++|+|..|+|||||++.+...
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999998876

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=93.56  E-value=0.04  Score=45.53  Aligned_cols=22  Identities=18%  Similarity=0.367  Sum_probs=19.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      .-|+|+|.+|+|||||...+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999874

>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=93.55  E-value=0.039  Score=50.88  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            368999999999999999999865

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=93.54  E-value=0.042  Score=45.43  Aligned_cols=24  Identities=21%  Similarity=0.364  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|.|+|.+|+|||||+..+.+.
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            356999999999999999988775

>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=93.54  E-value=0.021  Score=47.71  Aligned_cols=25  Identities=16%  Similarity=0.320  Sum_probs=21.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||.+.+...
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999988765

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=93.52  E-value=0.043  Score=45.47  Aligned_cols=24  Identities=25%  Similarity=0.339  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||+..+.+.
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999999876

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=93.51  E-value=0.041  Score=46.03  Aligned_cols=24  Identities=33%  Similarity=0.346  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999999876

>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=93.50  E-value=0.056  Score=49.94  Aligned_cols=26  Identities=27%  Similarity=0.268  Sum_probs=22.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-.+++|+|+.|+|||||++.+...
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            34468999999999999999998875

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=93.50  E-value=0.03  Score=45.91  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|+|+|.+|+|||||...+...
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPS   44 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            56899999999999999999876

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=93.49  E-value=0.042  Score=46.02  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999999865

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=93.49  E-value=0.032  Score=46.22  Aligned_cols=24  Identities=21%  Similarity=0.390  Sum_probs=20.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      ....|+|+|.+|+|||||...+..
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTCC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHh
Confidence            345799999999999999999853

>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=93.48  E-value=0.042  Score=45.22  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            356999999999999999999876

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.48  E-value=0.053  Score=49.37  Aligned_cols=26  Identities=19%  Similarity=0.542  Sum_probs=22.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+++|+|.+|+|||||.+.+...
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~   78 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSL   78 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            45679999999999999999999854

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=93.47  E-value=0.049  Score=46.27  Aligned_cols=25  Identities=20%  Similarity=0.287  Sum_probs=22.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||+..+...
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999999876

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.46  E-value=0.042  Score=45.80  Aligned_cols=24  Identities=33%  Similarity=0.540  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||+..+.+.
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            457899999999999999998765

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=93.46  E-value=0.055  Score=44.43  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+...
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            456899999999999999999876

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.45  E-value=0.043  Score=45.52  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||+..+.+.
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhC
Confidence            457999999999999999999876

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=93.43  E-value=0.044  Score=44.88  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|+|+|.+|+|||||...+.+.
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            56899999999999999999865

>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=93.42  E-value=0.044  Score=44.83  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||...+...
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            356999999999999999999876

>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=93.40  E-value=0.13  Score=43.10  Aligned_cols=49  Identities=20%  Similarity=0.251  Sum_probs=31.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      ..|+|-|.-|+||||+++.+++.+   ...++ +++..-.......+.++.++
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L---~~~~~-v~~~~eP~~t~~g~~ir~~l   51 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL---VKDYD-VIMTREPGGVPTGEEIRKIV   51 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH---TTTSC-EEEEESSTTCHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH---HCCCC-EEEeeCCCCChHHHHHHHHH
Confidence            468899999999999999999884   23444 33333322333444445444

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=93.40  E-value=0.045  Score=45.02  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            356899999999999999999876

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.37  E-value=0.046  Score=44.86  Aligned_cols=24  Identities=21%  Similarity=0.422  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            456999999999999999999876

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=93.36  E-value=0.046  Score=44.87  Aligned_cols=23  Identities=22%  Similarity=0.423  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|.|+|.+|+|||||...+.+.
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            46899999999999999999865

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=93.35  E-value=0.046  Score=46.37  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|+.++.+.
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            4889999999999999998765

>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=93.34  E-value=0.033  Score=50.90  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCccHHHHHHHHHcC
Confidence            68999999999999999999875

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.34  E-value=0.058  Score=46.11  Aligned_cols=25  Identities=28%  Similarity=0.318  Sum_probs=19.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...|.|.|+.|+||||+++.+++.+
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            3689999999999999999999884

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=93.33  E-value=0.078  Score=45.43  Aligned_cols=41  Identities=22%  Similarity=0.208  Sum_probs=28.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHH
Q 038454          133 IGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLV  176 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  176 (359)
                      |+|.|-||+||||+|..++..+.+  .. ..++-|+.....++.
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~--~g-~~VlliD~D~~~~l~   43 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMAS--DY-DKIYAVDGDPDSCLG   43 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTT--TC-SCEEEEEECTTSCHH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHH--CC-CeEEEEeCCCCcChH
Confidence            667999999999999999887422  22 336666665444433

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.33  E-value=0.044  Score=46.91  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.|++|+||||+|+.+.+.
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~   31 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEK   31 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999887

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=93.33  E-value=0.046  Score=45.20  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=20.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356899999999999999999865

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.31  E-value=0.048  Score=44.36  Aligned_cols=23  Identities=17%  Similarity=0.287  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|.|.|.+|+||||||..+..+
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            56899999999999999998875

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.31  E-value=0.043  Score=45.98  Aligned_cols=23  Identities=13%  Similarity=0.150  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.|.|+.|+||||+++.++..
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~   29 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEH   29 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHH
Confidence            58999999999999999999987

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=93.29  E-value=0.046  Score=45.35  Aligned_cols=25  Identities=24%  Similarity=0.353  Sum_probs=21.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...-|+|+|.+|+|||||...+.+.
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456899999999999999998765

>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=93.26  E-value=0.048  Score=44.61  Aligned_cols=24  Identities=29%  Similarity=0.299  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            457999999999999999999765

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=93.26  E-value=0.047  Score=44.88  Aligned_cols=24  Identities=21%  Similarity=0.408  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+.+.
T Consensus        17 ~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           17 KLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            467999999999999999999876

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=93.25  E-value=0.048  Score=45.12  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=21.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...-|+|+|.+|+|||||+..+...
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            3467999999999999999999865

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.24  E-value=0.041  Score=50.63  Aligned_cols=23  Identities=35%  Similarity=0.429  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||++.+...
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            58999999999999999999887

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=93.24  E-value=0.056  Score=46.35  Aligned_cols=25  Identities=32%  Similarity=0.323  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||...+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCC
Confidence            4567999999999999999999876

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=93.23  E-value=0.049  Score=44.56  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|+|+|.+|+|||||...+.+.
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            46899999999999999999876

>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=93.23  E-value=0.047  Score=44.83  Aligned_cols=24  Identities=21%  Similarity=0.322  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcC
Confidence            346999999999999999998865

>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=93.19  E-value=0.094  Score=48.30  Aligned_cols=46  Identities=24%  Similarity=0.353  Sum_probs=30.6

Q ss_pred             ccccccch-HHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENT-KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|... .......+..+.... ..|.|+|.+|+||+++|+.+.+.
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a~~~-~~vli~GesGtGKe~lAr~ih~~  175 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIAKSK-APVLITGESGTGKEIVARLIHRY  175 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHTSC-SCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHhhhhhhhccc-hhheEEeCCCchHHHHHHHHHHh
Confidence            45788766 222333333344443 34679999999999999998765

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.19  E-value=0.05  Score=44.76  Aligned_cols=24  Identities=25%  Similarity=0.524  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            356899999999999999999865

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=93.17  E-value=0.05  Score=45.23  Aligned_cols=24  Identities=21%  Similarity=0.450  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            456899999999999999999865

>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=93.17  E-value=0.049  Score=50.58  Aligned_cols=24  Identities=21%  Similarity=0.423  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            368999999999999999999864

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=93.16  E-value=0.049  Score=51.97  Aligned_cols=25  Identities=28%  Similarity=0.247  Sum_probs=22.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|.++|++|+||||+++.++..
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999876

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=93.16  E-value=0.046  Score=44.45  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|+|+|.+|+|||||...+.+.
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            56899999999999999999865

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=93.15  E-value=0.041  Score=49.26  Aligned_cols=21  Identities=24%  Similarity=0.442  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q 038454          132 KIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      -|+|+|.+|+|||||.+.++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            469999999999999999775

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=93.13  E-value=0.061  Score=50.30  Aligned_cols=24  Identities=25%  Similarity=0.428  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+++|+|..|+|||||.+.+...
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCC
Confidence            458999999999999999999883

>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=93.13  E-value=0.062  Score=48.94  Aligned_cols=27  Identities=22%  Similarity=0.379  Sum_probs=23.3

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+..+|+|+|.+|+|||||+..+...
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~   79 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGML   79 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHH
Confidence            355689999999999999999998754

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=93.11  E-value=0.051  Score=45.86  Aligned_cols=23  Identities=17%  Similarity=0.335  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      ..-|+|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35699999999999999999874

>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=93.11  E-value=0.052  Score=44.59  Aligned_cols=22  Identities=23%  Similarity=0.084  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++.|+|.+|+||||+|.+++..
T Consensus         1 ~ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            1 MILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHCS
T ss_pred             CEEEECCCCCcHHHHHHHHHhc
Confidence            3789999999999999998854

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=93.10  E-value=0.055  Score=48.40  Aligned_cols=25  Identities=16%  Similarity=0.300  Sum_probs=22.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||...+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3468999999999999999999876

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=93.09  E-value=0.051  Score=45.67  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=20.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            356899999999999999999865

>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=93.04  E-value=0.031  Score=51.19  Aligned_cols=24  Identities=38%  Similarity=0.567  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            368999999999999999999865

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=93.02  E-value=0.045  Score=45.05  Aligned_cols=23  Identities=26%  Similarity=0.521  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|+|+|.+|+|||||...+.+.
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999999765

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=93.01  E-value=0.089  Score=47.01  Aligned_cols=33  Identities=27%  Similarity=0.474  Sum_probs=26.3

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++++..++..   .+++|+|++|+|||||.+.+...
T Consensus       160 v~~lf~~l~g---eiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          160 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHHHHHhcC---CeEEEECCCCCcHHHHHHHhccc
Confidence            4455555543   58999999999999999999876

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.00  E-value=0.055  Score=44.42  Aligned_cols=23  Identities=35%  Similarity=0.408  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|+|+|.+|+|||||+..+.+.
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999866

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.00  E-value=0.054  Score=45.14  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|+|+|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            56999999999999999999875

>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=92.98  E-value=0.061  Score=47.15  Aligned_cols=24  Identities=21%  Similarity=0.385  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999999876

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=92.97  E-value=0.53  Score=47.14  Aligned_cols=24  Identities=21%  Similarity=0.235  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+...
T Consensus        69 ~~~V~VvG~~naGKSSLlNaLlg~   92 (695)
T 2j69_A           69 VFRLLVLGDMKRGKSTFLNALIGE   92 (695)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            356999999999999999999876

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=92.94  E-value=0.056  Score=45.11  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||+..+.+.
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999999865

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=92.91  E-value=0.057  Score=44.83  Aligned_cols=25  Identities=20%  Similarity=0.317  Sum_probs=21.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...-|+|+|.+|+|||||+..+.+.
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhC
Confidence            3457999999999999999999765

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=92.89  E-value=0.056  Score=49.42  Aligned_cols=25  Identities=28%  Similarity=0.519  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-.+++|+|..|+|||||.+.+.+.
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999999987

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=92.89  E-value=0.087  Score=50.66  Aligned_cols=48  Identities=15%  Similarity=0.176  Sum_probs=34.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEI  182 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i  182 (359)
                      -..++|.|..|+|||+|+.++++. .    +-+.++++-+++.. ...++.+++
T Consensus       221 Gqr~~Ifg~~g~GKT~l~~~ia~~-~----~~~v~V~~~iGER~~Ev~e~~~~~  269 (578)
T 3gqb_A          221 GGTAAIPGPFGSGKSVTQQSLAKW-S----NADVVVYVGSGERGNEMTDVLVEF  269 (578)
T ss_dssp             TCEEEECCCTTSCHHHHHHHHHHH-S----SCSEEEEEEEEECHHHHHHHHTTG
T ss_pred             CCEEeeeCCCCccHHHHHHHHHhc-c----CCCEEEEEEecccHHHHHHHHHHH
Confidence            357999999999999999999886 2    23567787777663 344444443

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=92.88  E-value=0.04  Score=53.65  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=22.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|+|+|+.|+|||||++.++..
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHh
Confidence            468999999999999999999987

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.87  E-value=0.059  Score=44.90  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||...+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457899999999999999999865

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=92.85  E-value=0.06  Score=44.65  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|+|+|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999875

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=92.82  E-value=0.045  Score=49.68  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|..|+|||||++.+..-
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999876

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=92.76  E-value=0.036  Score=45.00  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=10.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-|+|+|.+|+|||||+..+.+.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456999999999999999988765

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=92.76  E-value=0.062  Score=45.16  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|.|+|.+|+|||||...+.+.
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            46889999999999999999865

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=92.73  E-value=0.15  Score=48.07  Aligned_cols=24  Identities=25%  Similarity=0.472  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+...
T Consensus       180 ~~kvaivG~~gvGKSTLln~l~g~  203 (439)
T 1mky_A          180 AIKVAIVGRPNVGKSTLFNAILNK  203 (439)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CceEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999999876

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=92.73  E-value=0.065  Score=44.92  Aligned_cols=24  Identities=25%  Similarity=0.427  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            456999999999999999999875

>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=92.68  E-value=0.065  Score=49.09  Aligned_cols=23  Identities=17%  Similarity=0.235  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|++|+|||||.+.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            58999999999999999999876

>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=92.67  E-value=0.086  Score=51.58  Aligned_cols=26  Identities=27%  Similarity=0.155  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...+|.|.|++|+||||+|+.+...+
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L  420 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTL  420 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999999873

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=92.65  E-value=0.086  Score=43.72  Aligned_cols=43  Identities=21%  Similarity=0.326  Sum_probs=29.1

Q ss_pred             cEEEEE-cCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHH
Q 038454          131 TKIGVW-GMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLV  176 (359)
Q Consensus       131 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  176 (359)
                      ++|+|+ +-||+||||+|..++..+..  ... .++.++.....+..
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~--~g~-~vlliD~D~~~~~~   45 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSR--SGY-NIAVVDTDPQMSLT   45 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHH--TTC-CEEEEECCTTCHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHH--CCC-eEEEEECCCCCCHH
Confidence            578887 57999999999999887422  222 36667765444433

>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=92.64  E-value=0.091  Score=46.23  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCC
Confidence            356999999999999999999875

>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=92.61  E-value=0.073  Score=47.73  Aligned_cols=25  Identities=20%  Similarity=0.409  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||..++...
T Consensus         9 ~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            9 KVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4578999999999999999999875

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=92.58  E-value=0.09  Score=43.92  Aligned_cols=25  Identities=16%  Similarity=0.117  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|+|+|++|+||+|+|..+.+.
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~   34 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSR   34 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHH
Confidence            4579999999999999999988764

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=92.56  E-value=0.046  Score=46.04  Aligned_cols=25  Identities=20%  Similarity=0.278  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||...+...
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            4567999999999999999999876

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.54  E-value=0.057  Score=51.36  Aligned_cols=25  Identities=20%  Similarity=0.276  Sum_probs=22.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-.+++|+|+.|+|||||++.++.-
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCc
Confidence            3468999999999999999999876

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=92.50  E-value=0.15  Score=45.07  Aligned_cols=25  Identities=24%  Similarity=0.444  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||...+...
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~   49 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTS
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCC
Confidence            4568999999999999999999876

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=92.50  E-value=0.12  Score=45.04  Aligned_cols=25  Identities=24%  Similarity=0.448  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||...+...
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4567999999999999999999876

>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=92.46  E-value=0.07  Score=52.57  Aligned_cols=25  Identities=20%  Similarity=0.340  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+|.|.|++|+||||+|+.+.+.
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~   75 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEY   75 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999887

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=92.45  E-value=0.083  Score=45.85  Aligned_cols=25  Identities=28%  Similarity=0.272  Sum_probs=21.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|+|+|.+|+|||||...+...
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~   45 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRK   45 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999999865

>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=92.40  E-value=0.063  Score=50.35  Aligned_cols=27  Identities=26%  Similarity=0.313  Sum_probs=21.7

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+...-++|+|..|+|||||.+.++..
T Consensus        39 ~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           39 QGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             -CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            343334999999999999999999875

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=92.32  E-value=0.071  Score=46.50  Aligned_cols=44  Identities=16%  Similarity=0.252  Sum_probs=30.2

Q ss_pred             CCccEEEEEc-CCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH
Q 038454          128 DKVTKIGVWG-MGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL  175 (359)
Q Consensus       128 ~~~~vi~I~G-~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  175 (359)
                      ...++|+|++ -||+||||+|..++..+.  . . ..++-|+.....+.
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la--~-g-~~VlliD~D~~~~~   69 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS--K-N-NKVLLIDMDTQASI   69 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT--T-T-SCEEEEEECTTCHH
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH--C-C-CCEEEEECCCCCCH
Confidence            3567888865 699999999999998842  2 2 34666776554433

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=92.28  E-value=0.21  Score=45.70  Aligned_cols=27  Identities=33%  Similarity=0.233  Sum_probs=21.4

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +...++...|-||+||||+|..++..+
T Consensus        16 ~~~~i~v~sgKGGvGKTTvaanLA~~l   42 (354)
T 2woj_A           16 TTHKWIFVGGKGGVGKTTSSCSIAIQM   42 (354)
T ss_dssp             SSCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            344667777899999999999887664

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=92.25  E-value=0.097  Score=48.29  Aligned_cols=41  Identities=17%  Similarity=0.289  Sum_probs=29.7

