Citrus Sinensis ID: 045345

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-----
Protein Sequence
NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNTVSN
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHcHHccccccEEEEEEEcccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHcccccccEEEEEEEccccccHHHHHHHHHHHHccccccEEEccccHHHHHHccHHHHHHHHHHHHccccccccccccccHHHHHHHHcccEEEEEEcccccHHHHHHHHccccccccccccccccccEEEcccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccEEHEEccccccccHHHHHHHHHHHHccccHHHHHHHHHcccccccccHHHHHHHHcccccccHHHHHHHHHHccccccccHHHHHccccEEEccccEEEccHHHHHHHHHHHHHccccccccccccccccHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHHHHHHccccEEEEEEEEEccHHHHHcccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHHHccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEcccccHHHHHHHHcccccccccEEEEccccEEEEEccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHHccccHHHcHHHHHccEEEEEccccEEEHHHHHHHHcHHHHHccccccccccEEcccHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
NYAYSTWCLDELVEIVElkstnghqqlifpifydveptvvRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVsgwelkdrsesEFIVDIVKDILempskipakseIFKDLVGMDSCWNTLRFlmdkepygvrmigicgmggigkTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELlklpdtstwnvYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLagkhewfdEHLLMthgvdevhklkvlhDDEALQLFCKQAfktnqpwkeYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIAcfyrgedrdYVTKIIdycdfdpviGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIvkrqspkepgkrsrlwkeedVHHVLTKNTVSN
Flexible Loop (DISEMBL)
nyaystwcLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVAnvsgwelkdrsesefIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYgkttkewesapkrlereseneilDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQqivkrqspkepgkrsrlwkeedvhhvltkntvsn
Low Complexity Region (SEG)
NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRmigicgmggigKTTLARVVYDLSSHEFEASSFLANVREISEKGGliclqkqllsellklPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNTVSN
Disordered region (IsUnstruct)
**AYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEW*************EILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLL***************************************
Disordered Region (DISOPRED)
NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT***
Disordered Region (DISEMBL)
NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQ*****************KEEDVHHVLTKNTVSN
Disordered Region (DISPRO)
*Y*YSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTK*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNTVSN
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	445	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.968	0.376	0.412	6e-90
O82500	1095	Putative disease resistan	no	no	0.970	0.394	0.370	5e-77
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.955	0.326	0.342	8e-63
Q9FL92	1372	Probable WRKY transcripti	no	no	0.878	0.284	0.318	3e-52
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.934	0.219	0.306	2e-47
Q9FH83	1288	Probable WRKY transcripti	no	no	0.766	0.264	0.320	1e-44
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.889	0.245	0.289	3e-37
Q9SZA7	816	Probable disease resistan	no	no	0.548	0.299	0.293	1e-12
Q8RXS5	888	Probable disease resistan	no	no	0.629	0.315	0.252	6e-12
Q9FJB5	901	Disease resistance RPP8-l	no	no	0.568	0.280	0.278	2e-11

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score =  331 bits (849), Expect = 6e-90,   Method: Compositional matrix adjust.
 Identities = 190/461 (41%), Positives = 294/461 (63%), Gaps = 30/461 (6%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S WCL+ELV+I+E K+    +Q + PIFYDV+P+ VR Q  SF +AF +HE  ++ 
Sbjct: 76  NYATSRWCLNELVKIMECKTR--FKQTVIPIFYDVDPSHVRNQKESFAKAFEEHETKYKD 133

Query: 61  NIEKVQKWRDALKKVANVSG-WELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGM 119
           ++E +Q+WR AL + AN+ G  + +D+++++ I  IV  I     KI       +++VG+
Sbjct: 134 DVEGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKISLS--YLQNIVGI 191

Query: 120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL------SSHEFEASSFLAN 173
           D+    +  L++    GVR++GI GMGG+GKTT+AR ++D       SS++F+ + FL +
Sbjct: 192 DTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDGACFLKD 251

Query: 174 VREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQ 233
           ++E   K G+  LQ  LLSELL+    +  N  DG   + SRLR +KVL+++D   +   
Sbjct: 252 IKE--NKRGMHSLQNALLSELLR-EKANYNNEEDGKHQMASRLRSKKVLIVLDDIDNKDH 308

Query: 234 -LESLAGKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQ 281
            LE LAG  +WF           D+HL+  +  D ++++  L D E++QLF + AF    
Sbjct: 309 YLEYLAGDLDWFGNGSRIIITTRDKHLIEKN--DIIYEVTALPDHESIQLFKQHAFGKEV 366

Query: 282 PWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKIS 341
           P + +E+LS  VV Y+ GLPLALKV GS L+     EW+SA + ++  S + I+D LKIS
Sbjct: 367 PNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKIS 426

Query: 342 FDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLR 401
           +DGL   ++++FLDIACF RGE++DY+ +I++ C      G+R+LIDKSL+ IS  N+++
Sbjct: 427 YDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYNQVQ 486

Query: 402 MHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
           MH+L+Q+MG+ IV  Q  K+PG+RSRLW  ++V  V++ NT
Sbjct: 487 MHDLIQDMGKYIVNFQ--KDPGERSRLWLAKEVEEVMSNNT 525

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.
Nicotiana glutinosa (taxid: 35889)

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  288 bits (738), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 171/461 (37%), Positives = 271/461 (58%), Gaps = 29/461 (6%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S+WCLDEL+EI++ K   G +  + P+FY V+P+ +RKQT  FG +F   E     
Sbjct: 74  NYASSSWCLDELIEIMKCKEEQGLK--VMPVFYKVDPSDIRKQTGKFGMSFL--ETCCGK 129

Query: 61  NIEKVQKWRDALKKVANVSGWELKD-RSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGM 119
             E+   WR AL   AN+ G   ++  +E+  I  I KD+LE  +  P++   F DLVGM
Sbjct: 130 TEERQHNWRRALTDAANILGDHPQNWDNEAYKITTISKDVLEKLNATPSRD--FNDLVGM 187

Query: 120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE 179
           ++    +  L+  E  GVR++GI G  G+GKTT+AR +Y+     F  S F+ NVRE   
Sbjct: 188 EAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENVRESYG 247

Query: 180 KGGL------ICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQ 233
           + GL      + LQ++ LS+LL   D    +    L  I  RL+ +KVL+I+D   +++Q
Sbjct: 248 EAGLDDYGLKLHLQQRFLSKLLDQKDLRVRH----LGAIEERLKSQKVLIILDDVDNIEQ 303

Query: 234 LESLAGKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQP 282
           L++LA +++WF           ++ LL++H ++ ++++      EAL +FC+ AFK + P
Sbjct: 304 LKALAKENQWFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAFKQSSP 363

Query: 283 WKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISF 342
             + + L+      +G LPLAL+VLGSF+ GK  +EWE +   L+   + E+  +LK+ +
Sbjct: 364 SDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKVLKVGY 423

Query: 343 DGLRETEKKIFLDIACFYRGEDRDYVTK-IIDYCDFDPVIGIRVLIDKSLIEISNGNRLR 401
           DGL + EK +FL IAC + G+  +Y+ + II   D     G++VL DKSLI+     R+ 
Sbjct: 424 DGLHDHEKDLFLHIACIFSGQHENYLKQMIIANNDTYVSFGLQVLADKSLIQKFENGRIE 483

Query: 402 MHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
           MH+LL+++G+++V++QS  EPGKR  L   ++   VL+ NT
Sbjct: 484 MHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKETCGVLSNNT 524

Arabidopsis thaliana (taxid: 3702)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score =  241 bits (615), Expect = 8e-63,   Method: Compositional matrix adjust.
 Identities = 157/458 (34%), Positives = 256/458 (55%), Gaps = 33/458 (7%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA STWCL+ELVEI   K      Q++ PIF+ V+ + V+KQT  FG+ F   EET + 
Sbjct: 74  NYASSTWCLNELVEIH--KCYTNLNQMVIPIFFHVDASEVKKQTGEFGKVF---EETCKA 128

Query: 61  NIE-KVQKWRDALKKVANVSGWELKD-RSESEFIVDIVKDILEMPSKIPAKSEIFKDLVG 118
             E + Q W+ AL  VA ++G++L+   SE+  I ++ +D+L    K    S+ F DLVG
Sbjct: 129 KSEDEKQSWKQALAAVAVMAGYDLRKWPSEAAMIEELAEDVLR---KTMTPSDDFGDLVG 185

Query: 119 MDSCWNTLRFLMDKEPYGVR-MIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA-NVRE 176
           +++    ++ ++  E    R M+GI G  GIGK+T+ R +Y   S +F   +F+      
Sbjct: 186 IENHIEAIKSVLCLESKEARIMVGIWGQSGIGKSTIGRALYSKLSIQFHHRAFITYKSTS 245