Q ss_pred             CCccEEEEEc-CCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          128 DKVTKIGVWG-MGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       128 ~~~~vi~I~G-~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      .+.++|+|+| -||+||||+|..++..+.. . . ..++.++...
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~-~-g-~rVlliD~D~  182 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHAN-M-G-KKVFYLNIEQ  182 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHH-H-T-CCEEEEECCT
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHh-C-C-CCEEEEECCC
Confidence            3578899986 8999999999999887422 1 1 2367777663

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=92.23  E-value=0.17  Score=45.81  Aligned_cols=28  Identities=29%  Similarity=0.258  Sum_probs=22.5

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ++...++.+.|-||+||||+|..++..+
T Consensus        16 ~~~~~i~v~sgkGGvGKTTva~~LA~~l   43 (329)
T 2woo_A           16 QTSLKWIFVGGKGGVGKTTTSCSLAIQM   43 (329)
T ss_dssp             CTTCCEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            3445677788999999999999988763

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=92.20  E-value=0.087  Score=42.98  Aligned_cols=26  Identities=23%  Similarity=0.437  Sum_probs=21.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .....|+|+|.+|+|||||...+...
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~   45 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLG   45 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcC
Confidence            34567999999999999999998654

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=92.13  E-value=0.09  Score=46.98  Aligned_cols=24  Identities=13%  Similarity=0.279  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||..++...
T Consensus         7 ~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            7 SGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999875

>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=92.12  E-value=0.092  Score=45.72  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|+++|.+|+|||||...+...
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            56899999999999999999876

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=92.11  E-value=0.082  Score=44.63  Aligned_cols=24  Identities=25%  Similarity=0.470  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            456999999999999999998865

---

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	359
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-21

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 89.9 bits (222), Expect = 3e-21
 Identities = 39/280 (13%), Positives = 75/280 (26%), Gaps = 44/280 (15%)

Query: 94  IDAPPSSGLILPTTTLVGENTKKIVKKVWEDLM---GDKVTKIGVWGMGGFGKTAIMRHI 150
           +D     G +    T      +  V +V + L          + + G  G GK+ I    
Sbjct: 7   LDRKLLLGNVPKQMTCYI--REYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQA 64

Query: 151 NNRPQEETNEFSD-VIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSR---------A 200
            ++  +      D ++W+  S             + L L   +D                
Sbjct: 65  LSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLK 124

Query: 201 RRLLGKLKAKKKFVLILDDIDNHTFCWGLRSMGC-------------------EEVRVPP 241
           R +   L  +   + + DD+         + +                     E + V  
Sbjct: 125 RMICNALIDRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTS 184

Query: 242 LSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWR 301
           L  +E  +            V    E+++N  +E  +G    +              +  
Sbjct: 185 LEIDECYDFLEAYGMPM--PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMA 241

Query: 302 NALNELRGLVRSFSGINADVLGRLEFSYLRLKDKKVQHCF 341
              N+L       S     V     +SY  L    +Q C 
Sbjct: 242 QLNNKLE------SRGLVGVECITPYSYKSL-AMALQRCV 274

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	359
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.34
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.09
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.05
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.04
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.98
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.97
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.88
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.86
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.83
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.79
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.73
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.73
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.7
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.64
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.58
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.52
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.52
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.44
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.43
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.43
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.11
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.74
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.49
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.45
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.43
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.34
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.34
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.34
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.33
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.33
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.31
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.31
d1okkd2	207	GTPase domain of the signal recognition particle r	97.28
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.25
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.24
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.22
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.22
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.21
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.2
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.19
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.18
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.16
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.11
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.1
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.05
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.01
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.97
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.96
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.96
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.95
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.95
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.92
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.89
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.89
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.89
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.86
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.86
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.85
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.81
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.78
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.72
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.7
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.7
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.69
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.68
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.67
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.58
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.49
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.44
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.43
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.42
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.33
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.27
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.25
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.25
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.18
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.18
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.17
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.17
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.17
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.17
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	96.17
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.17
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.15
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.14
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.13
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.13
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.12
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.01
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.99
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.97
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.97
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.93
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.87
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.82
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.76
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.59
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.57
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.57
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.55
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.5
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.48
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.44
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.42
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.41
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.39
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.35
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.34
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.29
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.28
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.27
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.27
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.23
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	95.21
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.19
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.18
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.13
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.11
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.08
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.07
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.05
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.04
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.03
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.02
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.01
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.01
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.99
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.96
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.95
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.95
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.93
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.9
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.89
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.86
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.84
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.84
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.81
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.8
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.78
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.78
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.78
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.75
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.73
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.72
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.71
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.71
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.71
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.69
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.69
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.67
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	94.66
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.66
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.65
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.63
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.62
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.6
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.59
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.59
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.54
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.54
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.51
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.51
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.51
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.47
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.47
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.44
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.41
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.4
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.39
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.38
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.31
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.31
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.28
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.27
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.24
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.17
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.16
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.15
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.13
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.13
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.09
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.08
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.08
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.07
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.04
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.01
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.96
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.96
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.94
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.93
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.89
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.87
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.86
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.82
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	93.8
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.74
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.72
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.69
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.69
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.69
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	93.61
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.6
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.53
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	93.53
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.45
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.42
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.39
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.38
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.35
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.18
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.17
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.15
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.0
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	93.0
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	92.92
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	92.9
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.88
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.82
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	92.8
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	91.5
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.37
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	91.02
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.42
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.4
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	90.11
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	90.06
d1tuea_	205	Replication protein E1 helicase domain {Human papi	89.51
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.48
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	89.07
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	88.61
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	88.57
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	88.55
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	87.98
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	87.93
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.18
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	87.09
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	86.86
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	86.86
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	86.23
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	85.46
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	85.4
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	85.4
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	84.75
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	84.64
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	84.28
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	84.27
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	83.65
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.34
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	82.21
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	81.91

>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=100.00  E-value=3.3e-40  Score=296.02  Aligned_cols=227  Identities=15%  Similarity=0.139  Sum_probs=178.1

Q ss_pred             CcccccccchHHHHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHcCcc-cccCCCccEEEEEeCCCcCHHHHHH
Q 038454          105 PTTTLVGENTKKIVKKVWEDLM---GDKVTKIGVWGMGGFGKTAIMRHINNRPQ-EETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~~-~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      +.+.++||+.  ++++|+++|.   +.+.++|+|+||||+||||||+++|++.. ....+|++++||++++.++...+..
T Consensus        18 ~~~~~~gR~~--~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~   95 (277)
T d2a5yb3          18 KQMTCYIREY--HVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDL   95 (277)
T ss_dssp             CCCCSCCCHH--HHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHH
T ss_pred             CCCceeCcHH--HHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHH
Confidence            4567899976  8999999884   45678999999999999999999998622 2566799999999999888776666


Q ss_pred             HHHHHh---cCCCC-------CCccHHHHHHHHHHHHhcCCcEEEEEecC----------CCC-eEEEeec------cc-
Q 038454          181 EIAMAL---KLSLT-------EDEDKVSRARRLLGKLKAKKKFVLILDDI----------DNH-TFCWGLR------SM-  232 (359)
Q Consensus       181 ~i~~~l---~~~~~-------~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----------~~g-~ilvTtr------~~-  232 (359)
                      .+...+   +....       ...........+.+.+.+ +++|+||||+          ..| +||+|||      .. 
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~-kr~LlVLDDv~~~~~~~~~~~~~srilvTTR~~~v~~~~~  174 (277)
T d2a5yb3          96 FTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDR-PNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAAS  174 (277)
T ss_dssp             HHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTS-TTEEEEEEEECCHHHHHHHHHTTCEEEEEESBGGGGGGCC
T ss_pred             HHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhcc-CCeeEecchhhHHhhhhhhcccCceEEEEeehHHHHHhcC
Confidence            554433   22111       112223333456667777 9999999999          467 9999999      11 


Q ss_pred             -ceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHHHhhcCCCChhHHHHHHHHHhhcc
Q 038454          233 -GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVVGCMRGVDEIHEWRNALNELRGLV  311 (359)
Q Consensus       233 -~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~~~L~~~~~~~~w~~~l~~~~~~~  311 (359)
                       ....|++++|+.+||++||...+|...  ..+..++++++|+++|+|+||||+++|+.|+. ++.+.|.+..+.+... 
T Consensus       175 ~~~~~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~-k~~~~~~~~~~~L~~~-  250 (277)
T d2a5yb3         175 QTCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLESR-  250 (277)
T ss_dssp             SCEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SSHHHHHHHHHHHHHH-
T ss_pred             CCCceEECCCCCHHHHHHHHHHHhCCcc--CchhhHHHHHHHHHHhCCCHHHHHHHHHHhcc-CCHHHHHHHHHHHhcC-
Confidence             124699999999999999999887653  34556888999999999999999999999987 7889999988888642 


Q ss_pred             cccCCChhhHhhHHHHhhhcCCCcchhHHHhhc
Q 038454          312 RSFSGINADVLGRLEFSYLRLKDKKVQHCFLYC  344 (359)
Q Consensus       312 ~~~~~~~~~~~~~l~~sy~~L~~~~~k~cf~~~  344 (359)
                           ...++..++.+||+.| |+++|.||.++
T Consensus       251 -----~~~~v~~il~~sY~~L-~~~lk~c~~~l  277 (277)
T d2a5yb3         251 -----GLVGVECITPYSYKSL-AMALQRCVEVL  277 (277)
T ss_dssp             -----CSSTTCCCSSSSSSSH-HHHHHHHHHTS
T ss_pred             -----cHHHHHHHHHHHHhcc-cHHHHHHHHhC
Confidence                 2366889999999999 99999999874

>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=99.34  E-value=1e-11  Score=108.62  Aligned_cols=174  Identities=13%  Similarity=0.117  Sum_probs=107.1

Q ss_pred             CcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeC-----CCcCHHHHH
Q 038454          105 PTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS-----QPLDLVKLQ  179 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~-----~~~~~~~~~  179 (359)
                      .+..||||+.  ++++|.+.    ..++|.|+|++|+|||+|++++.++   ....   ..|+.+.     .......+.
T Consensus        10 ~~~~f~GR~~--el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~---~~~~---~~~i~~~~~~~~~~~~~~~~~   77 (283)
T d2fnaa2          10 NRKDFFDREK--EIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINE---LNLP---YIYLDLRKFEERNYISYKDFL   77 (283)
T ss_dssp             SGGGSCCCHH--HHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHH---HTCC---EEEEEGGGGTTCSCCCHHHHH
T ss_pred             ChhhCCChHH--HHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHH---CCCC---eEEEEeccccccccccHHHHH
Confidence            3689999976  88888663    3478999999999999999999887   2222   3455432     122344444


Q ss_pred             HHHHHHhcC-----------------------------CCCCCccHHHHHHHHHHHHhcCCcEEEEEecC----------
Q 038454          180 AEIAMALKL-----------------------------SLTEDEDKVSRARRLLGKLKAKKKFVLILDDI----------  220 (359)
Q Consensus       180 ~~i~~~l~~-----------------------------~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----------  220 (359)
                      ..+......                             ......+.......+. ... ++++++|+|++          
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~-~~~~~i~id~~~~~~~~~~~~  155 (283)
T d2fnaa2          78 LELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QAS-KDNVIIVLDEAQELVKLRGVN  155 (283)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTC-SSCEEEEEETGGGGGGCTTCC
T ss_pred             HHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhc-ccccccccchhhhhcccchHH
Confidence            444433210                             0001112223332222 122 48999999987          


Q ss_pred             -----------CCC-eEEEeec----------c---------cceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHH
Q 038454          221 -----------DNH-TFCWGLR----------S---------MGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEI  269 (359)
Q Consensus       221 -----------~~g-~ilvTtr----------~---------~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~  269 (359)
                                 ... ..+++++          .         .....+.|++++.+++.+++.+.+-..+. ..+    .
T Consensus       156 ~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~-~~~----~  230 (283)
T d2fnaa2         156 LLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADI-DFK----D  230 (283)
T ss_dssp             CHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTC-CCC----C
T ss_pred             HHHHHHHHHHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCC-CHH----H
Confidence                       344 4444433          0         01245899999999999998876532221 111    2


Q ss_pred             HHHHHHHcCCchhHHHHHHHhhcCCCCh
Q 038454          270 INSVVEECAGLQLAIFTVVGCMRGVDEI  297 (359)
Q Consensus       270 ~~~i~~~c~g~Plai~~~~~~L~~~~~~  297 (359)
                      .++|++.++|+|..+..++..+....+.
T Consensus       231 ~~~i~~~~~G~P~~L~~~~~~~~~~~~~  258 (283)
T d2fnaa2         231 YEVVYEKIGGIPGWLTYFGFIYLDNKNL  258 (283)
T ss_dssp             HHHHHHHHCSCHHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccH
Confidence            4689999999999999998776543333

>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=99.09  E-value=1.4e-08  Score=87.99  Aligned_cols=145  Identities=17%  Similarity=0.246  Sum_probs=100.0

Q ss_pred             cccccccchHHHHHHHHHHhc----C--CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM----G--DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKL  178 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~----~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~  178 (359)
                      +..++||+.  +++.+.++|.    +  ..++.+.|+|++|+|||++|+.+++.   ..+.+. ..+|+...........
T Consensus        15 p~~l~~Re~--ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~---l~~~~~~~~~~~~~~~~~~~~~~   89 (276)
T d1fnna2          15 PKRLPHREQ--QLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL---YKDKTTARFVYINGFIYRNFTAI   89 (276)
T ss_dssp             CSCCTTCHH--HHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH---HTTSCCCEEEEEETTTCCSHHHH
T ss_pred             CCCCCCHHH--HHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHH---HhcccCCcEEEecchhhhhhhhh
Confidence            456899976  7777777764    2  34678999999999999999999988   333333 3567777777888889


Q ss_pred             HHHHHHHhcCCCC-CCccHHHHHHHHHHHHhc-CCcEEEEEecC---------------------CCC--eEEEeec---
Q 038454          179 QAEIAMALKLSLT-EDEDKVSRARRLLGKLKA-KKKFVLILDDI---------------------DNH--TFCWGLR---  230 (359)
Q Consensus       179 ~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv---------------------~~g--~ilvTtr---  230 (359)
                      ...+...++.... ...........+.+.+.. ....++++|++                     ...  .++.++.   
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  169 (276)
T d1fnna2          90 IGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDA  169 (276)
T ss_dssp             HHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTH
T ss_pred             hhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchh
Confidence            9999888776433 233445555555555543 35667777776                     223  4444444   


Q ss_pred             -----------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          231 -----------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       231 -----------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                                 ......+.+.+.+.++.++++.+.+
T Consensus       170 ~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         170 VLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             HHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hhhhcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence                       1112457899999999999988765

>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=99.05  E-value=2.5e-09  Score=90.65  Aligned_cols=158  Identities=17%  Similarity=0.282  Sum_probs=105.0

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .++.|..|+.++..+-+.++|++|+||||+|+.+++.+  ....+. .+.-++.+...+...+...+..
T Consensus        14 ~~d~ig~~~--~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l--~~~~~~~~~~~~n~~~~~~~~~i~~~~~~   89 (224)
T d1sxjb2          14 LSDIVGNKE--TIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL--LGRSYADGVLELNASDDRGIDVVRNQIKH   89 (224)
T ss_dssp             GGGCCSCTH--HHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH--HGGGHHHHEEEECTTSCCSHHHHHTHHHH
T ss_pred             HHHhcCCHH--HHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHH--hccccccccccccccccCCceehhhHHHH
Confidence            467999976  88999999999888888899999999999999998873  111111 2444555555444444333322


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------ccceee
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGCEE  236 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~~  236 (359)
                      .......               ....+.-++|+|++                  ... .++++|.         ...+..
T Consensus        90 ~~~~~~~---------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~  154 (224)
T d1sxjb2          90 FAQKKLH---------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAI  154 (224)
T ss_dssp             HHHBCCC---------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHhhcc---------------CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHH
Confidence            2221110               00125678889998                  333 5666665         234567


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHH
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIF  285 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~  285 (359)
                      +.+.+++.++-...+.+.+...+...   ..+....|++.|+|.+-.+.
T Consensus       155 i~~~~~~~~~i~~~l~~i~~~e~~~i---~~~~l~~I~~~s~Gd~R~ai  200 (224)
T d1sxjb2         155 LRYSKLSDEDVLKRLLQIIKLEDVKY---TNDGLEAIIFTAEGDMRQAI  200 (224)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHTCCB---CHHHHHHHHHHHTTCHHHHH
T ss_pred             hhhcccchhhhHHHHHHHHHhcccCC---CHHHHHHHHHHcCCcHHHHH
Confidence            99999999999999888764332211   24667899999999876543

>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=99.04  E-value=2e-09  Score=93.05  Aligned_cols=133  Identities=18%  Similarity=0.215  Sum_probs=92.6

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCccccc--CC-CccEEEE-EeCCCcCHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEET--NE-FSDVIWV-TVSQPLDLVKLQAEI  182 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~-F~~~~wv-~~~~~~~~~~~~~~i  182 (359)
                      +.++||+.  ++++++..|....-.-+.++|.+|+|||+|+..+++++....  .. ....+|. +.+.           
T Consensus        18 d~~igRd~--Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~-----------   84 (268)
T d1r6bx2          18 DPLIGREK--ELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS-----------   84 (268)
T ss_dssp             CCCCSCHH--HHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC------------
T ss_pred             CcccChHH--HHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeech-----------
Confidence            46899976  999999999877777788999999999999999998742211  11 1234443 3221           


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------------CCC--eEEEeec------
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------------DNH--TFCWGLR------  230 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------------~~g--~ilvTtr------  230 (359)
                         +-.........+..+..+.+.+...++.++++|++                        ..|  ++|.+|.      
T Consensus        85 ---liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~vIgatT~eey~~  161 (268)
T d1r6bx2          85 ---LLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSN  161 (268)
T ss_dssp             -----CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHC
T ss_pred             ---HhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHHHHHH
Confidence               11111123455666666666665557899999998                        456  8888887      


Q ss_pred             --------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          231 --------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       231 --------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                              ....+.+.+.+++.+++..++....
T Consensus       162 ~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         162 IFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence                    1123578999999999999987654

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.98  E-value=6.6e-09  Score=88.02  Aligned_cols=154  Identities=18%  Similarity=0.233  Sum_probs=99.8

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .++.|..|+.++..+.+.++|++|+||||+|+.+++.+  ....+. .+.-.+.+...+.......+..
T Consensus        13 ~~divg~~~--~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l--~~~~~~~~~~e~~~~~~~~~~~~~~~~~~   88 (227)
T d1sxjc2          13 LDEVYGQNE--VITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI--YGKNYSNMVLELNASDDRGIDVVRNQIKD   88 (227)
T ss_dssp             GGGCCSCHH--HHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH--HTTSHHHHEEEECTTSCCSHHHHHTHHHH
T ss_pred             HHHccCcHH--HHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHh--hcCCCcceeEEecccccCCeeeeecchhh
Confidence            467999865  88999999998887778899999999999999999873  112222 2333333333333322222211


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------ccceee
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGCEE  236 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~~  236 (359)
                      ......                +...+.-++|+|++                  ... .++++|.         ...+..
T Consensus        89 ~~~~~~----------------~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~  152 (227)
T d1sxjc2          89 FASTRQ----------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTR  152 (227)
T ss_dssp             HHHBCC----------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             cccccc----------------ccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhh
Confidence            111100                01124568888998                  345 6666665         334567


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL  282 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  282 (359)
                      +.+.+++.++-.+.+.+.+...+...   ..+..+.|++.|+|-.-
T Consensus       153 i~~~~~~~~~i~~~l~~I~~~e~i~i---~~~~l~~i~~~s~Gd~R  195 (227)
T d1sxjc2         153 FRFQPLPQEAIERRIANVLVHEKLKL---SPNAEKALIELSNGDMR  195 (227)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTCCB---CHHHHHHHHHHHTTCHH
T ss_pred             hccccccccccccccccccccccccC---CHHHHHHHHHHcCCcHH
Confidence            89999999999999888765443212   24667889999998653

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.97  E-value=2e-09  Score=91.77  Aligned_cols=166  Identities=14%  Similarity=0.211  Sum_probs=104.2

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      -..++|.+.  .++.|..|+.++..+.+.++|++|+||||+|+.+++++............++.+.......+...+-..
T Consensus        11 ~~diig~~~--~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (237)
T d1sxjd2          11 LDEVTAQDH--AVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNF   88 (237)
T ss_dssp             TTTCCSCCT--THHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHH
T ss_pred             HHHccCcHH--HHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHH
Confidence            457899977  788999999988888899999999999999999998731111112234455555555544433333222


Q ss_pred             hcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEEEeec---------ccceeee
Q 038454          186 LKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFCWGLR---------SMGCEEV  237 (359)
Q Consensus       186 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~~~~  237 (359)
                      ....... ...    ..+...... +.-++|+|++                  ... .+++++.         ...+..+
T Consensus        89 ~~~~~~~-~~~----~~~~~~~~~-~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i  162 (237)
T d1sxjd2          89 ARLTVSK-PSK----HDLENYPCP-PYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKF  162 (237)
T ss_dssp             HHSCCCC-CCT----THHHHSCCC-SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             hhhhhhh-hhH----HHHhhcccc-CceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhh
Confidence            1111110 000    011111222 4457899998                  333 5566655         2234678


Q ss_pred             ecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh
Q 038454          238 RVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL  282 (359)
Q Consensus       238 ~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  282 (359)
                      .+.+++.++...++.+.+...+...   ..+..+.|++.++|-+-
T Consensus       163 ~f~~~~~~~~~~~L~~i~~~e~i~i---~~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         163 RFKALDASNAIDRLRFISEQENVKC---DDGVLERILDISAGDLR  204 (237)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCCC---CHHHHHHHHHHTSSCHH
T ss_pred             ccccccccccchhhhhhhhhhcCcC---CHHHHHHHHHHcCCCHH
Confidence            9999999999999988775543322   24677889999988653

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.88  E-value=6.6e-09  Score=84.98  Aligned_cols=129  Identities=16%  Similarity=0.208  Sum_probs=83.5

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCccccc---CCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEET---NEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      ++++||+.  +++++...|....-.-+.++|.+|+|||+++..+++++....   .-.+..+|.-     +...+     
T Consensus        22 d~~igRd~--Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~L-----   89 (195)
T d1jbka_          22 DPVIGRDE--EIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGAL-----   89 (195)
T ss_dssp             CCCCSCHH--HHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHH-----
T ss_pred             CCCcCcHH--HHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHH-----
Confidence            46899976  999999999987777889999999999999999998742111   1123344421     22221     


Q ss_pred             HHhcCCCCCCccHHHHHHHHHHHHh-cCCcEEEEEecC-----------------------CCC--eEEEeec-------
Q 038454          184 MALKLSLTEDEDKVSRARRLLGKLK-AKKKFVLILDDI-----------------------DNH--TFCWGLR-------  230 (359)
Q Consensus       184 ~~l~~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv-----------------------~~g--~ilvTtr-------  230 (359)
                         -.........++....+.+.+. ..++++|++|++                       ..|  ++|.+|.       
T Consensus        90 ---iAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg~l~~IgatT~eey~~~  166 (195)
T d1jbka_          90 ---VAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQY  166 (195)
T ss_dssp             ---HTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTTSCCEEEEECHHHHHHH
T ss_pred             ---hccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCCCceEEecCCHHHHHHH
Confidence               1111111234444555555443 335899999999                       345  7787776       


Q ss_pred             -------ccceeeeecCCCChHHHHHH
Q 038454          231 -------SMGCEEVRVPPLSKEEALNL  250 (359)
Q Consensus       231 -------~~~~~~~~l~~L~~~ea~~l  250 (359)
                             ....+.+.+.+.+.+++..+
T Consensus       167 ~e~d~aL~rrF~~I~V~Ep~~e~t~~I  193 (195)
T d1jbka_         167 IEKDAALERRFQKVFVAEPSVEDTIAI  193 (195)
T ss_dssp             TTTCHHHHTTEEEEECCCCCHHHHHTT
T ss_pred             HHcCHHHHhcCCEeecCCCCHHHHHHH
Confidence                   12235788888888887654

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.86  E-value=1.5e-08  Score=86.05  Aligned_cols=155  Identities=15%  Similarity=0.192  Sum_probs=98.2

Q ss_pred             cccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCcc-EEEEEeCCCcCHHHHHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSD-VIWVTVSQPLDLVKLQAEIAM  184 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i~~  184 (359)
                      -..++|.+.  .++.|..|+.++..+.+.++|++|+||||+|+.+++.+  ....+.. .+-++.+...+...+...+..
T Consensus        23 ~~diig~~~--~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l--~~~~~~~~~~e~n~s~~~~~~~~~~~~~~   98 (231)
T d1iqpa2          23 LDDIVGQEH--IVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL--FGENWRHNFLELNASDERGINVIREKVKE   98 (231)
T ss_dssp             TTTCCSCHH--HHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH--HGGGHHHHEEEEETTCHHHHHTTHHHHHH
T ss_pred             HHHccCcHH--HHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHH--HhcccCCCeeEEecCcccchhHHHHHHHH
Confidence            467999865  88999999998888889999999999999999999873  1122221 233333332111111111111


Q ss_pred             HhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-----------------CC-C-eEEEeec---------ccceee
Q 038454          185 ALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-----------------DN-H-TFCWGLR---------SMGCEE  236 (359)
Q Consensus       185 ~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-----------------~~-g-~ilvTtr---------~~~~~~  236 (359)
                      .....                .....++.++++|++                 .. . .++.+|.         ...+..
T Consensus        99 ~~~~~----------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~  162 (231)
T d1iqpa2          99 FARTK----------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAI  162 (231)
T ss_dssp             HHHSC----------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             HHhhh----------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCcccc
Confidence            11000                011236778889998                 22 2 5555555         223467


Q ss_pred             eecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH
Q 038454          237 VRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA  283 (359)
Q Consensus       237 ~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  283 (359)
                      +.+.+.+.++....+.+.+...+.   .-..+..+.|++.|+|-+-.
T Consensus       163 i~~~~~~~~~~~~~l~~~~~~e~i---~i~~~~l~~I~~~~~gdiR~  206 (231)
T d1iqpa2         163 FRFRPLRDEDIAKRLRYIAENEGL---ELTEEGLQAILYIAEGDMRR  206 (231)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTTC---EECHHHHHHHHHHHTTCHHH
T ss_pred             ccccccchhhHHHHHHHHHHHhCC---CCCHHHHHHHHHHcCCCHHH
Confidence            899999999999998887754332   12246678899999886543

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.83  E-value=2.6e-07  Score=80.12  Aligned_cols=149  Identities=13%  Similarity=0.142  Sum_probs=97.5

Q ss_pred             CcccccccchHHHHHHHHHHh----cCC-C----ccEEEEEcCCCCcHHHHHHHHHcCcccc---cCCCccEEEEEeCCC
Q 038454          105 PTTTLVGENTKKIVKKVWEDL----MGD-K----VTKIGVWGMGGFGKTAIMRHINNRPQEE---TNEFSDVIWVTVSQP  172 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l----~~~-~----~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~~~~~  172 (359)
                      .++.++||+.  ++++|.+++    .++ .    ..++.++|++|+|||++++.+++.+...   ........+++....
T Consensus        14 ~P~~~~~Re~--e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~   91 (287)
T d1w5sa2          14 IPPELRVRRG--EAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNA   91 (287)
T ss_dssp             CCSSCSSSCH--HHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGC
T ss_pred             CCCCCCCHHH--HHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccc
Confidence            3568999987  777776655    222 1    2246678999999999999999874211   111234667777777


Q ss_pred             cCHHHHHHHHHHHhcCCCC-CCccHHHHHHHHHHHHhc-CCcEEEEEecC----------------------------CC
Q 038454          173 LDLVKLQAEIAMALKLSLT-EDEDKVSRARRLLGKLKA-KKKFVLILDDI----------------------------DN  222 (359)
Q Consensus       173 ~~~~~~~~~i~~~l~~~~~-~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv----------------------------~~  222 (359)
                      .+.......+...++.... ...........+...... +...++++|.+                            ..
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~  171 (287)
T d1w5sa2          92 PNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGV  171 (287)
T ss_dssp             CSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSC
T ss_pred             cchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcc
Confidence            7888888888888776433 234445555555554433 36778888887                            12


Q ss_pred             C--e-EEEeec---------------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          223 H--T-FCWGLR---------------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       223 g--~-ilvTtr---------------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                      +  . |++++.               ..-...+.+++++.++..+++...+
T Consensus       172 ~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         172 NRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             CBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             cceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            2  2 333332               0112468899999999999998775

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.79  E-value=1.3e-07  Score=80.56  Aligned_cols=154  Identities=13%  Similarity=0.206  Sum_probs=96.6

Q ss_pred             cccccccchHHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-------------------cEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMGDKV-TKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-------------------DVI  165 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-------------------~~~  165 (359)
                      -..++|.+.  .++.|..++.+++. ..+.++|++|+||||+|+.+++.+. .....+                   .++
T Consensus        11 ~~dlig~~~--~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~-~~~~~~~~~~~~~~~~~~i~~~~~~~~~   87 (239)
T d1njfa_          11 FADVVGQEH--VLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGITATPCGVCDNCREIEQGRFVDLI   87 (239)
T ss_dssp             GGGSCSCHH--HHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHH-CTTCSCSSCCSCSHHHHHHHHTCCTTEE
T ss_pred             HHHccChHH--HHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhc-CccccccCccccchHHHHHHcCCCCeEE
Confidence            457899865  88899999987764 5688999999999999999887631 111110                   122


Q ss_pred             EEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------CCC-eEE
Q 038454          166 WVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------DNH-TFC  226 (359)
Q Consensus       166 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~~g-~il  226 (359)
                      .++.+.......+ +.++..+....                 ..++..++|+|++                  ... .++
T Consensus        88 ~~~~~~~~~i~~i-r~~~~~~~~~~-----------------~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~i  149 (239)
T d1njfa_          88 EIDAASRTKVEDT-RDLLDNVQYAP-----------------ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFL  149 (239)
T ss_dssp             EEETTCSSSHHHH-HHHHHSCCCSC-----------------SSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEE
T ss_pred             EecchhcCCHHHH-HHHHHHHHhcc-----------------ccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEE
Confidence            2222222222111 11222111110                 0125668899998                  344 777


Q ss_pred             Eeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH
Q 038454          227 WGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA  283 (359)
Q Consensus       227 vTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  283 (359)
                      ++|.         ...|..+.+.+++.++-.+.+...+...+.   .-..+....|++.++|.+--
T Consensus       150 l~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~---~~~~~~l~~i~~~s~Gd~R~  212 (239)
T d1njfa_         150 LATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI---AHEPRALQLLARAAEGSLRD  212 (239)
T ss_dssp             EEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC---CBCHHHHHHHHHHTTTCHHH
T ss_pred             EEcCCccccChhHhhhhcccccccCcHHHhhhHHHHHHhhhcc---CCCHHHHHHHHHHcCCCHHH
Confidence            7776         345678999999999999888877643322   22346678899999998853

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.73  E-value=4.6e-07  Score=76.92  Aligned_cols=171  Identities=13%  Similarity=0.057  Sum_probs=92.7

Q ss_pred             cccccccchHHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM-----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      -+.+||.+.  .+++|..++.     ...++-+.++|++|+||||+|+.+++.+   ..+   ..+++.+..........
T Consensus         8 ~ddivGq~~--~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~---~~~---~~~~~~~~~~~~~~~~~   79 (239)
T d1ixsb2           8 LDEYIGQER--LKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLAA   79 (239)
T ss_dssp             GGGSCSCHH--HHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH---TCC---EEEEETTTCCSHHHHHH
T ss_pred             HHHhCCHHH--HHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCC---eEeccCCccccchhhHH
Confidence            357899966  6666655553     2346678899999999999999999872   222   34455444433333332


Q ss_pred             HHHHHhcCCCC----C-CccHHHHHHHHHHHHhcCCcEEEEEecC---------CCC-eEEEe-ec---------cccee
Q 038454          181 EIAMALKLSLT----E-DEDKVSRARRLLGKLKAKKKFVLILDDI---------DNH-TFCWG-LR---------SMGCE  235 (359)
Q Consensus       181 ~i~~~l~~~~~----~-~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------~~g-~ilvT-tr---------~~~~~  235 (359)
                      .+...+....-    + ..-.......+...+.. ...-+..+..         .+. .++.+ ++         ...+.
T Consensus        80 ~~~~~~~~~~i~~iDe~~~~~~~~~~~l~~~~e~-~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~  158 (239)
T d1ixsb2          80 ILANSLEEGDILFIDEIHRLSRQAEEHLYPAMED-FVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGI  158 (239)
T ss_dssp             HHHTTCCTTCEEEEETGGGCCHHHHHHHHHHHHH-SEEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCSCGGGGGCSE
T ss_pred             HHHhhccCCCeeeeecccccchhHHHhhhhhhhh-hhhhhhhccchhhhhcccCCCCEEEEeeccCcccccchhhcccce
Confidence            32222211000    0 00011111222222222 1111111111         223 34433 33         22345


Q ss_pred             eeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHHH
Q 038454          236 EVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTVV  288 (359)
Q Consensus       236 ~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~~  288 (359)
                      .+.+.+.+.++..+++...+...+.   ....+....|++.+.|.+-.+..+.
T Consensus       159 ~~~~~~~~~~~~~~i~~~~~~~~~i---~~~~~~l~~ia~~s~gd~R~a~~~l  208 (239)
T d1ixsb2         159 VEHLEYYTPEELAQGVMRDARLLGV---RITEEAALEIGRRSRGTMRVAKRLF  208 (239)
T ss_dssp             EEECCCCCHHHHHHHHHHHHGGGCC---CBCHHHHHHHHHHTTSSHHHHHHHH
T ss_pred             eeEeeccChhhhhHHHHHHHHHhCC---ccchHHHHHHHHHcCCCHHHHHHHH
Confidence            6889999999999888877644332   2335678899999999876664433

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.73  E-value=4e-08  Score=89.43  Aligned_cols=133  Identities=15%  Similarity=0.206  Sum_probs=86.1

Q ss_pred             ccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCcccc---cCCCccEEE-EEeCCCcCHHHHHHHH
Q 038454          107 TTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRPQEE---TNEFSDVIW-VTVSQPLDLVKLQAEI  182 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~w-v~~~~~~~~~~~~~~i  182 (359)
                      ++++||+.  ++.+++..|....-.-+.++|.+|+|||+|+..+++++...   ..-.+..+| ++++.           
T Consensus        22 d~~~gr~~--ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~-----------   88 (387)
T d1qvra2          22 DPVIGRDE--EIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS-----------   88 (387)
T ss_dssp             CCCCSCHH--HHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------
T ss_pred             CCCcCcHH--HHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh-----------
Confidence            46899976  99999999987666667888999999999998777763111   112234555 33322           