Query: 177 ISEKGGL-ICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLE 235
            S+  G+ +  +K+LLSE+L   D       +   ++  RL+ +KVL+++D    L+ L+
Sbjct: 246 GSDVSGMKLRWEKELLSEILGQKDIKI----EHFGVVEQRLKQQKVLILLDDVDSLEFLK 301

Query: 236 SLAGKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWK 284
           +L GK EWF           D  LL  H +D +++++   +  AL + C+ AF  + P  
Sbjct: 302 TLVGKAEWFGSGSRIIVITQDRQLLKAHEIDLIYEVEFPSEHLALTMLCRSAFGKDSPPD 361

Query: 285 EYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDG 344
           ++++L+  V K +G LPL L VLGS L G+T + W     RL      +I+  L++S+D 
Sbjct: 362 DFKELAFEVAKLAGNLPLGLSVLGSSLKGRTKEWWMEMMPRLRNGLNGDIMKTLRVSYDR 421

Query: 345 LRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHN 404
           L + ++ +FL IAC + G +  YV  ++        +G  +L +KSLI I+    + MHN
Sbjct: 422 LHQKDQDMFLYIACLFNGFEVSYVKDLL-----KDNVGFTMLTEKSLIRITPDGYIEMHN 476

Query: 405 LLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
           LL+++G++I + +S   PGKR  L   ED+H V+T+ T
Sbjct: 477 LLEKLGREIDRAKSKGNPGKRRFLTNFEDIHEVVTEKT 514

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. 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. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score =  206 bits (523), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 142/446 (31%), Positives = 239/446 (53%), Gaps = 55/446 (12%)

Query: 6   TWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKV 65
           T  LD+LV++++ +      Q++ P+ Y V  +     +A   + FS            V
Sbjct: 67  TVSLDKLVKVLDCQK--NKDQVVVPVLYGVRSSETEWLSALDSKGFSS-----------V 113

Query: 66  QKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNT 125
              R              K+ S+S+ + + V+D+ E           + + +G+ S    
Sbjct: 114 HHSR--------------KECSDSQLVKETVRDVYE--------KLFYMERIGIYSKLLE 151

Query: 126 LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLAN-VREISEKGGLI 184
           +  +++K+P  +R +GI GM GIGKTTLA+ V+D  S EF+A  F+ +  + I EKG   
Sbjct: 152 IEKMINKQPLDIRCVGIWGMPGIGKTTLAKAVFDQMSGEFDAHCFIEDYTKAIQEKGVYC 211

Query: 185 CLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWF 244
            L++Q L E      T T      L ++  RL  ++VL+++D       +ES  G  +WF
Sbjct: 212 LLEEQFLKENAGASGTVT-----KLSLLRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWF 266

Query: 245 -----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYV 293
                      D+ +     V+++++++ L++ EALQLF   A   +   +   ++S  V
Sbjct: 267 GPKSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEALQLFSLCASIDDMAEQNLHEVSMKV 326

Query: 294 VKYSGGLPLALKVLGSFLYGKT-TKEWESAPKRLERESENEILDILKISFDGLRETEKKI 352
           +KY+ G PLAL + G  L GK    E E A  +L+       +D +K S+D L + EK I
Sbjct: 327 IKYANGHPLALNLYGRELMGKKRPPEMEIAFLKLKECPPAIFVDAIKSSYDTLNDREKNI 386

Query: 353 FLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQ 412
           FLDIACF++GE+ DYV ++++ C F P +GI VL++KSL+ IS  NR+RMHNL+Q++G+Q
Sbjct: 387 FLDIACFFQGENVDYVMQLLEGCGFFPHVGIDVLVEKSLVTISE-NRVRMHNLIQDVGRQ 445

Query: 413 IVKRQSPKEPGKRSRLWKEEDVHHVL 438
           I+ R++ ++  +RSRLW+   + ++L
Sbjct: 446 IINRET-RQTKRRSRLWEPCSIKYLL 470

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score =  190 bits (482), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 138/450 (30%), Positives = 237/450 (52%), Gaps = 34/450 (7%)

Query: 5    STWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEK 64
            ST+    L+ I+E + T    ++++PIFY + P              SK+ E F +  E 
Sbjct: 721  STYVPSNLLNILEHQHT--EDRVVYPIFYRLSPYDFV--------CNSKNYERFYLQDEP 770

Query: 65   VQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWN 124
             +KW+ ALK++  + G+ L D+SESE I +IV+D L++   + +  ++  +++GMD    
Sbjct: 771  -KKWQAALKEITQMPGYTLTDKSESELIDEIVRDALKV---LCSADKV--NMIGMDMQVE 824

Query: 125  TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLI 184
             +  L+  E   VR IGI G  GIGKTT+A  ++   S ++E    L ++ +  E  G  
Sbjct: 825  EILSLLCIESLDVRSIGIWGTVGIGKTTIAEEIFRKISVQYETCVVLKDLHKEVEVKGHD 884

Query: 185  CLQKQLLSELLKLPDTSTWNVYD-GLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEW 243
             +++  LSE+L++ +     + D     + SRL+ +++L+I+D   D + +++  G   +
Sbjct: 885  AVRENFLSEVLEV-EPHVIRISDIKTSFLRSRLQRKRILVILDDVNDYRDVDTFLGTLNY 943

Query: 244  FD--EHLLMTH---------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKY 292
            F     ++MT           +D V+++K L   ++L L  +   +     + Y+ LS  
Sbjct: 944  FGPGSRIIMTSRNRRVFVLCKIDHVYEVKPLDIPKSLLLLDRGTCQIVLSPEVYKTLSLE 1003

Query: 293  VVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETEKKI 352
            +VK+S G P  L+ L S       +EW    + ++  S   I  I + S  GL + E+ I
Sbjct: 1004 LVKFSNGNPQVLQFLSSI-----DREWNKLSQEVKTTSPIYIPGIFEKSCCGLDDNERGI 1058

Query: 353  FLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQ 412
            FLDIACF+   D+D V  ++D C F   +G R L+DKSL+ IS  N + M + +Q  G++
Sbjct: 1059 FLDIACFFNRIDKDNVAMLLDGCGFSAHVGFRGLVDKSLLTISQHNLVDMLSFIQATGRE 1118

Query: 413  IVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
            IV+++S   PG RSRLW  + + HV   +T
Sbjct: 1119 IVRQESADRPGDRSRLWNADYIRHVFINDT 1148

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score =  181 bits (458), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 119/371 (32%), Positives = 208/371 (56%), Gaps = 30/371 (8%)

Query: 84  KDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGIC 143
           K+ S+S  + +IV+D+ E        +  +   +G+ S    +  +++K+P G+R +GI 
Sbjct: 127 KECSDSILVEEIVRDVYE--------THFYVGRIGIYSKLLEIENMVNKQPIGIRCVGIW 178

Query: 144 GMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTW 203
           GM GIGKTTLA+ V+D  S  F+AS F+ +  +   + GL CL ++   +LL   D +  
Sbjct: 179 GMPGIGKTTLAKAVFDQMSSAFDASCFIEDYDKSIHEKGLYCLLEE---QLLPGNDATIM 235

Query: 204 NVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWF-----------DEHLLMTH 252
                L  +  RL  ++VL+++D   +    ES     +W            D+ +    
Sbjct: 236 K----LSSLRDRLNSKRVLVVLDDVRNALVGESFLEGFDWLGPGSLIIITSRDKQVFCLC 291

Query: 253 GVDEVHKLKVLHDDEALQLFCKQA-FKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFL 311
           G++++++++ L++ EA QLF   A  K +   +  ++LS  V+ Y+ G PLA+ V G  L
Sbjct: 292 GINQIYEVQGLNEKEARQLFLLSASIKEDMGEQNLQELSVRVINYANGNPLAISVYGREL 351

Query: 312 YGKTT-KEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTK 370
            GK    E E+A  +L+R    +I+D  K ++D L + EK IFLDIACF++GE+ +YV +
Sbjct: 352 KGKKKLSEMETAFLKLKRRPPFKIVDAFKSTYDTLSDNEKNIFLDIACFFQGENVNYVIQ 411

Query: 371 IIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWK 430
           +++ C F P + I VL+DK L+ IS  NR+ +H L Q++G++I+  ++  +  +R RLW+
Sbjct: 412 LLEGCGFFPHVEIDVLVDKCLVTISE-NRVWLHKLTQDIGREIINGET-VQIERRRRLWE 469

Query: 431 EEDVHHVLTKN 441
              + ++L  N
Sbjct: 470 PWSIKYLLEYN 480

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Acts also as a disease resistance protein conferring resistance to Ralstonia solanacearum.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score =  156 bits (395), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 130/449 (28%), Positives = 229/449 (51%), Gaps = 53/449 (11%)

Query: 4   YSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIE 63
           Y  W   + +++++    NGH  ++ P+FY V+       T  +G A S           
Sbjct: 86  YDPW-FPKFLKVIQGWQNNGH--VVVPVFYGVDSL-----TRVYGWANS----------- 126