Q ss_pred             HHHhcCCCCCCccHHHHHHHHHHHHhc-CCcEEEEEecC-----------------------CCC--eEEEeec------
Q 038454          183 AMALKLSLTEDEDKVSRARRLLGKLKA-KKKFVLILDDI-----------------------DNH--TFCWGLR------  230 (359)
Q Consensus       183 ~~~l~~~~~~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv-----------------------~~g--~ilvTtr------  230 (359)
                         |-.........+..+..+...+.. +.+++|++|++                       ..|  ++|.+|.      
T Consensus        89 ---l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~~~~I~~tT~~ey~~  165 (387)
T d1qvra2          89 ---LLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYRE  165 (387)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCEEEEECHHHHHH
T ss_pred             ---hhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCCcceeeecCHHHHHH
Confidence               111011112344455555555543 35799999999                       345  7777776      


Q ss_pred             -------ccceeeeecCCCChHHHHHHHHHhh
Q 038454          231 -------SMGCEEVRVPPLSKEEALNLFLDKV  255 (359)
Q Consensus       231 -------~~~~~~~~l~~L~~~ea~~lf~~~~  255 (359)
                             ....+.+.+.+.+.+++..++....
T Consensus       166 ~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         166 IEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             hcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence                   1223578999999999999988654

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.70  E-value=6.4e-08  Score=82.91  Aligned_cols=168  Identities=13%  Similarity=0.114  Sum_probs=88.9

Q ss_pred             CcccccccchHHHHHHHHHHhcCC-CccEEEEEcCCCCcHHHHHHHHHcCccc---ccCCCccEEEEEeCCC--------
Q 038454          105 PTTTLVGENTKKIVKKVWEDLMGD-KVTKIGVWGMGGFGKTAIMRHINNRPQE---ETNEFSDVIWVTVSQP--------  172 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~--------  172 (359)
                      .-..++|.+.  ..+.|..++..+ ..+-+.++|++|+||||+|+.+++.+..   ....++...|...+..        
T Consensus         9 ~~~diig~~~--~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (252)
T d1sxje2           9 SLNALSHNEE--LTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVS   86 (252)
T ss_dssp             SGGGCCSCHH--HHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEE
T ss_pred             CHHHccCcHH--HHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhcc
Confidence            3467999855  788888887654 4556889999999999999999886311   0111112222111100        


Q ss_pred             -------------cCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC------------------C
Q 038454          173 -------------LDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI------------------D  221 (359)
Q Consensus       173 -------------~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv------------------~  221 (359)
                                   ....................  .    ...-..... ++.-++|+|++                  .
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~----~~~~~~~~~-~~~~iiiide~d~l~~~~~~~l~~~~e~~~  159 (252)
T d1sxje2          87 SPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV--D----FQDSKDGLA-HRYKCVIINEANSLTKDAQAALRRTMEKYS  159 (252)
T ss_dssp             CSSEEEECCC----CCHHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             CCccceeeecccccCCcceeeehhhhhhhhhhh--h----hhhcccccC-CCceEEEeccccccccccchhhhccccccc
Confidence                         00111111111111110000  0    000001111 24558889998                  3


Q ss_pred             CC-eEEEeec---------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH
Q 038454          222 NH-TFCWGLR---------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA  283 (359)
Q Consensus       222 ~g-~ilvTtr---------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  283 (359)
                      .. ++++||.         ...+..+++.+++.++..+.+...+-..+....  ..+..+.|++.+.|.+-.
T Consensus       160 ~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~--~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         160 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE--TKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC--CSHHHHHHHHHHTTCHHH
T ss_pred             ccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCC--cHHHHHHHHHHcCCcHHH
Confidence            33 6677766         223567899999999999998776532221111  235668899999888754

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.64  E-value=8.1e-08  Score=82.36  Aligned_cols=164  Identities=15%  Similarity=0.163  Sum_probs=96.3

Q ss_pred             cccccccchHHHHHHHHHHhcC-----------------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEE
Q 038454          106 TTTLVGENTKKIVKKVWEDLMG-----------------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT  168 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  168 (359)
                      -..++|.+.  .+++|..|+..                 ...+.+.++|++|+||||+|+.+++.+     .+ .+++++
T Consensus        13 ~~dlig~~~--~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----~~-~~~~~~   84 (253)
T d1sxja2          13 LQQVCGNKG--SVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GY-DILEQN   84 (253)
T ss_dssp             GGGCCSCHH--HHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TC-EEEEEC
T ss_pred             HHHhcCCHH--HHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----Hh-hhhccc
Confidence            467899865  77888887743                 235689999999999999999999982     12 245666


Q ss_pred             eCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC--------------------CCCeEEEe
Q 038454          169 VSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI--------------------DNHTFCWG  228 (359)
Q Consensus       169 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--------------------~~g~ilvT  228 (359)
                      .+...+...+-. .................  ........ .+..++++|++                    ....+++|
T Consensus        85 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~~-~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~ii~i  160 (253)
T d1sxja2          85 ASDVRSKTLLNA-GVKNALDNMSVVGYFKH--NEEAQNLN-GKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILI  160 (253)
T ss_dssp             TTSCCCHHHHHH-TGGGGTTBCCSTTTTTC------CCSS-TTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEEE
T ss_pred             cccchhhHHHHH-HHHHHhhcchhhhhhhh--hhhccccc-ccceEEEeeeccccccchhhhhHHHhhhhcccccccccc
Confidence            655544433322 22222111100000000  00001112 36788899998                    22344444


Q ss_pred             ec----------ccceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch-hHH
Q 038454          229 LR----------SMGCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ-LAI  284 (359)
Q Consensus       229 tr----------~~~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P-lai  284 (359)
                      +.          ...+..+.+.+++.++-...+...+-..+...++   +....|++.++|-. -||
T Consensus       161 ~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~---~~l~~i~~~s~GDiR~ai  224 (253)
T d1sxja2         161 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDIRQVI  224 (253)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCHHHHH
T ss_pred             cccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCH---HHHHHHHHhCCCcHHHHH
Confidence            33          1234579999999999998888765322222222   35678999999966 443

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.58  E-value=1.2e-06  Score=73.01  Aligned_cols=146  Identities=21%  Similarity=0.250  Sum_probs=84.3

Q ss_pred             cccccchHHHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHH
Q 038454          108 TLVGENTKKIVKKVWEDLMGD--KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMA  185 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  185 (359)
                      -++|...+.....+.++....  ....+.|+|++|+|||.|++++++..   ......+++++      ..++...+...
T Consensus        12 F~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~---~~~~~~~~~~~------~~~~~~~~~~~   82 (213)
T d1l8qa2          12 FIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA---KKRGYRVIYSS------ADDFAQAMVEH   82 (213)
T ss_dssp             CCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH---HHTTCCEEEEE------HHHHHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHh---ccCccceEEec------hHHHHHHHHHH
Confidence            345665433444444444433  23448899999999999999999983   22333456654      34444555544


Q ss_pred             hcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------CCC-eEEEeecc------------
Q 038454          186 LKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------DNH-TFCWGLRS------------  231 (359)
Q Consensus       186 l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------~~g-~ilvTtr~------------  231 (359)
                      +....         ...+.+.+.  .--+|++||+                     ..| .+|+||+.            
T Consensus        83 ~~~~~---------~~~~~~~~~--~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL  151 (213)
T d1l8qa2          83 LKKGT---------INEFRNMYK--SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRL  151 (213)
T ss_dssp             HHHTC---------HHHHHHHHH--TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHH
T ss_pred             HHccc---------hhhHHHHHh--hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHH
Confidence            43221         122233333  4568899999                     466 99999980            


Q ss_pred             ---c-ceeeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHc
Q 038454          232 ---M-GCEEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEEC  277 (359)
Q Consensus       232 ---~-~~~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c  277 (359)
                         . ....+.++ ++.++-.+++++.+-..+...+   .+++.-|++.+
T Consensus       152 ~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~---~~v~~yl~~~~  197 (213)
T d1l8qa2         152 VSRFEGGILVEIE-LDNKTRFKIIKEKLKEFNLELR---KEVIDYLLENT  197 (213)
T ss_dssp             HHHHHTSEEEECC-CCHHHHHHHHHHHHHHTTCCCC---HHHHHHHHHHC
T ss_pred             HHHhhCceEEEEC-CCcHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhc
Confidence               1 11345675 4667777777777633322222   34555555554

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.52  E-value=3e-06  Score=71.61  Aligned_cols=168  Identities=10%  Similarity=0.104  Sum_probs=90.6

Q ss_pred             cccccccchHHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHH
Q 038454          106 TTTLVGENTKKIVKKVWEDLM-----GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQA  180 (359)
Q Consensus       106 ~~~~vGr~~~~~~~~l~~~l~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  180 (359)
                      -..++|.+.  .+++|..|+.     ....+-+.++|++|+||||+|+.+++.+   ...   .+.++.+.......+. 
T Consensus         8 ~~divGqe~--~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~---~~~---~~~~~~~~~~~~~~~~-   78 (238)
T d1in4a2           8 LDEFIGQEN--VKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTN---IHVTSGPVLVKQGDMA-   78 (238)
T ss_dssp             GGGCCSCHH--HHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCC---EEEEETTTCCSHHHHH-
T ss_pred             HHHcCChHH--HHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc---CCC---cccccCcccccHHHHH-
Confidence            367899866  7777777764     2345668899999999999999999882   222   3344444444443332 


Q ss_pred             HHHHHhcCCCC------CCccHHHHHHHHHHHHhcCCcEEEEEec-C--------CCC-eEEEeec---------ccce-
Q 038454          181 EIAMALKLSLT------EDEDKVSRARRLLGKLKAKKKFVLILDD-I--------DNH-TFCWGLR---------SMGC-  234 (359)
Q Consensus       181 ~i~~~l~~~~~------~~~~~~~~~~~l~~~l~~~k~~LlVlDd-v--------~~g-~ilvTtr---------~~~~-  234 (359)
                      .++........      ...+ ......+...... ....+.... .        .+. .+|.+|.         ...+ 
T Consensus        79 ~~~~~~~~~~~~~ide~~~~~-~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~  156 (238)
T d1in4a2          79 AILTSLERGDVLFIDEIHRLN-KAVEELLYSAIED-FQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFG  156 (238)
T ss_dssp             HHHHHCCTTCEEEEETGGGCC-HHHHHHHHHHHHT-SCCCC---------------CCCEEEEEESCGGGSCHHHHTTCS
T ss_pred             HHHHhhccCCchHHHHHHHhh-hHHHhhcccceee-eeeeeeecCcccccccccCCCCeEEEEecCCCccccccceeeee
Confidence            22222211000      0000 1111122222222 111111110 0        123 4444444         1122 


Q ss_pred             eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHHHH
Q 038454          235 EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIFTV  287 (359)
Q Consensus       235 ~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~~~  287 (359)
                      ..+.+++.+.++...++...+.....   ....+....|++.++|.+-.+..+
T Consensus       157 ~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~l~~i~~~s~gd~R~ai~~  206 (238)
T d1in4a2         157 IILELDFYTVKELKEIIKRAASLMDV---EIEDAAAEMIAKRSRGTPRIAIRL  206 (238)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHTTC---CBCHHHHHHHHHTSTTCHHHHHHH
T ss_pred             EEEEecCCCHHHHHHHHHHhhhhccc---hhhHHHHHHHHHhCCCCHHHHHHH
Confidence            35789999999999998877643322   233567888999999987666443

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.52  E-value=1.8e-06  Score=71.63  Aligned_cols=153  Identities=12%  Similarity=0.132  Sum_probs=89.1

Q ss_pred             HHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHcCcccccC-CCccEEEEEeCCCcCHHHHHHHHHHHhcC-----
Q 038454          116 KIVKKVWEDLMGDK-VTKIGVWGMGGFGKTAIMRHINNRPQEETN-EFSDVIWVTVSQPLDLVKLQAEIAMALKL-----  188 (359)
Q Consensus       116 ~~~~~l~~~l~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~-~F~~~~wv~~~~~~~~~~~~~~i~~~l~~-----  188 (359)
                      ...+++...+..++ +..+.++|++|+||||+|+.+++.+.-... ...     ......+.    ..+......     
T Consensus         9 ~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~-----~~~~~~~~----~~i~~~~~~~~~~~   79 (207)
T d1a5ta2           9 PDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHK-----SCGHCRGC----QLMQAGTHPDYYTL   79 (207)
T ss_dssp             HHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTB-----CCSCSHHH----HHHHHTCCTTEEEE
T ss_pred             HHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccc-----cccccchh----hhhhhccccccchh
Confidence            36778888888776 456999999999999999998875210000 000     00000011    111111000     


Q ss_pred             --CCCCCccHHHHHHHHHHHHhc----CCcEEEEEecC------------------CCC-eEEEeec---------ccce
Q 038454          189 --SLTEDEDKVSRARRLLGKLKA----KKKFVLILDDI------------------DNH-TFCWGLR---------SMGC  234 (359)
Q Consensus       189 --~~~~~~~~~~~~~~l~~~l~~----~k~~LlVlDdv------------------~~g-~ilvTtr---------~~~~  234 (359)
                        ......-..+.++.+.+.+..    +++-++|+|++                  ..+ .+|+||+         ...|
T Consensus        80 ~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc  159 (207)
T d1a5ta2          80 APEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRC  159 (207)
T ss_dssp             CCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             hhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhccee
Confidence              000011112223333333321    26678999998                  344 7677776         3356


Q ss_pred             eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhHHH
Q 038454          235 EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLAIF  285 (359)
Q Consensus       235 ~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Plai~  285 (359)
                      ..+.+.+++.++....+.....        ...+.+..|++.++|.|-.+.
T Consensus       160 ~~i~~~~~~~~~~~~~L~~~~~--------~~~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         160 RLHYLAPPPEQYAVTWLSREVT--------MSQDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             EEEECCCCCHHHHHHHHHHHCC--------CCHHHHHHHHHHTTTCHHHHH
T ss_pred             EEEecCCCCHHHHHHHHHHcCC--------CCHHHHHHHHHHcCCCHHHHH
Confidence            7899999999999998876531        124667889999999986553

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.44  E-value=3e-06  Score=72.15  Aligned_cols=149  Identities=15%  Similarity=0.167  Sum_probs=86.8

Q ss_pred             ccccccch-HHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHH
Q 038454          107 TTLVGENT-KKIVKKVWEDLMG---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLV  176 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  176 (359)
                      ..++|-+. ++.+.+++..+..         ..++-|.++|++|+|||+||+.+++.+   ..+   .+.++.+      
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~---~~~---~~~i~~~------   76 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVP---FITASGS------   76 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT---TCC---EEEEEHH------
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc---CCC---EEEEEhH------
Confidence            46888876 4444555555543         234679999999999999999999872   222   2333321      


Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC---------------------------------C-C
Q 038454          177 KLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI---------------------------------D-N  222 (359)
Q Consensus       177 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv---------------------------------~-~  222 (359)
                      .+..        ..  .......+..+.+......+++|++||+                                 . +
T Consensus        77 ~l~~--------~~--~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~  146 (247)
T d1ixza_          77 DFVE--------MF--VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT  146 (247)
T ss_dssp             HHHH--------SC--TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTC
T ss_pred             Hhhh--------cc--ccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCC
Confidence            1111        11  1122223334444433347788888887                                 1 1


Q ss_pred             CeE-EEeec----------ccc-e-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch
Q 038454          223 HTF-CWGLR----------SMG-C-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ  281 (359)
Q Consensus       223 g~i-lvTtr----------~~~-~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  281 (359)
                      +-+ |.||.          +.+ . ..+.+++.+.++-.++|..............    ...+++.|.|..
T Consensus       147 ~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~----~~~la~~t~g~s  214 (247)
T d1ixza_         147 AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  214 (247)
T ss_dssp             CEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccC----HHHHHHHCCCCC
Confidence            223 34665          112 2 4689999999999999988875433222222    345677787753

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.43  E-value=4.5e-06  Score=71.57  Aligned_cols=150  Identities=18%  Similarity=0.186  Sum_probs=86.0

Q ss_pred             ccccccch-HHHHHHHHHH-hcC---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCH
Q 038454          107 TTLVGENT-KKIVKKVWED-LMG---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDL  175 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~-l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~  175 (359)
                      ..++|-+. ++.+.+.+.+ +..         ..++-|.++|++|+|||++|+.+++..   ..+   .+.++.+     
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~---~~~i~~~-----   72 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGP-----   72 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCE---EEEECHH-----
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh---CCe---EEEEEch-----
Confidence            35778876 3333333322 332         235679999999999999999999972   222   2222211     


Q ss_pred             HHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC-------------------------------CCC-
Q 038454          176 VKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI-------------------------------DNH-  223 (359)
Q Consensus       176 ~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv-------------------------------~~g-  223 (359)
                               .+..... ... ......+.+.-...++++|++||+                               .++ 
T Consensus        73 ---------~l~~~~~-g~~-~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~v  141 (258)
T d1e32a2          73 ---------EIMSKLA-GES-ESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  141 (258)
T ss_dssp             ---------HHTTSCT-THH-HHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCE
T ss_pred             ---------hhccccc-ccH-HHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCc
Confidence                     1111111 112 222223333322238899999999                               334 


Q ss_pred             eEEEeec----------ccc-e-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchh
Q 038454          224 TFCWGLR----------SMG-C-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQL  282 (359)
Q Consensus       224 ~ilvTtr----------~~~-~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pl  282 (359)
                      -|+.||.          +.+ . ..+.++..+.++-.++|...........+..    ...|++.+.|+--
T Consensus       142 lvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~  208 (258)
T d1e32a2         142 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHVG  208 (258)
T ss_dssp             EEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCC----HHHHHHHCTTCCH
T ss_pred             cEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccc----hhhhhhcccCCCH
Confidence            4566776          111 2 4689999999999999987753322212212    4678888888643