Query: 64  KVQKWRDALKKVANVSGWELKD-RSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSC 122
               W +A K  ++ S     +  ++SE + +IV+D+       PA+       VG+ + 
Sbjct: 127 ----WLEAEKLTSHQSKILSNNVLTDSELVEEIVRDV--YGKLYPAER------VGIYAR 174

Query: 123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGG 182
              +  L+ K+   +R IGI GM GIGKTTLA+ V++  S +++AS F+ N  E   K G
Sbjct: 175 LLEIEKLLYKQHRDIRSIGIWGMPGIGKTTLAKAVFNHMSTDYDASCFIENFDEAFHKEG 234

Query: 183 LICLQKQLLSELLK--LPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGK 240
           L  L K+ + ++LK      S++ +   L     +L  +++L+++D   D    ES   +
Sbjct: 235 LHRLLKERIGKILKDEFDIESSYIMRPTLHR--DKLYDKRILVVLDDVRDSLAAESFLKR 292

Query: 241 HEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQL 289
            +WF           D+ +     +++++ ++ L+  EALQLF +  F  N+P +   +L
Sbjct: 293 LDWFGSGSLIIITSVDKQVFAFCQINQIYTVQGLNVHEALQLFSQSVFGINEPEQNDRKL 352

Query: 290 SKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETE 349
           S  V+ Y  G PLAL + G  L GK + E E+A   L+     +I D+LK ++  L + E
Sbjct: 353 SMKVIDYVNGNPLALSIYGRELMGKKS-EMETAFFELKHCPPLKIQDVLKNAYSALSDNE 411

Query: 350 KKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEM 409
           K I LDIA F++GE  +YV ++++   + P + I VL+DK ++ IS  N ++M+NL+Q+ 
Sbjct: 412 KNIVLDIAFFFKGETVNYVMQLLEESHYFPRLAIDVLVDKCVLTISE-NTVQMNNLIQDT 470

Query: 410 GQQIVKRQSPKEPGKRSRLWKEEDVHHVL 438
            Q+I       E    +R+W+   + ++L
Sbjct: 471 CQEIFN----GEIETCTRMWEPSRIRYLL 495

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZA7|DRL29_ARATH Probable disease resistance protein At4g33300 OS=Arabidopsis thaliana GN=At4g33300 PE=2 SV=3

 Score = 74.7 bits (182), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 85/290 (29%), Positives = 128/290 (44%), Gaps = 46/290 (15%)

Query: 139 MIGICGMGGIGKTTLARVV---YDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELL 195
           + GI GMGG+GKTTLA+ +   +++  H FE       V            Q  LL EL 
Sbjct: 202 VFGISGMGGVGKTTLAKELQRDHEVQCH-FENRILFLTVS-----------QSPLLEELR 249

Query: 196 KLPDTSTWNVYDGLKM------IGSRLRYRKVLLIVDAAFDLKQLESLAG-KHEWFDEHL 248
           +L     W    G +               + L+I+D  +  + L+ L   K       +
Sbjct: 250 EL----IWGFLSGCEAGNPVPDCNFPFDGARKLVILDDVWTTQALDRLTSFKFPGCTTLV 305

Query: 249 LMTHGVDE---VHKLKVLHDDEALQLFCKQAF-KTNQPWKEYEQLSKYVVKYSGGLPLAL 304
           +    + E    + ++VL +DEA+ LFC  AF + + P    + L K V     GLPLAL
Sbjct: 306 VSRSKLTEPKFTYDVEVLSEDEAISLFCLCAFGQKSIPLGFCKDLVKQVANECKGLPLAL 365

Query: 305 KVLGSFLYGKTTKEWESAPKRLER------ESENEILDILKISFDGLRETEKKIFLDIAC 358
           KV G+ L GK    W+   +RL +        E+ +L  ++ S D L +T K  FLD+  
Sbjct: 366 KVTGASLNGKPEMYWKGVLQRLSKGEPADDSHESRLLRQMEASLDNLDQTTKDCFLDLGA 425

Query: 359 FYRGEDR----DYVTKI-IDYCDFDPVIGIRVLID---KSLIEISNGNRL 400
           F   EDR    D +  I I+  D D      +L+D   K+L+ +    RL
Sbjct: 426 F--PEDRKIPLDVLINIWIELHDIDEGNAFAILVDLSHKNLLTLGKDPRL 473

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 72.4 bits (176), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 87/344 (25%), Positives = 153/344 (44%), Gaps = 64/344 (18%)

Query: 114 KDLVGMD----SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH---EFE 166
           + +V MD    S WN L   M+ E   + ++G+ GMGG+GKTTL   + +  S    EF+
Sbjct: 153 RPMVAMDPMLESAWNRL---MEDE---IGILGLHGMGGVGKTTLLSHINNRFSRVGGEFD 206

Query: 167 ASSFLANVREISEKGGLICLQKQLLSELL--------KLPDTSTWNVYDGLKMIGSRLRY 218
              ++   +E+  +     +Q ++  +L         K  D    N+Y+ LK       +
Sbjct: 207 IVIWIVVSKELQIQR----IQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLK-------H 255

Query: 219 RKVLLIVD---AAFDLKQLESLAGKHEWFDEHLLMTH--------GVDEVHKLKVLHDDE 267
           ++ +L++D   +  DL ++       E   + +  T         GVD   +++ L  D+
Sbjct: 256 KRFVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDD 315

Query: 268 ALQLFCKQAFK-TNQPWKEYEQLSKYVVKYSGGLPLALKVLG-SFLYGKTTKEWESAPKR 325
           A  LF K+  + T     E   +++ V K   GLPLAL V+G +  Y +T +EW SA   
Sbjct: 316 AWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDV 375

Query: 326 LERES------ENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDP 379
           L   +      E+EIL ILK S+D L+  + K+       +  +       ++DY   + 
Sbjct: 376 LTSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEG 435

Query: 380 VIG-------------IRVLIDKSLIEISNGNRLRMHNLLQEMG 410
            I              I +L+   L+   N   ++MH++++EM 
Sbjct: 436 FIDRNKGKAENQGYEIIGILVRSCLLMEENQETVKMHDVVREMA 479

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJB5|RP8L3_ARATH Disease resistance RPP8-like protein 3 OS=Arabidopsis thaliana GN=RPP8L3 PE=2 SV=1

 Score = 70.5 bits (171), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 79/284 (27%), Positives = 131/284 (46%), Gaps = 31/284 (10%)

Query: 101 EMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVY-- 158
           E+    P  SE   DLVG++     L   M  E   ++++ I GMGGIGKTTLAR ++  
Sbjct: 150 EIRQTFPNSSE--SDLVGVEQSVEELVGPM-VEIDNIQVVSISGMGGIGKTTLARQIFHH 206

Query: 159 DLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRY 218
           DL    F+  +++   ++ ++K     + ++L     ++     + +   L  +    RY
Sbjct: 207 DLVRRHFDGFAWVCVSQQFTQKHVWQRILQELRPHDGEILQMDEYTIQGKLFQLLETGRY 266

Query: 219 RKVLLIVDAAFDLKQL-ESLAGKHEWFDEHLLMTHGVDEV----------HKLKVLHDDE 267
             VL  V    D  ++ E    K  W    +L+T   + V           + ++L+  E
Sbjct: 267 LVVLDDVWKEEDWDRIKEVFPRKRGW---KMLLTSRNEGVGLHADPTCLSFRARILNPKE 323

Query: 268 ALQLFCKQAFKTNQP-WKEYEQLSKYVVKYSGGLPLALKVLGSFLYGK-TTKEWESAPKR 325
           + +LF +   + N+  ++E E + K +V Y GGLPLA+KVLG  L  K T  EW+   + 
Sbjct: 324 SWKLFERIVPRRNETEYEEMEAIGKEMVTYCGGLPLAVKVLGGLLANKHTASEWKRVSEN 383

Query: 326 ----------LERESENEILDILKISFDGLRETEKKIFLDIACF 359
                     L+  S N +  IL +S++ L    K  FL +A F
Sbjct: 384 IGAQIVGKSCLDDNSLNSVYRILSLSYEDLPTDLKHCFLYLAHF 427

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	445
255547494	1082	TMV resistance protein N, putative [Rici	0.984	0.404	0.512	1e-115
224060459	524	tir-nbs-lrr resistance protein [Populus	0.984	0.835	0.475	1e-115
255579570	1116	TMV resistance protein N, putative [Rici	0.986	0.393	0.513	1e-115
255547496	1097	ATP binding protein, putative [Ricinus c	0.986	0.400	0.504	1e-114
359495289	1133	PREDICTED: TMV resistance protein N-like	0.968	0.380	0.490	1e-112
224126759	515	tir-nbs-lrr resistance protein [Populus	0.984	0.850	0.469	1e-112
255564976	944	TMV resistance protein N, putative [Rici	0.975	0.459	0.483	1e-109
147802475	1244	hypothetical protein VITISV_027841 [Viti	0.979	0.350	0.496	1e-107
356560337	1289	PREDICTED: TMV resistance protein N-like	0.970	0.335	0.469	1e-107
399920191	1320	TIR-NBS-LRR [Rosa rugosa]	0.977	0.329	0.473	1e-107