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.43  E-value=4.7e-06  Score=71.26  Aligned_cols=149  Identities=16%  Similarity=0.151  Sum_probs=84.7

Q ss_pred             ccccccch-HHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHH
Q 038454          107 TTLVGENT-KKIVKKVWEDLMG---------DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLV  176 (359)
Q Consensus       107 ~~~vGr~~-~~~~~~l~~~l~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~  176 (359)
                      ..++|.+. ++++.+++.++..         ..++-+.++|++|+|||++|+.+++.+   .-+   .+-++.+.-.+  
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~---~~~i~~~~l~~--   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVP---FFTISGSDFVE--   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCC---EEEECSCSSTT--
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc---CCC---EEEEEhHHhhh--
Confidence            57888876 4445555665542         235679999999999999999999872   211   23333322110  


Q ss_pred             HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcCCcEEEEEecC----------------------------------CC
Q 038454          177 KLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAKKKFVLILDDI----------------------------------DN  222 (359)
Q Consensus       177 ~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv----------------------------------~~  222 (359)
                                  . ...... ..+..+.+......+++|++||+                                  ..
T Consensus        84 ------------~-~~g~~~-~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~  149 (256)
T d1lv7a_          84 ------------M-FVGVGA-SRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNE  149 (256)
T ss_dssp             ------------S-CCCCCH-HHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSS
T ss_pred             ------------c-chhHHH-HHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCC
Confidence                        0 001111 12222222222235666667776                                  22


Q ss_pred             C-eEEEeec----------ccc-e-eeeecCCCChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCch
Q 038454          223 H-TFCWGLR----------SMG-C-EEVRVPPLSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQ  281 (359)
Q Consensus       223 g-~ilvTtr----------~~~-~-~~~~l~~L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~P  281 (359)
                      + -||.||.          +.+ . ..+.+++.+.++-.++|..+...........    ...+++.+.|..
T Consensus       150 ~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s  217 (256)
T d1lv7a_         150 GIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFS  217 (256)
T ss_dssp             CEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccC----HHHHHHhCCCCC
Confidence            3 3445666          111 2 4689999999999999988764333222222    355777787764

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.11  E-value=3.8e-06  Score=72.37  Aligned_cols=129  Identities=13%  Similarity=0.213  Sum_probs=73.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHh
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLK  208 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~  208 (359)
                      ..+-|.++|++|+|||+||+.+++.+   .-+     ++.++    ...+        .... .. ........+.....
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~~---~~~-----~~~~~----~~~l--------~~~~-~~-~~~~~l~~~f~~A~   97 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANEC---QAN-----FISIK----GPEL--------LTMW-FG-ESEANVREIFDKAR   97 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHHT---TCE-----EEEEC----HHHH--------HTSC-TT-THHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHHh---CCc-----EEEEE----HHHh--------hhcc-cc-chHHHHHHHHHHHH
Confidence            35679999999999999999999982   222     12222    1111        1111 11 22222333332222


Q ss_pred             cCCcEEEEEecC----------------------------------CCC-eEEEeec----------ccc-e-eeeecCC
Q 038454          209 AKKKFVLILDDI----------------------------------DNH-TFCWGLR----------SMG-C-EEVRVPP  241 (359)
Q Consensus       209 ~~k~~LlVlDdv----------------------------------~~g-~ilvTtr----------~~~-~-~~~~l~~  241 (359)
                      ...+++|++||+                                  .++ -+|.||.          +.+ . ..+++++
T Consensus        98 ~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~  177 (265)
T d1r7ra3          98 QAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPL  177 (265)
T ss_dssp             HTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCC
T ss_pred             hcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecc
Confidence            237888888888                                  234 5566776          111 1 4689999


Q ss_pred             CChHHHHHHHHHhhcCCCCCCCCchHHHHHHHHHHcCCchhH
Q 038454          242 LSKEEALNLFLDKVGRNILHVPTLNEEIINSVVEECAGLQLA  283 (359)
Q Consensus       242 L~~~ea~~lf~~~~~~~~~~~~~~~~~~~~~i~~~c~g~Pla  283 (359)
                      .+.++-.++|..............    ...|++.+.|...+
T Consensus       178 p~~~~R~~il~~~l~~~~~~~~~~----l~~la~~t~g~s~~  215 (265)
T d1r7ra3         178 PDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSGA  215 (265)
T ss_dssp             CCCHHHHHHHHHHTTCC----CCC----CHHHHHHHCSSCCH
T ss_pred             hHHHHHHHHHHHHhccCCchhhhh----HHHHHhcCCCCCHH
Confidence            999999999987653221111222    25577777776543

>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=97.74  E-value=6.9e-05  Score=63.41  Aligned_cols=25  Identities=24%  Similarity=0.238  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+-|.++|++|+|||++|+.+++.
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhc
Confidence            3566899999999999999999987

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.49  E-value=0.00061  Score=55.32  Aligned_cols=36  Identities=6%  Similarity=-0.105  Sum_probs=30.8

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++-+..++..+..+.+.++|.+|+|||++|..+.+.
T Consensus         3 ~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~   38 (198)
T d2gnoa2           3 LETLKRIIEKSEGISILINGEDLSYPREVSLELPEY   38 (198)
T ss_dssp             HHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            455666677778899999999999999999998876

>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=97.45  E-value=3e-05  Score=61.69  Aligned_cols=37  Identities=22%  Similarity=0.072  Sum_probs=28.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEE
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT  168 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  168 (359)
                      ..+|.|+|++|+||||+|+.++..+  ....++...++.
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L--~~~~~~~~~~~~   42 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTL--NQQGGRSVSLLL   42 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH--HHHCSSCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH--hhcCCCchhhhh
Confidence            4689999999999999999999884  223445555543

>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=97.43  E-value=0.0003  Score=59.93  Aligned_cols=83  Identities=13%  Similarity=0.157  Sum_probs=59.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -+++-|+|.+|+||||||.+++.. ....+.  .++|++.-..++.+.     +++++.+..     ...+.++....+.
T Consensus        60 g~i~e~~G~~~~GKT~l~l~~~~~-~q~~g~--~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~  131 (269)
T d1mo6a1          60 GRVIEIYGPESSGKTTVALHAVAN-AQAAGG--VAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIAD  131 (269)
T ss_dssp             SSEEEEECSSSSSHHHHHHHHHHH-HHHTTC--EEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             ceeEEEecCCCcHHHHHHHHHHHH-HhcCCC--EEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHH
Confidence            479999999999999999988876 333333  489999988888764     455665432     2345566666555


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      .....++.-|+|+|.+
T Consensus       132 ~l~~~~~~~liIiDSi  147 (269)
T d1mo6a1         132 MLIRSGALDIVVIDSV  147 (269)
T ss_dssp             HHHHTTCEEEEEEECS
T ss_pred             HHHhcCCCCEEEEecc
Confidence            5555556889999998

>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=97.34  E-value=0.00032  Score=57.39  Aligned_cols=90  Identities=20%  Similarity=0.186  Sum_probs=52.4

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcC--HHHHHHHHHHHhcCCCC---CCccHHHHHH
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLD--LVKLQAEIAMALKLSLT---EDEDKVSRAR  201 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~--~~~~~~~i~~~l~~~~~---~~~~~~~~~~  201 (359)
                      .+.+.||.++|+.|+||||.+..++..+ . +... .+..++. +.+.  ..+-++...+.++.+..   ...+....+.
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~-~-~~g~-kV~lit~-Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~   81 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQF-E-QQGK-SVMLAAG-DTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIF   81 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHH-H-TTTC-CEEEECC-CTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH-H-HCCC-cEEEEec-ccccccchhhhhhhhhhcCCcccccccCCCHHHHHH
Confidence            3457899999999999998888888773 2 2222 2444443 4433  46667777888876532   2334444444


Q ss_pred             HHHHHHhcCCcEEEEEecC
Q 038454          202 RLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       202 ~l~~~l~~~k~~LlVlDdv  220 (359)
                      ........+..=++++|-.
T Consensus        82 ~~~~~a~~~~~d~ilIDTa  100 (211)
T d2qy9a2          82 DAIQAAKARNIDVLIADTA  100 (211)
T ss_dssp             HHHHHHHHTTCSEEEECCC
T ss_pred             HHHHHHHHcCCCEEEeccC
Confidence            4433333212335566654

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.34  E-value=4.3e-05  Score=61.01  Aligned_cols=24  Identities=13%  Similarity=0.322  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++.|+|.|++|+||||||+.+++.
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999999988

>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=97.34  E-value=0.00033  Score=59.70  Aligned_cols=83  Identities=16%  Similarity=0.206  Sum_probs=60.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -+++-|+|.+|+|||+||.+++.. ....+  ..++|++.-..++..     +++.++.+..     ...+.++....+.
T Consensus        57 g~itei~G~~~sGKT~l~l~~~~~-aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~  128 (268)
T d1xp8a1          57 GRITEIYGPESGGKTTLALAIVAQ-AQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  128 (268)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHH-HHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             ceEEEEecCCccchHHHHHHHHHH-HHhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHH
Confidence            469999999999999999999887 33223  348899988888874     5677776433     2345666666665


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      .....+..-|+|+|.+
T Consensus       129 ~l~~~~~~~liIiDSi  144 (268)
T d1xp8a1         129 LLVRSGAIDVVVVDSV  144 (268)
T ss_dssp             HHHTTTCCSEEEEECT
T ss_pred             HHHhcCCCcEEEEecc
Confidence            5555545679999998

>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=97.33  E-value=4.9e-05  Score=59.85  Aligned_cols=24  Identities=17%  Similarity=0.356  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +++++|+|.+|+|||||+.++.+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            479999999999999999999986

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.33  E-value=3.7e-05  Score=60.04  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.++|++|+||||+|+.++..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999999988

>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=97.31  E-value=0.0004  Score=55.11  Aligned_cols=26  Identities=15%  Similarity=0.187  Sum_probs=23.1

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.+|.++|++|+||||+|+.++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999999988765

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.31  E-value=0.00012  Score=62.40  Aligned_cols=25  Identities=28%  Similarity=0.246  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++.|.++|++|+||||||+.+++.
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4667999999999999999999988

>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=97.28  E-value=0.00065  Score=55.40  Aligned_cols=90  Identities=19%  Similarity=0.189  Sum_probs=55.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCCC---CCccHHHHHHHH
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSLT---EDEDKVSRARRL  203 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~---~~~~~~~~~~~l  203 (359)
                      ++.++|.++|+.|+||||.+..++..+ . ... ..+..++... .....+.++...+.++.+..   ...+........
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~-~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   80 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYY-Q-NLG-KKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDA   80 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHH-H-TTT-CCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-H-HCC-CcEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHHHHHH
Confidence            456899999999999998888888773 2 222 3477777654 45677888888888887532   233444444333


Q ss_pred             HHHHhcCCcEEEEEecC
Q 038454          204 LGKLKAKKKFVLILDDI  220 (359)
Q Consensus       204 ~~~l~~~k~~LlVlDdv  220 (359)
                      .........=++++|-.
T Consensus        81 ~~~~~~~~~d~ilIDTa   97 (207)
T d1okkd2          81 VQAMKARGYDLLFVDTA   97 (207)
T ss_dssp             HHHHHHHTCSEEEECCC
T ss_pred             HHHHHHCCCCEEEcCcc
Confidence            32222112334555554

>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=97.25  E-value=6.1e-05  Score=58.28  Aligned_cols=23  Identities=26%  Similarity=0.274  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|.|.|++|+||||||+++..+
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999998765

>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=97.24  E-value=0.0004  Score=59.00  Aligned_cols=83  Identities=12%  Similarity=0.198  Sum_probs=57.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCC-----CCccHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLT-----EDEDKVSRARRLL  204 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~l~  204 (359)
                      -+++-|+|.+|+||||||.+++... ...+  ..++|++....++...     ++.++.+..     ...+.++....+.
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~-q~~g--~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i~  125 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAA-QREG--KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  125 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHH-HcCC--CEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCCHHHHHHHHH
Confidence            3699999999999999999998883 2222  3478999888887643     556665432     2334555555555


Q ss_pred             HHHhcCCcEEEEEecC
Q 038454          205 GKLKAKKKFVLILDDI  220 (359)
Q Consensus       205 ~~l~~~k~~LlVlDdv  220 (359)
                      ...+.+..-|+|+|.+
T Consensus       126 ~l~~~~~~~liViDSi  141 (263)
T d1u94a1         126 ALARSGAVDVIVVDSV  141 (263)
T ss_dssp             HHHHHTCCSEEEEECG
T ss_pred             HHHhcCCCCEEEEECc
Confidence            5555435568999997

>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=97.22  E-value=7.6e-05  Score=60.49  Aligned_cols=27  Identities=26%  Similarity=0.180  Sum_probs=24.5

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+.+|.|+|++|+||||+|+.+++.
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            456789999999999999999999987

>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=97.22  E-value=7.7e-05  Score=58.74  Aligned_cols=23  Identities=17%  Similarity=0.309  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|.|.|++|+||||+|+.+...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999999877

>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=97.21  E-value=0.00079  Score=55.11  Aligned_cols=59  Identities=14%  Similarity=0.091  Sum_probs=42.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLS  189 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~  189 (359)
                      ..+.+|.++|+.|+||||.+..++.++  .... ..+..++... .....+.++...+.++.+
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~--~~~~-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   68 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMF--VDEG-KSVVLAAADTFRAAAIEQLKIWGERVGAT   68 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH--HHTT-CCEEEEEECTTCHHHHHHHHHHHHHHTCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH--HHCC-CceEEEeecccccchhHHHHHHhhhcCcc
Confidence            457899999999999998888888774  2222 3466776643 345567778888888764

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.20  E-value=0.00014  Score=58.50  Aligned_cols=28  Identities=18%  Similarity=0.300  Sum_probs=24.6

Q ss_pred             cCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          126 MGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       126 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++-+|+|.|.+|+||||||+.+...
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~~   45 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQT   45 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4456678999999999999999999887

>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=97.19  E-value=0.00025  Score=59.33  Aligned_cols=86  Identities=15%  Similarity=0.167  Sum_probs=56.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCC---------------CCCC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLS---------------LTED  193 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~---------------~~~~  193 (359)
                      .-.++.|+|.+|+|||+||.+++.+   .......++|++....  ...+.+. +..++..               ....
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~---~~~~~~~~~~is~e~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVEN---ACANKERAILFAYEES--RAQLLRN-AYSWGMDFEEMERQNLLKIVCAYPES   98 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHH---HHTTTCCEEEEESSSC--HHHHHHH-HHTTSCCHHHHHHTTSEEECCCCGGG
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH---HHHhccccceeeccCC--HHHHHHH-HHHcCCChHHHhhcCceEEEEeecch
Confidence            3478999999999999999999988   3445556888876543  2333222 2222110               1123


Q ss_pred             ccHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          194 EDKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       194 ~~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      .........+...+...+.-++|+|++
T Consensus        99 ~~~~~~~~~i~~~i~~~~~~~vviDs~  125 (242)
T d1tf7a2          99 AGLEDHLQIIKSEINDFKPARIAIDSL  125 (242)
T ss_dssp             SCHHHHHHHHHHHHHTTCCSEEEEECH
T ss_pred             hhHHHHHHHHHHHHHhcCCceeeeecc
Confidence            445666677777776657778899987

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.18  E-value=6.9e-05  Score=59.07  Aligned_cols=23  Identities=26%  Similarity=0.455  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.|.|++|+||||+|+.++++
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            56889999999999999999987

>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=97.16  E-value=0.00064  Score=55.49  Aligned_cols=58  Identities=10%  Similarity=0.008  Sum_probs=40.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLS  189 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~  189 (359)
                      +.+||.++|+.|+||||.+..++..+.  .... .+..++... .....+.++...+.++.+
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~--~~g~-kV~lit~Dt~R~gA~eQL~~~a~~l~v~   67 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK--GKGR-RPLLVAADTQRPAAREQLRLLGEKVGVP   67 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH--HTTC-CEEEEECCSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--HCCC-cEEEEecccccchHHHHHHHHHHhcCCc
Confidence            357899999999999988888887742  2333 355665532 334567777888888764

>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=97.11  E-value=0.00012  Score=57.55  Aligned_cols=27  Identities=19%  Similarity=0.346  Sum_probs=24.1

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +...+++.|.|++|+||||+|+.+...
T Consensus         3 ~~~~~iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           3 NHDHHIYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             CTTSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            345689999999999999999999987

>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=97.10  E-value=0.0001  Score=58.64  Aligned_cols=24  Identities=21%  Similarity=0.307  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +.|.|+|++|+|||||+++++..+
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            569999999999999999999874

>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=97.05  E-value=0.0011  Score=54.22  Aligned_cols=60  Identities=13%  Similarity=0.120  Sum_probs=37.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC-CcCHHHHHHHHHHHhcCCC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ-PLDLVKLQAEIAMALKLSL  190 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~  190 (359)
                      ..+.||.++|+.|+||||.+..++..+ . .... .+..|+... .....+.++...+.++.+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~-~-~~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~~   70 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFY-K-KKGF-KVGLVGADVYRPAALEQLQQLGQQIGVPV   70 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHH-H-HTTC-CEEEEECCCSSHHHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-H-HCCC-ceEEEEeeccccchhHHHHHhccccCcce
Confidence            357899999999999998887777763 2 2333 366776643 3345566677777777653

>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=97.01  E-value=0.00018  Score=56.78  Aligned_cols=24  Identities=25%  Similarity=0.292  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|.|.|++|+||||+|+.+++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999999988

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.97  E-value=0.0001  Score=59.41  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+|.++|++|+||||+|+.++..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~   42 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEY   42 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468899999999999999999987