>gi|255547494|ref|XP_002514804.1| TMV resistance protein N, putative [Ricinus communis] gi|223545855|gb|EEF47358.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  422 bits (1084), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 233/455 (51%), Positives = 314/455 (69%), Gaps = 17/455 (3%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           N A ST CLDELVEI E   T G  Q + P+FY V+P  VRKQT  FGE+F+K+E+ F+ 
Sbjct: 75  NSASSTRCLDELVEIFECMKTKG--QNVLPVFYSVDPAEVRKQTGRFGESFAKYEKLFKN 132

Query: 61  NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAK-SEIFKDLVGM 119
           NI KVQ+WR A   +AN+SGW+ ++R ESE I +IV+++L+   K   + S   K+ VGM
Sbjct: 133 NIGKVQQWRAAATGMANLSGWDTQNRHESELIEEIVEEVLKKLRKSSHRFSSASKNFVGM 192

Query: 120 DSCWN-TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREIS 178
           +S  N  +++L  +E   VR +GICGMGGIGKTT+AR VY   S EFE S FLANVRE+ 
Sbjct: 193 NSRLNEMMKYLGKRESDDVRFVGICGMGGIGKTTIARAVYAELSSEFEGSCFLANVREVE 252

Query: 179 EKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLA 238
           EK  L  LQ+QLLSE L     + W+++ G   I +RL ++KVL+I+D    L+QL+SLA
Sbjct: 253 EKNSL-SLQEQLLSETLMERKITVWDIHAGRNEIKNRLSHKKVLIILDDVNHLEQLKSLA 311

Query: 239 GKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYE 287
           G  +WF           DEHLL+ HGV+ ++++  L+ DEAL+LF  +AFK + P  +Y 
Sbjct: 312 GMSDWFGNGSRIIITTRDEHLLLCHGVERIYRVGGLNHDEALRLFSLKAFKNDYPADDYV 371

Query: 288 QLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRE 347
           +LS + V Y+ GLPLAL VLGS LYG++  EW+SA  RL+      ILD L ISF+GL+E
Sbjct: 372 ELSNHFVNYANGLPLALDVLGSCLYGRSINEWQSALDRLKEIPNKRILDKLYISFEGLQE 431

Query: 348 TEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQ 407
            EKK+FLDIACF++GED+ YV K+++ C F   IGIRVL+ KSLI I+N +R+ MH+LLQ
Sbjct: 432 IEKKVFLDIACFFKGEDKHYVVKVLESCGFYAEIGIRVLLSKSLITITN-DRIWMHDLLQ 490

Query: 408 EMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
           EMG+ IV+R   +EPG+RSRLW  +DV HVL+ +T
Sbjct: 491 EMGRDIVRRSCYEEPGRRSRLWLYKDVSHVLSNDT 525

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224060459|ref|XP_002300210.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222847468|gb|EEE85015.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  421 bits (1081), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 216/454 (47%), Positives = 317/454 (69%), Gaps = 16/454 (3%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S +CLDELV+I+E K + G  Q++FP+FY+V+P+ V +Q  SFGEA   HE  + +
Sbjct: 64  NYARSIYCLDELVKILECKESKG--QVVFPVFYNVDPSDVEEQNGSFGEALLFHETYWGI 121

Query: 61  NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMD 120
           + E+VQKWR+AL K A +SGW L + +E++FI  IV+ +L   +        ++  VG++
Sbjct: 122 DTERVQKWREALTKAAQLSGWHLNNGNEAKFIWRIVEKVLSQLNHTSLHIAAYQ--VGLN 179

Query: 121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEK 180
           +    +  +++    GV M+G+CG+GG+GKTT+++ VY+L +++FE S FL+NVREIS++
Sbjct: 180 NHIEEINHMLNTRSDGVCMVGLCGIGGVGKTTISKAVYNLIANQFEGSCFLSNVREISKQ 239

Query: 181 GGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGK 240
            GL+ LQ+ LL E+L   +    +V  G+ +I  RLR +KVL+++D A +L QL+ LAG+
Sbjct: 240 HGLLRLQETLLYEILGDKNLVLGSVDRGINVIRDRLRNKKVLIVIDDADNLDQLKQLAGE 299

Query: 241 HEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQL 289
            +WF           DEHLL+ HGV+ ++K+K L  D+AL LF   AF+   P +++ ++
Sbjct: 300 PDWFGLGSRVIITTRDEHLLVAHGVERLYKVKELCPDDALMLFSWNAFRNPHPSEDHLEV 359

Query: 290 SKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETE 349
           S   V+Y+ GLPLAL VLG+FLYG++ +EWES   RL+R    +I ++LKISFDGL   E
Sbjct: 360 SLRAVRYAQGLPLALVVLGAFLYGRSIREWESELDRLKRIPNKQIYEVLKISFDGLEYHE 419

Query: 350 KKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEM 409
           K IFLDIA F++G+++DYV KI+D CD +P IGI+VLI+KSLI I N N+++MH LLQ M
Sbjct: 420 KTIFLDIARFFKGQEKDYVIKILDACDVNPDIGIQVLIEKSLIYIEN-NKIQMHELLQSM 478

Query: 410 GQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNTV 443
           G+QIV ++SP  PG+RSRLW  EDV HVLT+N V
Sbjct: 479 GRQIVHQESPNIPGRRSRLWFHEDVLHVLTENIV 512

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255579570|ref|XP_002530627.1| TMV resistance protein N, putative [Ricinus communis] gi|223529837|gb|EEF31770.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  420 bits (1080), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 233/454 (51%), Positives = 315/454 (69%), Gaps = 15/454 (3%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA+S WCL+E VEI E    NG  Q++ P+FY+V P  VRKQT  FG+AF +H+  FR 
Sbjct: 75  NYAFSRWCLEEAVEIAECAKGNG--QMVVPVFYNVNPNEVRKQTGDFGKAFGEHQLRFRN 132

Query: 61  NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMD 120
           N+  VQ+WR AL ++ ++SGW+L++R+ESE I +I+KD+L    K    S    D VGM+
Sbjct: 133 NLLTVQRWRLALTQLGSLSGWDLQERTESELIEEIIKDVLGKLRKSSLMSGAAMDFVGMN 192

Query: 121 SCWNTLRFLMDKEPYG-VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE 179
           S    +   +D      V  IGI GMGGIGKTT+ARVVY+  + +FE SSFLANVRE+ E
Sbjct: 193 SRLVEMSMYLDMGRLNDVLFIGISGMGGIGKTTIARVVYEELASQFEGSSFLANVREVKE 252

Query: 180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAG 239
           K GL+ LQ+QLLSE+L   + + W+ + G   I +R+  ++VLLI+D    L+QL+ LAG
Sbjct: 253 KHGLVPLQQQLLSEILMDGNIAIWDAHCGTSEIVNRMCKKRVLLILDDVNQLEQLKLLAG 312

Query: 240 KHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQ 288
           +H+WF           DEHLL  HGVD+++K++ L  DE++ LFC +AFK++ P  +Y +
Sbjct: 313 RHDWFGSGSRIIITTRDEHLLKCHGVDKIYKVQGLSQDESIHLFCLRAFKSDYPADDYVE 372

Query: 289 LSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRET 348
           LS   V Y  GLPLAL VLGSFL+ K+  EW SA +RL++    EIL+ L ISFDGL E 
Sbjct: 373 LSNEFVNYCNGLPLALDVLGSFLFDKSVNEWTSALRRLKQIPNQEILEKLFISFDGLEEV 432

Query: 349 EKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQE 408
           EKKIFLDIACF+ GED+DYV K+++   F P +GIR LI+KSLI IS   R+ MH+LLQE
Sbjct: 433 EKKIFLDIACFFNGEDKDYVIKVLESRGFYPHVGIRDLINKSLITISK-ERIWMHDLLQE 491

Query: 409 MGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
           MG++IV+++S +EPGKRSRLW  EDV+HVL+ +T
Sbjct: 492 MGREIVRQESQEEPGKRSRLWLYEDVYHVLSNDT 525

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547496|ref|XP_002514805.1| ATP binding protein, putative [Ricinus communis] gi|223545856|gb|EEF47359.1| ATP binding protein, putative [Ricinus communis]