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.96  E-value=0.0002  Score=56.42  Aligned_cols=24  Identities=25%  Similarity=0.257  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|.|.|++|+||||+|+.+.+.
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999999887

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.96  E-value=0.00021  Score=56.28  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....|.|.|++|+||||+|+.++++
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            3457999999999999999999987

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.95  E-value=0.00019  Score=58.54  Aligned_cols=24  Identities=29%  Similarity=0.296  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+|.++|.+|+||||||+++++.
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~   25 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRY   25 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999999977

>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=96.95  E-value=0.0002  Score=58.03  Aligned_cols=27  Identities=30%  Similarity=0.294  Sum_probs=24.6

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          127 GDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       127 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+..++|.|.|++|+||||+|+.++++
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            346789999999999999999999988

>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=96.92  E-value=0.00052  Score=59.96  Aligned_cols=45  Identities=18%  Similarity=0.388  Sum_probs=31.9

Q ss_pred             ccccccchHHHHHHHHHHhc-------CC-C-ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLM-------GD-K-VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~-------~~-~-~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .++.+...+.       ++ . ..++.++|++|+|||.||+.+++.
T Consensus        23 ~~v~GQ~~--ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          23 KRVVGQDE--AIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             HHSCSCHH--HHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             CeEeCHHH--HHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHH
Confidence            45788866  5555544331       22 2 337889999999999999999887

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.89  E-value=0.00023  Score=56.57  Aligned_cols=24  Identities=21%  Similarity=0.208  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ++|+|.|++|+||||+++.+...+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998874

>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=96.89  E-value=0.00029  Score=61.59  Aligned_cols=25  Identities=32%  Similarity=0.407  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++.+.++|++|+|||.||+++++.
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhc
Confidence            3567889999999999999999987

>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=96.89  E-value=0.00017  Score=56.73  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.++|++|+||||+++.+++.
T Consensus         4 IvliG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            456699999999999999988

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.86  E-value=0.0025  Score=54.00  Aligned_cols=88  Identities=17%  Similarity=0.252  Sum_probs=56.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHHhcC-------------CCCCCccH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMALKL-------------SLTEDEDK  196 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~-------------~~~~~~~~  196 (359)
                      ..++|.|.+|+|||+|+..+.+..  .+.+=+.++++-+++.. ...++.+++.+.--.             ...+....
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~--~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~  146 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNV--AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPG  146 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH--TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHH--HhhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEECCCCCHH
Confidence            459999999999999999998762  22334567888888764 456777777664110             00111111


Q ss_pred             H-----HHHHHHHHHHh-c-CCcEEEEEecC
Q 038454          197 V-----SRARRLLGKLK-A-KKKFVLILDDI  220 (359)
Q Consensus       197 ~-----~~~~~l~~~l~-~-~k~~LlVlDdv  220 (359)
                      .     ...-.+.+++. . ++++|+++||+
T Consensus       147 ~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsl  177 (276)
T d2jdid3         147 ARARVALTGLTVAEYFRDQEGQDVLLFIDNI  177 (276)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCSCEEEEEECT
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCeEEEEEcch
Confidence            1     11233556665 2 58999999998

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.86  E-value=0.00024  Score=58.34  Aligned_cols=29  Identities=17%  Similarity=0.305  Sum_probs=25.4

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          125 LMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       125 l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +......+|.+.|++|+||||||+.+...
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45566789999999999999999999876

>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=96.85  E-value=0.00021  Score=56.03  Aligned_cols=21  Identities=29%  Similarity=0.452  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|.|++|+||||+++.++.+
T Consensus         3 I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            778899999999999999998

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.81  E-value=0.00022  Score=56.36  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..|.++|++|+||||+|+.+++.
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~   25 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARA   25 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
Confidence            34678899999999999999988

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.78  E-value=0.00033  Score=54.97  Aligned_cols=24  Identities=25%  Similarity=0.201  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ++++|+|..|+|||||+.++...+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998873

>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=96.72  E-value=0.00035  Score=55.29  Aligned_cols=21  Identities=38%  Similarity=0.585  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |+|+|++|+|||||++.+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhc
Confidence            899999999999999999986

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.70  E-value=0.0031  Score=52.06  Aligned_cols=89  Identities=10%  Similarity=0.160  Sum_probs=51.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCC----CccEEEEEeCCCcCHHHHHHHHHHHhcC------------CCCCC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNE----FSDVIWVTVSQPLDLVKLQAEIAMALKL------------SLTED  193 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~~~~~~~~~~~~~~i~~~l~~------------~~~~~  193 (359)
                      -+++.|+|.+|+||||||.+++.. ......    -..++|++....++...+. .....++.            .....
T Consensus        34 G~~~li~G~pGsGKT~l~lq~~~~-~~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  111 (251)
T d1szpa2          34 GSITELFGEFRTGKSQLCHTLAVT-CQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGLDPDDALNNVAYARAYNA  111 (251)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHTTT-TTSCTTTTCCSCEEEEEESSSCCCGGGGH-HHHHHTCCCHHHHGGGEEEEECCST
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH-hhhhhhhccCCceEEEEeecchHHHHHHH-HHHHhcCCchhhhhcceEEEeccch
Confidence            469999999999999999998776 222111    2357788876665533332 22222221            11112


Q ss_pred             ccHHHHHHHHHHHHhcCCcEEEEEecC
Q 038454          194 EDKVSRARRLLGKLKAKKKFVLILDDI  220 (359)
Q Consensus       194 ~~~~~~~~~l~~~l~~~k~~LlVlDdv  220 (359)
                      ....................++++|++
T Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~ds~  138 (251)
T d1szpa2         112 DHQLRLLDAAAQMMSESRFSLIVVDSV  138 (251)
T ss_dssp             TTHHHHHHHTHHHHHHSCEEEEEEETG
T ss_pred             hHHHHHHHHHHHHhhccccceeeehhh
Confidence            233344444445555446777788876

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.70  E-value=0.00036  Score=56.27  Aligned_cols=24  Identities=25%  Similarity=0.189  Sum_probs=22.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+|.|.|++|+||||+|+.+++.
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~   24 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEK   24 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999987

>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=96.69  E-value=0.00045  Score=55.04  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ++|.|.|++|+||||+++.+...+
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999884

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.68  E-value=0.0019  Score=56.13  Aligned_cols=68  Identities=18%  Similarity=0.219  Sum_probs=40.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhcCCCCCCccHHHHHHHHHHHHhcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALKLSLTEDEDKVSRARRLLGKLKAK  210 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~l~~~l~~~  210 (359)
                      .++.++|++|+|||.||+.++..   ....+. .+-++.++-.+              . . ..+.+..+..+.+..+. 
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~---~~~~~~-~~~~~~~~~~~--------------~-~-~G~~e~~~~~~f~~a~~-  182 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEA---LGGKDK-YATVRFGEPLS--------------G-Y-NTDFNVFVDDIARAMLQ-  182 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHH---HHTTSC-CEEEEBSCSST--------------T-C-BCCHHHHHHHHHHHHHH-
T ss_pred             ceEEEECCCCccHHHHHHHHHHH---hcCCCC-eEEEEhhHhhh--------------c-c-cchHHHHHHHHHHHHhh-
Confidence            45666899999999999999988   322221 11233333211              1 1 12334445555554443 


Q ss_pred             CcEEEEEecC
Q 038454          211 KKFVLILDDI  220 (359)
Q Consensus       211 k~~LlVlDdv  220 (359)
                       ..+|++|.+
T Consensus       183 -~~ilf~DEi  191 (321)
T d1w44a_         183 -HRVIVIDSL  191 (321)
T ss_dssp             -CSEEEEECC
T ss_pred             -ccEEEeehh
Confidence             458999999

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.67  E-value=0.00038  Score=57.22  Aligned_cols=25  Identities=20%  Similarity=0.288  Sum_probs=23.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+||+|.|++|+||||+|+.+++++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4799999999999999999999983

>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=96.58  E-value=0.00057  Score=55.96  Aligned_cols=25  Identities=28%  Similarity=0.227  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +-+|+|.|.+|+||||+|+.+.+.+
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999998874

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.49  E-value=0.00053  Score=55.05  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..|.|.|++|+||||+|+.+++.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            456889999999999999999888

>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=96.44  E-value=0.006  Score=50.62  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999999876

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.43  E-value=0.0015  Score=55.59  Aligned_cols=38  Identities=26%  Similarity=0.375  Sum_probs=31.4

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          117 IVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       117 ~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ++..+.+.+..++.++|.+.|-||+||||+|..++..+
T Consensus         7 ~~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~l   44 (279)
T d1ihua2           7 SLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRL   44 (279)
T ss_dssp             CHHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34566677778889999999999999999988887763

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.42  E-value=0.00073  Score=54.46  Aligned_cols=25  Identities=32%  Similarity=0.239  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.++|.|.|++|+||||+|+.+++.
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3588999999999999999999987

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.33  E-value=0.00077  Score=53.46  Aligned_cols=21  Identities=24%  Similarity=0.335  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|.|++|+||||+|+.++..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999887

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.27  E-value=0.0019  Score=55.33  Aligned_cols=29  Identities=28%  Similarity=0.260  Sum_probs=24.6

Q ss_pred             cCCCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          126 MGDKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       126 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .++.+++|.+.|-||+||||+|..++..+
T Consensus         4 ~~~~p~~i~~sGKGGVGKTTvaa~lA~~l   32 (296)
T d1ihua1           4 LQNIPPYLFFTGKGGVGKTSISCATAIRL   32 (296)
T ss_dssp             GSSCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCcChHHHHHHHHHHHH
Confidence            34558899999999999999988887774

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=96.25  E-value=0.00099  Score=58.56  Aligned_cols=46  Identities=20%  Similarity=0.368  Sum_probs=33.0

Q ss_pred             CcccccccchHHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHc
Q 038454          105 PTTTLVGENTKKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       105 ~~~~~vGr~~~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      +-..++|.+.  .+..|.-.....+..-|.+.|.+|+||||||+.+..
T Consensus         5 ~f~~I~Gq~~--~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           5 PFSAIVGQED--MKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CGGGSCSCHH--HHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             ChhhccCcHH--HHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            4567899965  555444333333334589999999999999999864

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.25  E-value=0.00094  Score=53.51  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=20.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++++| |.|++|+||||+|+.++..
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~   26 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKN   26 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHH
Confidence            34555 7899999999999999987

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.18  E-value=0.001  Score=52.87  Aligned_cols=22  Identities=18%  Similarity=0.317  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|.|++|+||||+|+.+++.
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3788999999999999999988

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.18  E-value=0.0011  Score=54.46  Aligned_cols=24  Identities=21%  Similarity=0.291  Sum_probs=21.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      -+|+|-|++|+||||+|+.++.++
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            368899999999999999999984

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.17  E-value=0.0011  Score=52.66  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|.|++|+||||+|+.++++
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999988

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.17  E-value=0.0061  Score=52.59  Aligned_cols=78  Identities=15%  Similarity=0.040  Sum_probs=43.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHhc--CCCCCCccHHHHHHHHHHH
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMALK--LSLTEDEDKVSRARRLLGK  206 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~--~~~~~~~~~~~~~~~l~~~  206 (359)
                      .+-+|+|.|.+|+||||+|+.+...+.+..... .+.-++...-+-....+..  ..+.  ...+..-+.+.+...+...
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~-~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~~l  155 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLSRWPEHR-RVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVSDL  155 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCC-CEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCC-ceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHHHH
Confidence            467999999999999999999987731111122 2444444333222222221  1111  1223345666666666655


Q ss_pred             Hhc
Q 038454          207 LKA  209 (359)
Q Consensus       207 l~~  209 (359)
                      ..+
T Consensus       156 k~g  158 (308)
T d1sq5a_         156 KSG  158 (308)
T ss_dssp             TTT
T ss_pred             HcC
Confidence            555

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.17  E-value=0.0028  Score=55.29  Aligned_cols=55  Identities=16%  Similarity=0.313  Sum_probs=36.6

Q ss_pred             HHHHHHHHh--cCCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCc-cEEEEEeCCCc
Q 038454          117 IVKKVWEDL--MGDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFS-DVIWVTVSQPL  173 (359)
Q Consensus       117 ~~~~l~~~l--~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~~~~~~  173 (359)
                      ...++++.+  ..++..+|+|+|++|+|||||.-++...+  ....+. .++-++.+.++
T Consensus        36 ~~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~--~~~g~~vaViavDpss~~   93 (323)
T d2qm8a1          36 AVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL--TAAGHKVAVLAVDPSSTR   93 (323)
T ss_dssp             HHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH--HHTTCCEEEEEECGGGGS
T ss_pred             HHHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH--hhcCCceeeeecccccHH
Confidence            344555555  34578899999999999999999998763  223333 34455544443

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.17  E-value=0.0011  Score=53.29  Aligned_cols=22  Identities=18%  Similarity=0.428  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|+|++|+|||||++.+...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            4789999999999999999877

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=96.17  E-value=0.0049  Score=52.24  Aligned_cols=87  Identities=13%  Similarity=0.153  Sum_probs=51.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCc-CHHHHHHHHHHH--hcC-----CCCCC-----ccHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPL-DLVKLQAEIAMA--LKL-----SLTED-----EDKV  197 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~--l~~-----~~~~~-----~~~~  197 (359)
                      ..++|+|.+|+|||+|+......   ...+-..++++-+.... ...++..++...  +..     ...+.     .-..
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~---~~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~  144 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILN---QQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  144 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHT---CCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHhh---hcccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHH
Confidence            45889999999999999886655   23344567777777654 334444444332  100     00011     1112


Q ss_pred             HHHHHHHHHHhc-CCcEEEEEecC
Q 038454          198 SRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 ~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ...-.+.++++. ++++|+++||+
T Consensus       145 ~~a~tiAEyfrd~G~~Vlll~Dsl  168 (276)
T d1fx0a3         145 YTGAALAEYFMYRERHTLIIYDDL  168 (276)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECH
T ss_pred             HHHHHHHHHHHHcCCceeEEeecc
Confidence            333444555554 48999999998

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=96.17  E-value=0.0014  Score=55.97  Aligned_cols=96  Identities=19%  Similarity=0.180  Sum_probs=52.1

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEE-eCCCcCHHHHHHHHHHHhcC----CCCCC
Q 038454          120 KVWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVT-VSQPLDLVKLQAEIAMALKL----SLTED  193 (359)
Q Consensus       120 ~l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i~~~l~~----~~~~~  193 (359)
                      ++++.+.. ..-..++|.|.+|+|||+|+..+.+. .. .++-.+++.+. +.+.....   .++......    ...+.
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~-~~-~~~~~~v~~~~~iger~~ev---~~~~~~~~~~vv~~t~d~  106 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQS-IA-YNHPDCVLMVLLIDERPEEV---TEMQRLVKGEVVASTFDE  106 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHH-HH-HHCTTSEEEEEEEEECHHHH---HHHHHHCSSEEEEEETTS
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHH-Hh-hcCCCeEEEEEeeceeHHHH---HhHHhhcceEEEeccCCC
Confidence            45665543 33467999999999999999999987 22 23334444433 33322211   222222211    11111


Q ss_pred             ccH-----HHHHHHHHHHHhc-CCcEEEEEecC
Q 038454          194 EDK-----VSRARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       194 ~~~-----~~~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      ...     ....-.+.+++.+ ++.+||++||+
T Consensus       107 ~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsl  139 (289)
T d1xpua3         107 PASRHVQVAEMVIEKAKRLVEHKKDVIILLDSI  139 (289)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCH
T ss_pred             chhHHHHHHHHHHHHHHHHHHhccCceeecCcH
Confidence            111     1223334455544 58999999998

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.15  E-value=0.0011  Score=53.37  Aligned_cols=24  Identities=21%  Similarity=0.423  Sum_probs=20.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-.|.|.|++|+||||+|+.++.+
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHH
Confidence            345678899999999999999988

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.14  E-value=0.0015  Score=55.30  Aligned_cols=36  Identities=17%  Similarity=0.446  Sum_probs=27.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEe
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTV  169 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~  169 (359)
                      +.|+|+|-||+||||+|..++..+.  +..+. ++-|+.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA--~~G~r-VllID~   37 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLH--AMGKT-IMVVGC   37 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--TTTCC-EEEEEE
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHH--hCCCc-EEEEec
Confidence            6799999999999999999988843  23333 445554

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.13  E-value=0.001  Score=53.20  Aligned_cols=23  Identities=22%  Similarity=0.426  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.|+|++|+|||||++.++++
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHh
Confidence            45889999999999999999887

>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=96.13  E-value=0.0014  Score=52.47  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=20.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      .+-+|+|+|+.|+||||+|..+-.
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999987743

>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=96.12  E-value=0.0013  Score=52.38  Aligned_cols=23  Identities=22%  Similarity=0.440  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|.|+|++|+|||||++.+..+
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            57899999999999999999877

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.01  E-value=0.0032  Score=54.75  Aligned_cols=45  Identities=18%  Similarity=0.285  Sum_probs=32.8

Q ss_pred             ccccccchHHHHHHHHHHhc-------C-C-CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          107 TTLVGENTKKIVKKVWEDLM-------G-D-KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       107 ~~~vGr~~~~~~~~l~~~l~-------~-~-~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|.+.  .++.+...+.       + + ...++.++|++|+|||.||+.++.-
T Consensus        22 ~~viGQ~~--a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~   75 (315)
T d1r6bx3          22 MLVFGQDK--AIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA   75 (315)
T ss_dssp             TTSCSCHH--HHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeecChHH--HHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhh
Confidence            46788866  5555544441       1 2 2347889999999999999999986

>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=95.99  E-value=0.0042  Score=54.23  Aligned_cols=62  Identities=19%  Similarity=0.244  Sum_probs=33.4

Q ss_pred             HHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHH
Q 038454          119 KKVWEDLM--GDKVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAE  181 (359)
Q Consensus       119 ~~l~~~l~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  181 (359)
                      .+++..+.  .++..+|+|+|++|+|||||...+...+ ...++=-+++-++-+.+++-..++.+
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~-~~~g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL-IREGLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH-HHTTCCEEEEEECCC-----------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH-HhcCCceeeecCCCceeeeccccccc
Confidence            44555443  4568899999999999999999998763 12222113444444555554445443

>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=95.97  E-value=0.0062  Score=51.88  Aligned_cols=44  Identities=18%  Similarity=0.056  Sum_probs=29.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQP  172 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~  172 (359)
                      .+-+|+|.|..|+||||||..+...+.........++-++...-
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            45689999999999999999887763111111123555665443

>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=95.97  E-value=0.0015  Score=51.89  Aligned_cols=21  Identities=24%  Similarity=0.354  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|.|++|+||||+|+.++..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            557799999999999999987

>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=95.93  E-value=0.0016  Score=51.58  Aligned_cols=22  Identities=23%  Similarity=0.237  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|.|++|+||||+|+.++++
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999999987

>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=95.87  E-value=0.002  Score=51.14  Aligned_cols=23  Identities=17%  Similarity=0.380  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|.|+|++|+|||||++.+..+
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999999876

>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=95.82  E-value=0.0019  Score=51.83  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=22.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..+.+|+|-|.-|+||||+++.+.+.
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            34568999999999999999998877

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.76  E-value=0.04  Score=45.24  Aligned_cols=49  Identities=14%  Similarity=0.146  Sum_probs=34.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCccc---ccCCCccEEEEEeCCCcCHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQE---ETNEFSDVIWVTVSQPLDLVKL  178 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~~~~~~~~~~~  178 (359)
                      -+++.|+|.+|+|||++|.+++.....   ....+..+.|+.....+.....
T Consensus        37 G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (258)
T d1v5wa_          37 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRL   88 (258)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHH
Confidence            369999999999999999999864211   1223456778887766664433

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.59  E-value=0.0059  Score=47.65  Aligned_cols=35  Identities=17%  Similarity=0.392  Sum_probs=27.4

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...++.++.+...+ |.|+|.+|+|||||..++...
T Consensus         4 ~~~~~~~~~~k~~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           4 FTRIWRLFNHQEHK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHHTTSCEE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHHhCCCeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            45667666666554 679999999999999998765

>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=95.57  E-value=0.0031  Score=52.11  Aligned_cols=22  Identities=23%  Similarity=0.303  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ||+|+|+.|+|||||..++.+.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~   23 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRY   23 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Confidence            7999999999999999999865

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.57  E-value=0.0057  Score=49.70  Aligned_cols=24  Identities=21%  Similarity=0.199  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ..|+|-|+-|+||||+++.+.+.+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999874

>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=95.55  E-value=0.004  Score=51.06  Aligned_cols=40  Identities=20%  Similarity=0.051  Sum_probs=26.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQ  171 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~  171 (359)
                      -.++.|.|.+|+|||+||.+++.... ..+ -..++|++...
T Consensus        26 G~~~~I~G~~G~GKT~la~~~~~~~~-~~~-~~~~~~~s~e~   65 (242)
T d1tf7a1          26 GRSTLVSGTSGTGKTLFSIQFLYNGI-IEF-DEPGVFVTFEE   65 (242)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH-HHH-CCCEEEEESSS
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHH-Hhc-CCCcccccccC
Confidence            47899999999999999988654311 111 12366666543

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.50  E-value=0.012  Score=48.62  Aligned_cols=49  Identities=22%  Similarity=0.298  Sum_probs=34.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCccc--c-cCCCccEEEEEeCCCcCHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQE--E-TNEFSDVIWVTVSQPLDLVKL  178 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~--~-~~~F~~~~wv~~~~~~~~~~~  178 (359)
                      -+++.|+|.+|+||||+|.+++.....  . .......+|+......+...+
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            369999999999999999999866211  0 112345778877766665444

>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=95.48  E-value=0.024  Score=46.31  Aligned_cols=23  Identities=30%  Similarity=0.268  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++.|.|.+|+|||++|.+++.+
T Consensus        35 ~l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          35 SVTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            68999999999999999999865

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=95.44  E-value=0.0036  Score=53.53  Aligned_cols=37  Identities=19%  Similarity=0.348  Sum_probs=26.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS  170 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~  170 (359)
                      +.|+|+|-||+||||+|..++..+.  ...+. ++-|+..
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA--~~G~r-VLlID~D   39 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALA--EMGKK-VMIVGCD   39 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--HTTCC-EEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH--HCCCC-EEEEecC
Confidence            5788999999999999999887742  22333 5556654

>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=95.42  E-value=0.0061  Score=54.00  Aligned_cols=25  Identities=24%  Similarity=0.337  Sum_probs=21.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+..+...|+.|+|||.||+.++..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~   91 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKH   91 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhh
Confidence            4566899999999999999999875

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.41  E-value=0.0023  Score=54.58  Aligned_cols=26  Identities=23%  Similarity=0.282  Sum_probs=20.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +.++|+|.|.+|+||||+|+.+.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999987764

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=95.39  E-value=0.005  Score=49.17  Aligned_cols=26  Identities=23%  Similarity=0.451  Sum_probs=22.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++++.|+|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            34678999999999999999999864

>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=95.35  E-value=0.0036  Score=47.90  Aligned_cols=21  Identities=29%  Similarity=0.389  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|+|.+|+|||||..++..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998755

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.34  E-value=0.016  Score=46.71  Aligned_cols=51  Identities=18%  Similarity=0.199  Sum_probs=32.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      +.|+|-|+.|+||||+++.+.+.+  ....+..+.+..-.......+.++...
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L--~~~g~~~~~~~~ep~~~~~g~~i~~~~   53 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL--EQLGIRDMVFTREPGGTQLAEKLRSLL   53 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH--HHTTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH--HhCCCCeEEEecCCCCccchhhhHHHH
Confidence            568999999999999999998874  233444455443222223344444443

>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=95.29  E-value=0.0041  Score=50.48  Aligned_cols=23  Identities=22%  Similarity=0.246  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|.|+|++|+|||||.+.+..+
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            57899999999999999999876

>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=95.28  E-value=0.0047  Score=51.24  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||++.++.-
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            68999999999999999999765

>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=95.27  E-value=0.0047  Score=47.57  Aligned_cols=22  Identities=32%  Similarity=0.566  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||..++.++
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998776

>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=95.27  E-value=0.0043  Score=51.18  Aligned_cols=24  Identities=21%  Similarity=0.321  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCcchhhHhccCC
Confidence            368999999999999999988765

>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=95.23  E-value=0.0039  Score=50.37  Aligned_cols=24  Identities=25%  Similarity=0.487  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcc
Confidence            368999999999999999999876

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=95.21  E-value=0.03  Score=47.46  Aligned_cols=90  Identities=17%  Similarity=0.173  Sum_probs=48.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCC-----ccEEEEEeCCCcC-HHHHHHHHHHHhcC-------CCCCCccHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEF-----SDVIWVTVSQPLD-LVKLQAEIAMALKL-------SLTEDEDKV  197 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-----~~~~wv~~~~~~~-~~~~~~~i~~~l~~-------~~~~~~~~~  197 (359)
                      ..++|.|.+|+|||+|+..+..........-     ..++++-+++... ..++...+...-..       ...+.....
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~~  148 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPL  148 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHH
T ss_pred             CEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEEEECCCCCHHH
Confidence            5689999999999999988765411111111     1355666666543 44555554432111       111111111


Q ss_pred             H-----HHHHHHHHHhc-CCcEEEEEecC
Q 038454          198 S-----RARRLLGKLKA-KKKFVLILDDI  220 (359)
Q Consensus       198 ~-----~~~~l~~~l~~-~k~~LlVlDdv  220 (359)
                      .     ..-.+.++++. ++++|+++||+
T Consensus       149 r~~~~~~a~tiAEyfrd~G~~VLll~Dsl  177 (285)
T d2jdia3         149 QYLAPYSGCSMGEYFRDNGKHALIIYDDL  177 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEETH
T ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEEcCh
Confidence            1     11223444443 49999999997

>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=95.19  E-value=0.0046  Score=51.31  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.++--
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            368999999999999999999775

>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=95.18  E-value=0.0053  Score=50.67  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcC
Confidence            368999999999999999998764

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.13  E-value=0.012  Score=49.04  Aligned_cols=42  Identities=24%  Similarity=0.366  Sum_probs=30.3

Q ss_pred             cccccchHHHHHHHHHHh----cCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          108 TLVGENTKKIVKKVWEDL----MGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       108 ~~vGr~~~~~~~~l~~~l----~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|||.+.  .++++.+.+    ..+  ..|.|.|..|+|||++|+.+.+.
T Consensus         1 ~~v~~S~--~~~~~~~~~~~~a~~~--~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESP--KMKEILEKIKKISCAE--CPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSH--HHHHHHHHHHHHTTCC--SCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCH--HHHHHHHHHHHHhCCC--CCEEEECCCCcCHHHHHHHHHHh
Confidence            3788876  444444444    333  34789999999999999999765

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.11  E-value=0.0057  Score=50.56  Aligned_cols=26  Identities=12%  Similarity=0.235  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      +++.|+|-|+-|+||||+++.+.+.+
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46889999999999999999999874

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.08  E-value=0.0057  Score=47.85  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||||+.++.++
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3789999999999999998765

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.07  E-value=0.0064  Score=48.95  Aligned_cols=23  Identities=22%  Similarity=0.423  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcCc
Q 038454          132 KIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .|+|-|.-|+||||+++.+.+.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998873

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=95.05  E-value=0.0054  Score=51.02  Aligned_cols=23  Identities=30%  Similarity=0.510  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..++|+|..|+|||||++.+..-
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            68999999999999999999876

>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=95.04  E-value=0.0061  Score=50.48  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            368999999999999999998875

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.03  E-value=0.0054  Score=51.45  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhcc
Confidence            368999999999999999998764

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.02  E-value=0.0061  Score=47.13  Aligned_cols=22  Identities=32%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||||+.++.+.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999999865

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.01  E-value=0.0055  Score=51.51  Aligned_cols=24  Identities=33%  Similarity=0.441  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcC
Confidence            368999999999999999999764

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.01  E-value=0.0062  Score=47.23  Aligned_cols=22  Identities=23%  Similarity=0.462  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||+|+.++.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998765

>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=94.99  E-value=0.0063  Score=47.09  Aligned_cols=21  Identities=24%  Similarity=0.452  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.++|.+|+|||||+.++.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>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=94.96  E-value=0.065  Score=44.81  Aligned_cols=52  Identities=13%  Similarity=0.031  Sum_probs=34.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHHHHh
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIAMAL  186 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l  186 (359)
                      .++.|.|.+|+|||+++.+++.++ -....+. +++++..  .+..++...++...
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~-a~~~g~~-v~~~s~E--~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQW-GTAMGKK-VGLAMLE--ESVEETAEDLIGLH   87 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH-HHTSCCC-EEEEESS--SCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhh-hhhcccc-eeEeeec--cchhhHHhHHHHHh
Confidence            578999999999999999998762 1223333 5555543  34555555555443

>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=94.95  E-value=0.0067  Score=50.21  Aligned_cols=23  Identities=22%  Similarity=0.254  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCChHHHHHHHHHcC
Confidence            47889999999999999999876

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.95  E-value=0.0061  Score=50.05  Aligned_cols=26  Identities=35%  Similarity=0.506  Sum_probs=23.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+++..|.|+-|+|||||.+++.+.
T Consensus         1 ~~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           1 NPIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CCEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            35789999999999999999999876

>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=94.93  E-value=0.0064  Score=49.28  Aligned_cols=20  Identities=20%  Similarity=0.280  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 038454          132 KIGVWGMGGFGKTAIMRHIN  151 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~  151 (359)
                      +|+|+|+.|+||||+|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998664

>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=94.90  E-value=0.0071  Score=48.63  Aligned_cols=24  Identities=21%  Similarity=0.164  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.++.|.|.+|+|||+||.+++.+
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHH
Confidence            369999999999999999998865

>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=94.89  E-value=0.0071  Score=47.06  Aligned_cols=21  Identities=29%  Similarity=0.692  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|+|.+|+|||||..++.+.
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999998865

>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=94.86  E-value=0.0065  Score=50.84  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcc
Confidence            368999999999999999998765

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.84  E-value=0.0071  Score=48.88  Aligned_cols=21  Identities=33%  Similarity=0.359  Sum_probs=18.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRHIN  151 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~  151 (359)
                      -+|+|+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998664

>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=94.84  E-value=0.0065  Score=50.54  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..++|+|+.|+|||||++.+..-
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            368999999999999999998764

>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=94.81  E-value=0.0074  Score=51.38  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            468999999999999999999876

>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=94.80  E-value=0.0075  Score=46.75  Aligned_cols=22  Identities=36%  Similarity=0.570  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|+.++.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999999875

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.78  E-value=0.0077  Score=46.49  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|+|.+|+|||+|+.++.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998765

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.78  E-value=0.0078  Score=46.84  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4889999999999999998754

>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=94.78  E-value=0.0077  Score=46.94  Aligned_cols=22  Identities=36%  Similarity=0.595  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||||..++.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999998875

>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=94.75  E-value=0.0073  Score=46.65  Aligned_cols=22  Identities=27%  Similarity=0.579  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||||..++.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3789999999999999998775

>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=94.73  E-value=0.0082  Score=47.46  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3789999999999999998865

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.72  E-value=0.0082  Score=46.57  Aligned_cols=21  Identities=29%  Similarity=0.485  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.|+|.+|+|||||..++.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            778999999999999998865

>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=94.71  E-value=0.0061  Score=50.13  Aligned_cols=24  Identities=25%  Similarity=0.228  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            368999999999999999999875

>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=94.71  E-value=0.0081  Score=46.58  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|+.++.+.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998764

>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=94.71  E-value=0.0082  Score=46.67  Aligned_cols=21  Identities=24%  Similarity=0.635  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.++|.+|+|||+|..++.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999999876

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.69  E-value=0.0051  Score=50.72  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      .+.|+|-|+-|+||||+|+.+.+.+
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998874

>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=94.69  E-value=0.009  Score=47.95  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|+|+|.+|+|||||...+.+.
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            57999999999999999999765

>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=94.67  E-value=0.0085  Score=46.60  Aligned_cols=22  Identities=18%  Similarity=0.353  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||||+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998865

>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=94.66  E-value=0.11  Score=42.45  Aligned_cols=25  Identities=20%  Similarity=0.093  Sum_probs=21.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+++.|+|+.+.||||+.+.+.--
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~   64 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALI   64 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHHHH
Confidence            3478999999999999999988654

>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=94.66  E-value=0.0092  Score=46.44  Aligned_cols=22  Identities=14%  Similarity=0.371  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|+|.+|+|||||..++...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999764

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.65  E-value=0.009  Score=46.44  Aligned_cols=22  Identities=32%  Similarity=0.487  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            3789999999999999998765

>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=94.63  E-value=0.0087  Score=46.69  Aligned_cols=22  Identities=36%  Similarity=0.564  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||..++.+.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4889999999999999998754

>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=94.62  E-value=0.012  Score=48.03  Aligned_cols=37  Identities=32%  Similarity=0.333  Sum_probs=27.6

Q ss_pred             cEEEEE-cCCCCcHHHHHHHHHcCcccccCCCccEEEEEeC
Q 038454          131 TKIGVW-GMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS  170 (359)
Q Consensus       131 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~  170 (359)
                      ++|+|+ |-||+||||+|..++..+.+   .-..++.|+..
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~---~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQ---LGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHH---TTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHh---CCCCEEEEeCC
Confidence            688888 68999999999999887432   22247777764

>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=94.60  E-value=0.009  Score=46.23  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||||+.++.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998765

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.59  E-value=0.009  Score=46.67  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999998765

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.59  E-value=0.01  Score=46.46  Aligned_cols=24  Identities=13%  Similarity=0.279  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999865

>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=94.54  E-value=0.007  Score=47.35  Aligned_cols=25  Identities=24%  Similarity=0.469  Sum_probs=21.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..-|+++|.+|+|||||..++...
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3455889999999999999998765

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.54  E-value=0.011  Score=46.24  Aligned_cols=24  Identities=17%  Similarity=0.342  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999999864

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.51  E-value=0.0097  Score=46.43  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||||+.++...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3889999999999999998754

>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=94.51  E-value=0.0097  Score=46.32  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|..++.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999998765

>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=94.51  E-value=0.01  Score=52.42  Aligned_cols=26  Identities=19%  Similarity=-0.023  Sum_probs=23.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+.+.++|++|+|||++|..+++.
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHH
Confidence            34578999999999999999999998

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.47  E-value=0.01  Score=45.98  Aligned_cols=23  Identities=22%  Similarity=0.406  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|.|+|.+|+|||||..++.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45889999999999999998765

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.47  E-value=0.01  Score=46.00  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|..++.+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999998765

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.44  E-value=0.011  Score=45.11  Aligned_cols=22  Identities=27%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998875

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.41  E-value=0.011  Score=45.84  Aligned_cols=22  Identities=36%  Similarity=0.582  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||||..++.+.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998875

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.40  E-value=0.011  Score=46.37  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|+.++.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999998766

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=94.39  E-value=0.0091  Score=46.59  Aligned_cols=23  Identities=22%  Similarity=0.540  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|.++|.+|+|||||..++...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999998665

>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=94.38  E-value=0.011  Score=46.25  Aligned_cols=22  Identities=23%  Similarity=0.498  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|..|+|||||+.++.+.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999998765