 Score =  417 bits (1072), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 229/454 (50%), Positives = 312/454 (68%), Gaps = 15/454 (3%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           +YA S+WCLDEL EI + +   G  Q++ P+F +V P  VRKQ A FG+AF+KHE  F+ 
Sbjct: 76  DYASSSWCLDELAEIHKCRKEKG--QIVMPVFCNVNPYEVRKQAAGFGKAFAKHELRFKN 133

Query: 61  NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMD 120
           +++KVQ+WR A+ ++AN++GW+  DR ESE I +IVK++L    K   +S   K+ VGM+
Sbjct: 134 DVQKVQRWRAAISELANLAGWDSLDRHESELIQEIVKEVLSKLRKTSLESSAAKNFVGMN 193

Query: 121 SCWNTLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE 179
           S    +   +D  +   V+ IGICGMGGIGKTT+AR V++  S +FE SSFLANVRE+ E
Sbjct: 194 SRLVEMSMCLDMGQLDDVQFIGICGMGGIGKTTIARFVHEELSSQFEGSSFLANVREVEE 253

Query: 180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAG 239
           K GL+ LQKQLLSE+L   + +  N + G+  I +RL +++VL+I+D    L QL+ LAG
Sbjct: 254 KRGLVHLQKQLLSEILLDRNITICNAFGGMTEISNRLAHKRVLIILDDVNQLDQLKMLAG 313

Query: 240 KHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQ 288
            H+WF           DEHLL  HGVD++++++ L  DEAL LFC +AF+ + P +++ +
Sbjct: 314 MHDWFGKGSRIIVTSRDEHLLKCHGVDKIYRVEGLGRDEALHLFCLKAFRNDHPIEDFLE 373

Query: 289 LSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRET 348
           LS   V Y  GLPLAL V GSFL+GK+  EW SA  RL+     EILD L ISFDGL E 
Sbjct: 374 LSNQFVNYCNGLPLALDVFGSFLFGKSLSEWRSALDRLKEIPNQEILDKLNISFDGLEEM 433

Query: 349 EKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQE 408
           EKK+FLDIACF+ GEDRDYV +++D C   P  GI VL+ KSLI IS   R+ MH+LLQE
Sbjct: 434 EKKLFLDIACFFNGEDRDYVYEVLDSCGLYPDFGISVLVSKSLITISK-ERIWMHDLLQE 492

Query: 409 MGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
           +G+ IV+R+S +EPGKRSRLW  +D+ HVL+ +T
Sbjct: 493 LGRDIVRRESQEEPGKRSRLWLYKDIRHVLSNDT 526

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495289|ref|XP_002276927.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  412 bits (1058), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 223/455 (49%), Positives = 308/455 (67%), Gaps = 24/455 (5%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S WCL+ELV+I+E   T G  Q + PIFYDV+P+ VR+    FGEA +KHEE  R 
Sbjct: 110 NYASSGWCLEELVKILECMRTMG--QRVLPIFYDVDPSHVRQHNGKFGEALAKHEENLR- 166

Query: 61  NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKD--LVG 118
            +E+V  WRDAL +VAN+SGW+ +++ E   I  I   I    +K+ ++S  + D  LVG
Sbjct: 167 TMERVPIWRDALTQVANLSGWDSRNKHEPMLIKGIATYIW---NKLFSRSSNYADQNLVG 223

Query: 119 MDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREIS 178
           ++S    ++ L+  E   VRM+GI GMGGIGKTTLAR VY+  SH+FEA  FL NV +  
Sbjct: 224 IESSIREIKSLLFTESLDVRMVGIWGMGGIGKTTLARAVYNQISHQFEACCFLENVSDYL 283

Query: 179 EKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLA 238
           EK   + LQK+ LS+LL+  + +T     G   I + L  +KVL+++D   + K LE L 
Sbjct: 284 EKQDFLSLQKKYLSQLLEDENLNT----KGCISIKALLCSKKVLIVIDDVNNSKILEDLI 339

Query: 239 GKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYE 287
           GKH WF           ++ LL+THGV+EV++ + L+DD A++LF + AFK   P  +Y 
Sbjct: 340 GKHGWFGIGSRIIITTRNKQLLVTHGVNEVYQAEKLNDDNAVELFSRYAFKKAHPIDDYV 399

Query: 288 QLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRE 347
           +LS+ +V Y+ GLPLAL+VLGSFL+ K+ ++WES   +L++  + EI D+L++SFDGL +
Sbjct: 400 ELSQCIVVYAQGLPLALRVLGSFLFDKSKRQWESQLDKLKKIPKKEIQDVLRVSFDGLED 459

Query: 348 TEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQ 407
            E+ IFLDIACF++G D+DYV +I   C F P IGIRVLI+KSLI +   N+L MHNLLQ
Sbjct: 460 NERDIFLDIACFFQGHDKDYVMEIFRSCGFFPDIGIRVLIEKSLISVVE-NKLMMHNLLQ 518

Query: 408 EMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
           +MG++IV+  SPKEPGKRSRLW  +DV+HVLTK T
Sbjct: 519 KMGREIVREASPKEPGKRSRLWIHDDVNHVLTKKT 553

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126759|ref|XP_002329466.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870146|gb|EEF07277.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  411 bits (1056), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 213/454 (46%), Positives = 309/454 (68%), Gaps = 16/454 (3%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S +CLDELV+I+E K + G  Q++ P+FY+V+P+ V +Q  SFGE+   HE    +
Sbjct: 64  NYARSIYCLDELVKILECKESKG--QVVLPVFYNVDPSDVEEQKGSFGESLDFHETYLGI 121

Query: 61  NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMD 120
           N E++++WR+AL K A +SGW L   +E+ FI  IV+++    +        ++  VG+D
Sbjct: 122 NAEQLKQWREALTKAAQLSGWHLDRGNEAVFIRKIVEEVWAQLNHTSLHVAAYQ--VGLD 179

Query: 121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEK 180
                L  +++     V M+GICG+GG GKTT+A+ VY+L +++FEA  FL+NVRE S++
Sbjct: 180 QRIEELIHMLNIGSSNVCMVGICGLGGSGKTTVAKAVYNLINNQFEACCFLSNVREFSKR 239

Query: 181 GGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGK 240
            GL+ LQ++LL E+L        +V  G+ +I  RLR++KVL+++D    L QL+ +AG+
Sbjct: 240 YGLVHLQEKLLFEILGDKTLVLGSVDRGINVIKDRLRHKKVLIVIDDVDHLDQLKQIAGE 299

Query: 241 HEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQL 289
            +WF           DE LL+ HGV+ + ++K L  D+AL LFC  AF+ + P  +Y ++
Sbjct: 300 RDWFGLGSKIIITTRDERLLVFHGVERLLRVKELCCDDALMLFCWHAFRNSHPPIDYLEI 359

Query: 290 SKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETE 349
           S  VVKYS GLPLAL VLGSFLYG++  E ES   +L R    +I ++LKISFDGL   E
Sbjct: 360 SDQVVKYSKGLPLALVVLGSFLYGRSIPERESELDKLRRIPNKQIYEVLKISFDGLEHHE 419

Query: 350 KKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEM 409
           + IFLDIACF++G+++DYV KI+D CDFDPVIGI+VL++KSL+ I N N+L+MH+LLQ M
Sbjct: 420 RAIFLDIACFFKGQEKDYVIKILDACDFDPVIGIQVLMEKSLVYIEN-NKLQMHDLLQWM 478

Query: 410 GQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNTV 443
           G+Q+V ++SP  PG+RSRLW  ED+ HVLT+N V
Sbjct: 479 GRQVVHQESPNVPGRRSRLWFHEDILHVLTENMV 512

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564976|ref|XP_002523481.1| TMV resistance protein N, putative [Ricinus communis] gi|223537309|gb|EEF38940.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  401 bits (1031), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 219/453 (48%), Positives = 308/453 (67%), Gaps = 19/453 (4%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA+S WCLDELV+I+E K T G  Q++ P+FY V+P+ V +Q   FG AF +HE+ F+ 
Sbjct: 79  NYAFSPWCLDELVKILECKKTVG--QIVLPVFYHVDPSDVAEQKGGFGAAFIEHEKCFKE 136

Query: 61  NIEKVQKWRDALKKVANVSGWELKD-RSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGM 119
            I+K+QKWR AL + AN+SGW     RSES+ I +I +DIL+  + + + ++  K LVG+
Sbjct: 137 RIDKLQKWRAALTEAANISGWSSSVIRSESKLIQEIAEDILKKLNHMSSSTDS-KGLVGI 195

Query: 120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE 179
           +S  + +  L+  E   VR +G+ GMGG GKTT A VV++  S +F++  FLANV E SE
Sbjct: 196 NSRIDKIELLLCVELADVRFLGLWGMGGAGKTTTAEVVFNRISTQFDSCCFLANVNEESE 255