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.31  E-value=0.012  Score=47.24  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.|+|+|.+|+|||||..++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999765

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.31  E-value=0.012  Score=45.77  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||+|..++.+.
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999998765

>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=94.28  E-value=0.011  Score=49.10  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|.|+.|.|||||.+.+..-
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            368999999999999999999876

>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=94.27  E-value=0.0069  Score=50.23  Aligned_cols=24  Identities=38%  Similarity=0.567  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcC
Confidence            368999999999999999999875

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.24  E-value=0.012  Score=46.34  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|..++.++
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999998876

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=94.17  E-value=0.012  Score=46.04  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999875

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.16  E-value=0.013  Score=46.78  Aligned_cols=22  Identities=23%  Similarity=0.496  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||+.++.+.
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4889999999999999998865

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.15  E-value=0.012  Score=46.48  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||+|..++...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999988654

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.13  E-value=0.013  Score=46.32  Aligned_cols=22  Identities=36%  Similarity=0.447  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|..++.+.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3889999999999999998765

>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=94.13  E-value=0.012  Score=49.28  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|+|||||++.+..-
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHCC
Confidence            68999999999999999999876

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.09  E-value=0.014  Score=45.36  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988665

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=94.08  E-value=0.015  Score=45.26  Aligned_cols=25  Identities=24%  Similarity=0.393  Sum_probs=20.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+ |.++|.+|+|||||..++.+.
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3344 779999999999999998765

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.08  E-value=0.021  Score=46.54  Aligned_cols=37  Identities=24%  Similarity=0.293  Sum_probs=27.2

Q ss_pred             cEEEEE-cCCCCcHHHHHHHHHcCcccccCCCccEEEEEeC
Q 038454          131 TKIGVW-GMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVS  170 (359)
Q Consensus       131 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~  170 (359)
                      ++|+|+ +-||+||||+|..++..+.  .... .++.++..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la--~~g~-~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALG--DRGR-KVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH--HTTC-CEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH--hCCC-CEEEEeCC
Confidence            689999 5699999999999988742  2223 36666654

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.07  E-value=0.035  Score=42.55  Aligned_cols=27  Identities=26%  Similarity=0.246  Sum_probs=23.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      ...-+|.+.|.=|+||||+++.+++.+
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhc
Confidence            344589999999999999999999873

>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=94.04  E-value=0.014  Score=45.97  Aligned_cols=22  Identities=36%  Similarity=0.614  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998865

>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=94.01  E-value=0.015  Score=44.88  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||||..++...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3678899999999999988765

>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=93.96  E-value=0.015  Score=45.10  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|.|+|.+|+|||||+.++.+.
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            35889999999999999998765

>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=93.96  E-value=0.015  Score=45.34  Aligned_cols=22  Identities=32%  Similarity=0.578  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||||+.++.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3889999999999999888765

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.94  E-value=0.014  Score=46.43  Aligned_cols=19  Identities=32%  Similarity=0.613  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 038454          132 KIGVWGMGGFGKTAIMRHI  150 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v  150 (359)
                      -|.++|.+|+|||||+.++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999998

>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=93.93  E-value=0.015  Score=47.95  Aligned_cols=23  Identities=22%  Similarity=0.151  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+|+|+|..|+||||+|..+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999998765

>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=93.89  E-value=0.016  Score=45.13  Aligned_cols=22  Identities=18%  Similarity=0.365  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998764

>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=93.87  E-value=0.016  Score=45.57  Aligned_cols=21  Identities=33%  Similarity=0.379  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.++|.+|+|||+|+..+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998876

>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=93.86  E-value=0.016  Score=45.00  Aligned_cols=22  Identities=36%  Similarity=0.552  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||||+.++.++
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678899999999999998875

>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=93.82  E-value=0.016  Score=45.24  Aligned_cols=21  Identities=24%  Similarity=0.515  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |.++|.+|+|||||..++.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999998765

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=93.80  E-value=0.023  Score=50.06  Aligned_cols=54  Identities=13%  Similarity=0.050  Sum_probs=32.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCcccccCCCccEEEEEeCCCcCHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRPQEETNEFSDVIWVTVSQPLDLVKLQAEIA  183 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  183 (359)
                      .++..|.|++|.||||++..+...+.+....-...+.+..........+...+.
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~  216 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLG  216 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHT
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHH
Confidence            368999999999999988765443211212222356666655544444444443

>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=93.74  E-value=0.018  Score=43.98  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+++|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3779999999999999999754

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=93.72  E-value=0.01  Score=46.52  Aligned_cols=21  Identities=19%  Similarity=0.494  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998754

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.69  E-value=0.017  Score=45.72  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+++|.+|+|||+|+.++.+.
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999988766

>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=93.69  E-value=0.0092  Score=49.96  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=21.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -..++|+|..|+|||||++.+..-
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhc
Confidence            368999999999999999988654

>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=93.69  E-value=0.013  Score=48.28  Aligned_cols=23  Identities=17%  Similarity=0.374  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            68999999999999999998864

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=93.61  E-value=0.022  Score=44.57  Aligned_cols=36  Identities=25%  Similarity=0.450  Sum_probs=25.4

Q ss_pred             HHHHHHHh-cCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDL-MGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l-~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+++.+ .....--|.++|.+|+|||||..++.+.
T Consensus         4 ~~~~~~~l~~~~k~~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_           4 FSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             HHHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             HHHHHHHHhCCCceEEEEEECCCCCCHHHHHHHHhcC
Confidence            34455444 3334445779999999999999988655

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.60  E-value=0.01  Score=46.23  Aligned_cols=22  Identities=32%  Similarity=0.450  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||+|..++.+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999887654

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.53  E-value=0.018  Score=45.52  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||+|..++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998655

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=93.53  E-value=0.012  Score=46.39  Aligned_cols=22  Identities=18%  Similarity=0.548  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||..++.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998654

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.45  E-value=0.024  Score=46.01  Aligned_cols=25  Identities=20%  Similarity=0.138  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      -..|+|-|+-|+||||+++.+.+.+
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHH
Confidence            4679999999999999999999873

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.42  E-value=0.021  Score=44.67  Aligned_cols=22  Identities=23%  Similarity=0.478  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.++|.+|+|||||..++.+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999988775

>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=93.39  E-value=0.037  Score=45.08  Aligned_cols=33  Identities=27%  Similarity=0.474  Sum_probs=25.7

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++.|..++.+   +...++|.+|+|||||...+..+
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcch
Confidence            4556666642   57789999999999999988765

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.38  E-value=0.022  Score=44.65  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|.+|+|||||..++.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999999865

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=93.35  E-value=0.022  Score=44.58  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|.|.|.+|+||||||..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            45889999999999999998766

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.18  E-value=0.025  Score=44.29  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|.|.|.+|+||||||..+..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            45889999999999999998765

>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=93.17  E-value=0.019  Score=52.05  Aligned_cols=24  Identities=33%  Similarity=0.422  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+-|.++|++|+|||.||+.++..
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~   72 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKL   72 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cccEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999999986

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=93.15  E-value=0.012  Score=46.00  Aligned_cols=26  Identities=19%  Similarity=0.368  Sum_probs=21.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          128 DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       128 ~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++..-|+|+|.+++|||||..++...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34577999999999999999887654

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.00  E-value=0.015  Score=45.29  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=8.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|.|+|.+|+|||||..++.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999887764

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=93.00  E-value=0.14  Score=41.62  Aligned_cols=23  Identities=17%  Similarity=0.150  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +++.|+|+...||||+.+.+.--
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~   58 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALI   58 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHH
Confidence            47899999999999999987543

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=92.92  E-value=0.025  Score=46.06  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=19.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|.++|.+|+|||||+.++...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999987543

>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=92.90  E-value=0.03  Score=44.92  Aligned_cols=24  Identities=21%  Similarity=0.135  Sum_probs=21.1

Q ss_pred             cEEEEEcCC-CCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMG-GFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~g-GiGKTtLa~~v~~~~  154 (359)
                      +.+.|.|-| |+||||++..++.-+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHH
Confidence            568899997 999999999998874

>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=92.88  E-value=0.053  Score=45.17  Aligned_cols=39  Identities=23%  Similarity=0.359  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          115 KKIVKKVWEDLMGD--KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       115 ~~~~~~l~~~l~~~--~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..+.++...+.+.  ..-.|+|+|.+|+|||||...+..+
T Consensus        15 ~~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          15 QTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            33455555555432  3446889999999999999999876

>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=92.82  E-value=0.029  Score=46.98  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+..|+|.+|+||||||.+++..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            57889999999999999988765

>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=92.80  E-value=0.03  Score=43.51  Aligned_cols=23  Identities=22%  Similarity=0.328  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .-|.|.|.+|+||||||..+..+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            46889999999999999888766

>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=91.50  E-value=0.015  Score=44.39  Aligned_cols=21  Identities=19%  Similarity=0.417  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHcC
Q 038454          133 IGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~  153 (359)
                      |+++|.+|+|||||..++...
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            789999999999999998754

>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=91.37  E-value=0.052  Score=45.69  Aligned_cols=25  Identities=24%  Similarity=0.244  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++|-|+|+|.+|.|||||+-++...
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHh
Confidence            4688999999999999999998653

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=91.02  E-value=0.078  Score=45.74  Aligned_cols=22  Identities=32%  Similarity=0.369  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|.|.|..|+||||+...+...
T Consensus       168 nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEeeccccchHHHHHHhhh
Confidence            4889999999999999999887

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=90.40  E-value=0.075  Score=44.47  Aligned_cols=22  Identities=23%  Similarity=0.454  Sum_probs=20.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHH
Q 038454          130 VTKIGVWGMGGFGKTAIMRHIN  151 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~  151 (359)
                      +|.|+|+|..|.|||||+.++.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Confidence            4789999999999999999884

>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=90.11  E-value=0.21  Score=44.25  Aligned_cols=34  Identities=21%  Similarity=0.128  Sum_probs=27.0

Q ss_pred             HHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          120 KVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       120 ~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.+..+......+|.|.|+.|+||||....+.+.
T Consensus       148 ~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         148 DNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             HHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhh
Confidence            3344455555689999999999999999988876

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=90.06  E-value=0.086  Score=42.85  Aligned_cols=24  Identities=29%  Similarity=0.472  Sum_probs=20.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .++|+|.|-.+.|||||+.++...
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhh
Confidence            357999999999999999988654

>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=89.51  E-value=0.13  Score=40.71  Aligned_cols=37  Identities=16%  Similarity=0.051  Sum_probs=28.5

Q ss_pred             HHHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          117 IVKKVWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       117 ~~~~l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -+..+..+|.. ++-..+.++|+++.|||++|..+.+-
T Consensus        39 Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          39 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHH
Confidence            44555666643 45679999999999999999888765

>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=89.48  E-value=0.16  Score=43.84  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +-.|.|-|.-|+||||+++.+.+.
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHH
Confidence            456889999999999999999998

>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=89.07  E-value=0.11  Score=40.37  Aligned_cols=22  Identities=23%  Similarity=0.523  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .|+|+|.+++|||||..++...
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            5999999999999999998754

>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=88.61  E-value=0.19  Score=42.59  Aligned_cols=18  Identities=28%  Similarity=0.457  Sum_probs=14.6

Q ss_pred             EEEEEcCCCCcHHHHHHH
Q 038454          132 KIGVWGMGGFGKTAIMRH  149 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~  149 (359)
                      .+.|.|.+|+||||.+.+
T Consensus        26 ~~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             CEEEEECTTSCHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHH
Confidence            377889999999976654

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.57  E-value=0.19  Score=42.14  Aligned_cols=33  Identities=15%  Similarity=0.369  Sum_probs=27.0

Q ss_pred             HHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          120 KVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       120 ~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++++.+ ++.+.||+|+|+-+.|||+|+..+++.
T Consensus        23 ~~l~~~-~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          23 KILSAI-TQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHHTC-CSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHHcC-CCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            344444 456899999999999999999999876

>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=88.55  E-value=0.054  Score=44.22  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=19.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +...++|.+|+|||||...+..+
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             ceEEEECCCCccHHHHHHhhccH
Confidence            45568899999999999988766

>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=87.98  E-value=0.34  Score=35.37  Aligned_cols=25  Identities=12%  Similarity=0.065  Sum_probs=20.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +.++..|+++.|.|||+++-.++..
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~   31 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAA   31 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHT
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            3578899999999999998776654

>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=87.93  E-value=0.11  Score=43.74  Aligned_cols=19  Identities=26%  Similarity=0.267  Sum_probs=14.8

Q ss_pred             cEEEEEcCCCCcHHHHHHH
Q 038454          131 TKIGVWGMGGFGKTAIMRH  149 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~  149 (359)
                      ..+.|.|.+|+||||.+..
T Consensus        15 ~~~lI~g~aGTGKTt~l~~   33 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITN   33 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHH
Confidence            3477899999999976543

>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=87.09  E-value=0.22  Score=42.89  Aligned_cols=24  Identities=25%  Similarity=0.220  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      -.|.|-|.-|+||||+++.+.+.+
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            358999999999999999999873

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=86.86  E-value=0.17  Score=42.32  Aligned_cols=22  Identities=23%  Similarity=0.558  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Q 038454          132 KIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      -|+|+|++.+|||||-.++-+.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999988765

>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=86.86  E-value=0.46  Score=39.41  Aligned_cols=36  Identities=22%  Similarity=0.162  Sum_probs=27.9

Q ss_pred             HHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          118 VKKVWEDLMG--DKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       118 ~~~l~~~l~~--~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ...+..+|..  +....+.++|+|+.|||+++..+.+-
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~  127 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHH
Confidence            3455556643  45678999999999999999988775

>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=86.23  E-value=0.15  Score=43.81  Aligned_cols=24  Identities=21%  Similarity=0.288  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          130 VTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       130 ~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      +..|.|-|.=|+||||+++.+.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHH
Confidence            345899999999999999999876

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.46  E-value=0.24  Score=42.85  Aligned_cols=32  Identities=13%  Similarity=0.158  Sum_probs=25.0

Q ss_pred             HHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHc
Q 038454          121 VWEDLMG-DKVTKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       121 l~~~l~~-~~~~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      +.+.+.+ +++|-|+|+|..|.|||||+-.+..
T Consensus         7 ~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2           7 MRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             HHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             HHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            3344433 4688899999999999999998853

>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=85.40  E-value=0.48  Score=38.39  Aligned_cols=39  Identities=23%  Similarity=0.226  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          115 KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       115 ~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ....+++.+.+..+......|.|..|+|||.++......
T Consensus        61 ~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~   99 (233)
T d2eyqa3          61 AQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFL   99 (233)
T ss_dssp             HHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHH
Confidence            557788889899998899999999999999999888766

>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=84.75  E-value=0.081  Score=41.36  Aligned_cols=23  Identities=22%  Similarity=0.212  Sum_probs=19.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ++.+|+|+.|+||||+..++.--
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~   47 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTA   47 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46778999999999999998643

>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=84.64  E-value=0.25  Score=39.24  Aligned_cols=21  Identities=24%  Similarity=0.419  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHc
Q 038454          132 KIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       132 vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      -|+|+|-.+.|||||+.++..
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~   25 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTY   25 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            489999999999999998853

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=84.28  E-value=0.61  Score=38.65  Aligned_cols=25  Identities=12%  Similarity=0.442  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          129 KVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       129 ~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      ..-.|+|+|++.+|||||+..+..+
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CceEEEEEecCccchhhhhhhhhcc
Confidence            3456999999999999999999886

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=84.27  E-value=0.26  Score=41.98  Aligned_cols=29  Identities=24%  Similarity=0.367  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHcCcccccCCCc
Q 038454          133 IGVWGMGGFGKTAIMRHINNRPQEETNEFS  162 (359)
Q Consensus       133 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~  162 (359)
                      |+|+|.+.+|||||-.++-+. ......|+
T Consensus         3 v~lvG~pn~GKStlfn~lt~~-~~~v~nyp   31 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV-DVEIANYP   31 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC----------
T ss_pred             EeEECCCCCCHHHHHHHHHCC-CCchhcCC
Confidence            899999999999999999765 33334443

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=83.65  E-value=0.27  Score=41.53  Aligned_cols=23  Identities=35%  Similarity=0.605  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcC
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      --|+|+|.+.+|||||-.++-+.
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHCC
Confidence            35999999999999999999864

>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=83.34  E-value=0.29  Score=43.28  Aligned_cols=22  Identities=23%  Similarity=0.451  Sum_probs=19.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINN  152 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~  152 (359)
                      --|+|+|.+|+|||||...+..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4589999999999999999874

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=82.21  E-value=0.57  Score=38.72  Aligned_cols=39  Identities=21%  Similarity=0.231  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHcC
Q 038454          115 KKIVKKVWEDLMGDKVTKIGVWGMGGFGKTAIMRHINNR  153 (359)
Q Consensus       115 ~~~~~~l~~~l~~~~~~vi~I~G~gGiGKTtLa~~v~~~  153 (359)
                      .+.++++..-+.++....-.+.|.-|+|||.+|......
T Consensus        89 ~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~  127 (264)
T d1gm5a3          89 KRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILD  127 (264)
T ss_dssp             HHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHH
Confidence            557788888888888888999999999999999887765

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.91  E-value=0.43  Score=34.27  Aligned_cols=24  Identities=4%  Similarity=-0.168  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHcCc
Q 038454          131 TKIGVWGMGGFGKTAIMRHINNRP  154 (359)
Q Consensus       131 ~vi~I~G~gGiGKTtLa~~v~~~~  154 (359)
                      -+|.+.|..|+||+|||.++...+
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~~l   30 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLSTF   30 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHH
Confidence            478999999999999999997774