Query: 180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAG 239
           + GL+ LQ+QL S+LL   +    N  +G+    SRL++RKVL+++D   +L+QLE+LAG
Sbjct: 256 RYGLLKLQRQLFSKLLGQDNV---NYAEGI-FDKSRLKHRKVLIVLDDVNNLRQLENLAG 311

Query: 240 KHEWFD--EHLLMT--------HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQL 289
           +H WF     +++T        +  D ++K++ L   EALQLF   AF+   P  +Y +L
Sbjct: 312 EHNWFGPGSRIILTSRDKDVLKNKTDAIYKIEDLDHHEALQLFSLNAFRQECPKADYMKL 371

Query: 290 SKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETE 349
           SK V+ Y+ G PL LKVLGSFLY +  KEWESA  +LER +  EI ++LK+S+DGL + E
Sbjct: 372 SKRVINYAKGNPLGLKVLGSFLYQRNIKEWESALHKLERSTNKEIQNVLKVSYDGLDDEE 431

Query: 350 KKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEM 409
           K IFLD+ACF+ GEDRD+VT+I++ C F   I I VL+ KSL+ ISN N L +HNLLQ+M
Sbjct: 432 KDIFLDVACFFNGEDRDFVTRILNGCGFSADIAISVLVSKSLLTISN-NTLAIHNLLQQM 490

Query: 410 GQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
           G  IV+++S KEPG+RSRL   EDV HVL+KNT
Sbjct: 491 GWGIVRQESTKEPGRRSRLCTSEDVVHVLSKNT 523

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147802475|emb|CAN61853.1| hypothetical protein VITISV_027841 [Vitis vinifera]

 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 226/455 (49%), Positives = 311/455 (68%), Gaps = 19/455 (4%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S WC+DELV+I+E     G  Q + P+FYDV+PT VRKQT SF EAF+ H E   +
Sbjct: 81  NYARSGWCMDELVKIIECMKAKG--QTVLPVFYDVDPTHVRKQTGSFMEAFASHGEDTEV 138

Query: 61  NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKS-EIFKDLVGM 119
            IE+ ++WR AL + AN+SGW L++  ES+ I  I+++IL   SK+  K   + K LVG+
Sbjct: 139 -IERAKRWRAALTQAANLSGWHLQNGYESKLIKKIIEEIL---SKLSRKLLYVDKHLVGV 194

Query: 120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE 179
            S    +   +  E   VRM+GICG+GG+GKTT+A+VVY+L S +FE  SFLAN+RE+S+
Sbjct: 195 SSRLKEILLRVSIESNDVRMVGICGIGGVGKTTIAKVVYNLISSQFEGISFLANIREVSK 254

Query: 180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAG 239
             GL+ LQKQLL ++L        N+ +G+ ++  RL  +KVL+I+D   DL QLESLAG
Sbjct: 255 NCGLLPLQKQLLGDILMGWSQRISNLBEGINVLMDRLHSKKVLIILDDVDDLNQLESLAG 314

Query: 240 KHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQ 288
             +WF           D+HLL  HGV E+++ K L  +EALQLF + AFK   P K+Y  
Sbjct: 315 NVDWFGIGSRIVITTRDKHLLNVHGVSEIYEAKELEPEEALQLFSQYAFKRKSPXKDYMN 374

Query: 289 LSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRET 348
           LS  VV Y+ GLPLALKVLGSFL+ KT  EWES   +L++E   ++ D+L+ISFDGL  T
Sbjct: 375 LSDNVVHYAKGLPLALKVLGSFLFSKTILEWESELHKLKKELNTKVQDVLRISFDGLDFT 434

Query: 349 EKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQE 408
           +K+IFLD+ACF++G++ D+V KI+D C F    GIRVL D+ LI++ + NRL MH+L+Q+
Sbjct: 435 QKEIFLDLACFFKGQEYDFVIKILDGCGFHAKSGIRVLSDRCLIDLLD-NRLWMHDLIQQ 493

Query: 409 MGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNTV 443
           MG +IV+++ PK+PGK SRLW  E ++ VL KNTV
Sbjct: 494 MGWEIVRQECPKDPGKWSRLWDYEHIYSVLKKNTV 528

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560337|ref|XP_003548449.1| PREDICTED: TMV resistance protein N-like [Glycine max]

 Score =  395 bits (1014), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 212/452 (46%), Positives = 298/452 (65%), Gaps = 20/452 (4%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA STWCLDEL +I+E K        +FPIF+ V+P+ VR Q  SF +AFS+HEE FR 
Sbjct: 85  NYASSTWCLDELKKILECKKE------VFPIFHGVDPSDVRHQRGSFAKAFSEHEEKFRE 138

Query: 61  NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMD 120
           + +K+++WR AL++VA+ SGW+ K++ E+  I  IV  I +    IP       +LVG+D
Sbjct: 139 DKKKLERWRHALREVASYSGWDSKEQHEATLIETIVGHIQK--KIIPRLPCCTDNLVGID 196

Query: 121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEK 180
           S    +  LM      VR IG+ GMGGIGKTT+AR VY+    +F  S FL N+RE+S+ 
Sbjct: 197 SRMKEVYSLMGISLNDVRFIGLWGMGGIGKTTIARFVYEAIKGDFNVSCFLENIREVSKT 256

Query: 181 GGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGK 240
            GL+ +QK+LL  L  +  +  +N++DG  +I + L  +K+LL++D   +L QLE+LAGK
Sbjct: 257 NGLVHIQKELLFHL-NVRSSDFYNLHDGKNIIANSLSNKKILLVLDDVSELSQLENLAGK 315

Query: 241 HEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQL 289
            EWF           D+HLL THGV    K K L  +EAL+LFC +AFK +QP +EY  L
Sbjct: 316 QEWFGSGSRVIITTRDKHLLKTHGVHLTCKAKGLAQNEALKLFCLKAFKQDQPKEEYLNL 375

Query: 290 SKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETE 349
            K VV+Y+ GLPLAL+VLGS LYG+T + W SA +++     ++I D LKIS+D L+   
Sbjct: 376 CKEVVEYARGLPLALEVLGSHLYGRTVEVWHSALEQIRSFPHSKIQDTLKISYDSLQPPY 435

Query: 350 KKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEM 409
           +K+FLDIACF++G D D V  I+  C + P IGI +LI++ L+ +    +L MH+LLQEM
Sbjct: 436 QKMFLDIACFFKGMDIDEVKNILKNCGYHPEIGIDILIERCLVTLDRMKKLGMHDLLQEM 495

Query: 410 GQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKN 441
           G+ IV ++SP +PGKRSRLW ++D+ +VLTKN
Sbjct: 496 GRNIVFQESPNDPGKRSRLWSQKDIDYVLTKN 527

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|399920191|gb|AFP55538.1| TIR-NBS-LRR [Rosa rugosa]

 Score =  394 bits (1012), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 216/456 (47%), Positives = 296/456 (64%), Gaps = 21/456 (4%)

Query: 2   YAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMN 61
           YA STWCL EL +I+E     G    I PIFY+V+P+ VR Q   F EAF +HEE F   
Sbjct: 84  YATSTWCLLELSKIIECMEERG---TILPIFYEVDPSHVRHQRGRFAEAFQEHEEKFGEG 140

Query: 62  IEKVQKWRDALKKVANVSGWELKD-RSESEFIVDIVKDILEMPSKIPAKSEIF---KDLV 117
            ++V+ WRDAL KVA+++GW  KD R E+E I +IV+ +    SK+     +F   + LV
Sbjct: 141 NKEVEGWRDALTKVASLAGWTSKDYRYETELIREIVQALW---SKVHPSLTVFGSSEKLV 197

Query: 118 GMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREI 177
           GM +    +  L+D E   VR IGI GMGG+GKTTLAR+VY+  SH+FE   FLANVRE+
Sbjct: 198 GMHTKLEEIDVLLDIETNDVRFIGIWGMGGLGKTTLARLVYEKISHQFEVCVFLANVREV 257

Query: 178 SEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESL 237
           S   GL+ LQKQ+LS +LK  +   WNVY G+ MI      + VLL++D     +QLE L
Sbjct: 258 SATHGLVYLQKQILSHILKEENAQVWNVYSGITMIKRCFCNKAVLLVLDDVDQSEQLEHL 317

Query: 238 AGKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEY 286
           AG+ +WF           D H+L+TH +++ ++LK L +DEALQLF  +AF+ ++P ++Y
Sbjct: 318 AGEKDWFGLRSRIIITTRDRHVLVTHDIEKPYELKGLEEDEALQLFSWKAFRKHEPEEDY 377

Query: 287 EQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLR 346
            + SK VV+ +GGLPLALK LGSFL  ++   WESA  +L+   E  + D+LK+S+DGL 
Sbjct: 378 AEQSKSVVRIAGGLPLALKTLGSFLCKRSPDAWESALAKLQNTPEKTVFDLLKVSYDGLD 437

Query: 347 ETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLL 406
           E EKKIFLDIACF    +   + +++   D    I I VL++KSL+ IS+   + MH+L+
Sbjct: 438 EMEKKIFLDIACFSSQCEAKLIIELLYSYDVCTRIAIDVLVEKSLLTISSNTEIGMHDLI 497

Query: 407 QEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
           +EMG +IV++QSPKEPG RSRLW   D+ HV TKNT
Sbjct: 498 REMGCEIVRQQSPKEPGGRSRLWLRNDIFHVFTKNT 533

Source: Rosa rugosa

Species: Rosa rugosa

Genus: Rosa

Family: Rosaceae

Order: Rosales

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	445
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.966	0.375	0.380	4.4e-75
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.961	0.330	0.378	6.3e-75
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.975	0.364	0.398	1.3e-73
TAIR|locus:2136108	1095	AT4G11170 [Arabidopsis thalian	0.975	0.396	0.346	1.1e-63
TAIR|locus:2146253	1210	AT5G18370 [Arabidopsis thalian	0.523	0.192	0.367	1.6e-61
TAIR|locus:2162439	1008	AT5G22690 [Arabidopsis thalian	0.523	0.231	0.357	2.4e-60
TAIR|locus:2146243	900	AT5G18360 [Arabidopsis thalian	0.961	0.475	0.347	4.5e-60
TAIR|locus:2175075	1068	AT5G41750 [Arabidopsis thalian	0.973	0.405	0.346	7.8e-60
TAIR|locus:2032602	1163	AT1G72860 [Arabidopsis thalian	0.977	0.374	0.344	9.6e-60
TAIR|locus:2195468	1017	AT1G63880 [Arabidopsis thalian	0.959	0.419	0.345	2.7e-59

UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)]

 Score = 762 (273.3 bits), Expect = 4.4e-75, P = 4.4e-75
 Identities = 176/462 (38%), Positives = 278/462 (60%)

Query:     1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
             NYA S WCL+ELV+I+E K+    +Q + PIFYDV+P+ VR Q  SF +AF +HE  ++ 
Sbjct:    76 NYATSRWCLNELVKIMECKTR--FKQTVIPIFYDVDPSHVRNQKESFAKAFEEHETKYKD 133

Query:    61 NIEKVQKWRDALKKVANVSG-WELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGM 119
             ++E +Q+WR AL + AN+ G  + +D+++++ I  IV  I     KI       +++VG+
Sbjct:   134 DVEGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKISLS--YLQNIVGI 191

Query:   120 DSCWNTLRFLMDKEPYGVRXXXXXXXXXXXKTTLARVVYDL------SSHEFEASSFLAN 173
             D+    +  L++    GVR           KTT+AR ++D       SS++F+ + FL +
Sbjct:   192 DTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDGACFLKD 251

Query:   174 VREISEKGGXXXXXXXXXXXXXXXPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQ 233
             ++E +++G                 + +  N  DG   + SRLR +KVL+++D   D K 
Sbjct:   252 IKE-NKRGMHSLQNALLSELLREKANYN--NEEDGKHQMASRLRSKKVLIVLDD-IDNKD 307

Query:   234 --LESLAGKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTN 280
               LE LAG  +WF           D+HL+  +  D ++++  L D E++QLF + AF   
Sbjct:   308 HYLEYLAGDLDWFGNGSRIIITTRDKHLIEKN--DIIYEVTALPDHESIQLFKQHAFGKE 365

Query:   281 QPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKI 340
              P + +E+LS  VV Y+ GLPLALKV GS L+     EW+SA + ++  S + I+D LKI
Sbjct:   366 VPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKI 425

Query:   341 SFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRL 400
             S+DGL   ++++FLDIACF RGE++DY+ +I++ C      G+R+LIDKSL+ IS  N++
Sbjct:   426 SYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYNQV 485

Query:   401 RMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
             +MH+L+Q+MG+ IV  Q  K+PG+RSRLW  ++V  V++ NT
Sbjct:   486 QMHDLIQDMGKYIVNFQ--KDPGERSRLWLAKEVEEVMSNNT 525

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 764 (274.0 bits), Expect = 6.3e-75, P = 6.3e-75
 Identities = 172/455 (37%), Positives = 267/455 (58%)

Query:     1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
             NYA S+WCLDEL++I+E      ++  I PIFY+V+P+ VR+Q  SFGE    H +    
Sbjct:    82 NYAASSWCLDELLKIMEC-----NKDTIVPIFYEVDPSDVRRQRGSFGEDVESHSDK--- 133

Query:    61 NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKS-EIFKDLVGM 119
               EKV KW++ALKK+A +SG + ++  +S+ I  IVKDI +   K+ + S +  K L+GM
Sbjct:   134 --EKVGKWKEALKKLAAISGEDSRNWDDSKLIKKIVKDISD---KLVSTSWDDSKGLIGM 188

Query:   120 DSCWNTLRFLMDKEPYGVRXXXXXXXXXXXKTTLARVVYDLSSHEFEASSFLANVREISE 179
              S  + L+ ++      VR           KTT+A+ +Y+  S +F+   F+ NV+E+  
Sbjct:   189 SSHMDFLQSMISIVDKDVRMLGIWGMGGVGKTTIAKYLYNQLSGQFQVHCFMENVKEVCN 248

Query:   180 KGGXXXXXXXXXXXXXXXPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAG 239
             + G                D   W+      +I  R R++ V +++D     +QL  L  
Sbjct:   249 RYGVRRLQVEFLCRMFQERDKEAWSSVSCCNIIKERFRHKMVFIVLDDVDRSEQLNELVK 308

Query:   240 KHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKE-YE 287
             +  WF           D HLL++HG++ V+K+K L   EALQLFC  AF+        +E
Sbjct:   309 ETGWFGPGSRIIVTTRDRHLLLSHGINLVYKVKCLPKKEALQLFCNYAFREEIILPHGFE 368

Query:   288 QLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRE 347
             +LS   V Y+ GLPLAL+VLGSFLY ++  EWES   RL+    ++I+++L++S+DGL E
Sbjct:   369 ELSVQAVNYASGLPLALRVLGSFLYRRSQIEWESTLARLKTYPHSDIMEVLRVSYDGLDE 428

Query:   348 TEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQ 407
              EK IFL I+CFY  +  DYV K++D C +   IGI +L +KSLI  SNG  +++H+LL+
Sbjct:   429 QEKAIFLYISCFYNMKQVDYVRKLLDLCGYAAEIGITILTEKSLIVESNGC-VKIHDLLE 487

Query:   408 EMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
             +MG+++V++Q+   P +R  LW  ED+ H+L++N+
Sbjct:   488 QMGRELVRQQAVNNPAQRLLLWDPEDICHLLSENS 522

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2167457 AT5G36930 [Arabidopsis thaliana (taxid:3702)]

 Score = 750 (269.1 bits), Expect = 1.3e-73, P = 1.3e-73
 Identities = 183/459 (39%), Positives = 266/459 (57%)

Query:     1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
             +YA S WCLDELV I++    N    ++FPIF  V+P+ +R Q  S+ ++FSKH+ +  +
Sbjct:    81 DYASSAWCLDELVHIMK-SHKNNPSHMVFPIFLYVDPSDIRWQQGSYAKSFSKHKNSHPL 139

Query:    61 NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKS-EIFKDLVGM 119
             N  K++ WR+AL KVAN+SGW++K+R+E+E I DI ++IL+   ++P +   +    VG+
Sbjct:   140 N--KLKDWREALTKVANISGWDIKNRNEAECIADITREILK---RLPCQYLHVPSYAVGL 194

Query:   120 DSCWNTLRFLMDKEPYGVRXXXXXXXXXXXKTTLARVVYDLSSHEFEASSFLANVREISE 179
              S    +  L+     GVR           KTTLA+V ++  SH FE SSFL N RE S+
Sbjct:   195 RSRLQHISSLLSIGSDGVRVIVIYGMGGIGKTTLAKVAFNEFSHLFEGSSFLENFREYSK 254

Query:   180 KG-GXXXXXXXXXXXXXXXPDTSTWNVYDGLK-MIGSRLRYRKVLLIVDAAFDLKQLESL 237
             K  G                D      + GL   +  R R ++VLL+VD   D+ QL S 
Sbjct:   255 KPEGRTHLQHQLLSDILRRNDIE----FKGLDHAVKERFRSKRVLLVVDDVDDVHQLNSA 310

Query:   238 AGKHEWFDE-----------HLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEY 286
             A   + F             HLL     +  +  K L  DE+L+LF   AF+T++P KE+
Sbjct:   311 AIDRDCFGHGSRIIITTRNMHLLKQLRAEGSYSPKELDGDESLELFSWHAFRTSEPPKEF 370

Query:   287 EQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLR 346
              Q S+ VV Y  GLPLA++VLG+FL  ++ +EWES  K L+R   + I   L+ISF+ L 
Sbjct:   371 LQHSEEVVTYCAGLPLAVEVLGAFLIERSIREWESTLKLLKRIPNDNIQAKLQISFNALT 430

Query:   347 ETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLL 406
               +K +FLDIACF+ G D  YV  I+D C+  P I + +L+++ LI IS GN + MH+LL
Sbjct:   431 IEQKDVFLDIACFFIGVDSYYVACILDGCNLYPDIVLSLLMERCLITIS-GNNIMMHDLL 489

Query:   407 QEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNTVSN 445
             ++MG+QIV+  SPK+ G+RSRLW   DV  VL K + +N
Sbjct:   490 RDMGRQIVREISPKKCGERSRLWSHNDVVGVLKKKSGTN 528

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2136108 AT4G11170 [Arabidopsis thaliana (taxid:3702)]

 Score = 657 (236.3 bits), Expect = 1.1e-63, P = 1.1e-63
 Identities = 159/459 (34%), Positives = 254/459 (55%)

Query:     1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
             NYA S+WCLDEL+EI++ K   G +  + P+FY V+P+ +RKQT  FG +F   E     
Sbjct:    74 NYASSSWCLDELIEIMKCKEEQGLK--VMPVFYKVDPSDIRKQTGKFGMSFL--ETCCGK 129

Query:    61 NIEKVQKWRDALKKVANVSGWELKD-RSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGM 119
               E+   WR AL   AN+ G   ++  +E+  I  I KD+LE  +  P++   F DLVGM
Sbjct:   130 TEERQHNWRRALTDAANILGDHPQNWDNEAYKITTISKDVLEKLNATPSRD--FNDLVGM 187

Query:   120 DSCWNTLRFLMDKEPYGVRXXXXXXXXXXXKTTLARVVYDLSSHEFEASSFLANVREISE 179
             ++    +  L+  E  GVR           KTT+AR +Y+     F  S F+ NVRE   
Sbjct:   188 EAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENVRESYG 247

Query:   180 KGGXXXXXXXXXXXXXXXP---DTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLES 236
             + G                   D     V   L  I  RL+ +KVL+I+D   +++QL++
Sbjct:   248 EAGLDDYGLKLHLQQRFLSKLLDQKDLRVRH-LGAIEERLKSQKVLIILDDVDNIEQLKA 306

Query:   237 LAGKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKE 285
             LA +++WF           ++ LL++H ++ ++++      EAL +FC+ AFK + P  +
Sbjct:   307 LAKENQWFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAFKQSSPSDD 366

Query:   286 YEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGL 345
              + L+      +G LPLAL+VLGSF+ GK  +EWE +   L+   + E+  +LK+ +DGL
Sbjct:   367 LKHLAIEFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKVLKVGYDGL 426

Query:   346 RETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVI--GIRVLIDKSLIEISNGNRLRMH 403
              + EK +FL IAC + G+  +Y+ ++I   + D  +  G++VL DKSLI+     R+ MH
Sbjct:   427 HDHEKDLFLHIACIFSGQHENYLKQMI-IANNDTYVSFGLQVLADKSLIQKFENGRIEMH 485

Query:   404 NLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
             +LL+++G+++V++QS  EPGKR  L   ++   VL+ NT
Sbjct:   486 SLLRQLGKEVVRKQSIYEPGKRQFLMNAKETCGVLSNNT 524

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0010193 "response to ozone" evidence=IEP

TAIR|locus:2146253 AT5G18370 [Arabidopsis thaliana (taxid:3702)]

 Score = 381 (139.2 bits), Expect = 1.6e-61, Sum P(2) = 1.6e-61
 Identities = 90/245 (36%), Positives = 140/245 (57%)

Query:   209 LKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWF-----------DEHLLMTHGVDEV 257
             L  +  RLR  KVL+I+D    L+QL +LA + +WF           D+ LL  H ++ V
Sbjct:   342 LGAVQERLRDHKVLVILDGVDQLEQLTALAKETQWFGYGSRIIITTQDQRLLRAHEINHV 401

Query:   258 HKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTK 317
             +K+ +   DEALQ+FC  AF    P+  +++L++     +G LPL L+VLGS+L G + +
Sbjct:   402 YKVDLPATDEALQIFCLYAFGQKFPYDGFKKLAREFTALAGELPLGLRVLGSYLRGMSLE 461

Query:   318 EWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDF 377
             EW++A  RL    + EI   L+ +++ L + +K +FL IAC + G   ++V + +     
Sbjct:   462 EWKNALPRLRTSLDGEIEKTLRFAYNVLSDKDKSLFLHIACLFNGCQVNHVKQWLANSSL 521

Query:   378 DPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHV 437
             D   G  VL +KSLI    G  +RMH+LLQ++G  IV++QS  EP KR  L    ++  V
Sbjct:   522 DVNHGFEVLSNKSLISTDMG-LVRMHSLLQQLGVDIVRKQSIGEPEKRQFLVDVNEISDV 580

Query:   438 LTKNT 442
             +T NT
Sbjct:   581 ITDNT 585

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2162439 AT5G22690 [Arabidopsis thaliana (taxid:3702)]

 Score = 375 (137.1 bits), Expect = 2.4e-60, Sum P(2) = 2.4e-60
 Identities = 88/246 (35%), Positives = 138/246 (56%)

Query:   209 LKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWF-----------DEHLLMTHGVDEV 257
             L ++G RL++ KVL+ +D   D   L++LA K  WF           D+     HG+   
Sbjct:   284 LGVVGERLKHMKVLIFIDDLDDQVVLDALASKPHWFGCGSRIIVITKDKQFFRAHGIGLF 343

Query:   258 HKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTK 317
             +++ +  D  AL++F + AF+ N P   + +L+  V K SG LPLAL VLGS L G+  +
Sbjct:   344 YEVGLPSDKLALEMFSQSAFRQNSPPPGFTELASEVSKRSGNLPLALNVLGSHLRGRDKE 403

Query:   318 EWESAPKRLERESENEILDILKISFDGL-RETEKKIFLDIACFYRGEDRDYVTKIIDYCD 376
             +W     RL +  + +I  IL++ +D L  + +K IF  IAC + G +  Y+  ++   +
Sbjct:   404 DWIDMLPRLRKGLDGKIEKILRVGYDELSNKDDKAIFRLIACLFNGAEISYIKLLLADSN 463

Query:   377 FDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHH 436
                 IG++ L+DKSLI I   + + MH++LQEMG++IV+ QS  EPG+R  L    D+  
Sbjct:   464 LGVTIGLKNLVDKSLIRIGC-DTVEMHSMLQEMGREIVREQSIYEPGEREFLVDSTDILD 522

Query:   437 VLTKNT 442
             VL  NT
Sbjct:   523 VLNDNT 528

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2146243 AT5G18360 [Arabidopsis thaliana (taxid:3702)]

 Score = 618 (222.6 bits), Expect = 4.5e-60, P = 4.5e-60
 Identities = 160/460 (34%), Positives = 251/460 (54%)

Query:     2 YAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMN 61
             YA S+WCL+ELVEI ++       Q+I P+FY+V+P+ VRK+T  FG+AF +  E  R  
Sbjct:    80 YASSSWCLNELVEIKKVS------QMIMPVFYEVDPSDVRKRTGEFGKAFEEACE--RQP 131

Query:    62 IEKV-QKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKD---LV 117
              E+V QKWR+AL  +AN++G E     ++E   D++ D + M       S + +D   LV
Sbjct:   132 DEEVKQKWREALVYIANIAG-ESSQNWDNE--ADLI-DKIAMSISYELNSTLSRDSYNLV 187

Query:   118 GMDSCWNTLRFLMDKEPYGVRXXXXXXXXXXXKTTLARVVYDLSSHEFEASSFLANVR-- 175
             G+D+    L  L+  E   V+           KTT+AR +++  S  F+ + F+ NV+  
Sbjct:   188 GIDNHMRELDSLLCLESTEVKMVGIWGPAGIGKTTIARALFNRLSENFQHTIFMENVKGS 247

Query:   176 -EISEKGGXXXXXXXXXXXXXXXPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQL 234
                SE                   D     ++D L ++  RL+  KVL+++D    L+QL
Sbjct:   248 SRTSELDAYGFQLRLQEQFLSEVIDHKHMKIHD-LGLVKERLQDLKVLVVLDDVDKLEQL 306

Query:   235 ESLAGKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPW 283
             ++L  + +WF           ++ LL  HG+  +++L      ++LQ+FC+ AF  +   
Sbjct:   307 DALVKQSQWFGSGSRIIVTTENKQLLRAHGITCIYELGFPSRSDSLQIFCQYAFGESSAP 366

Query:   284 KEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFD 343
                 +L+  + K +G LPLALKVLGS L G +  E +SA  RL      +I ++L++ +D
Sbjct:   367 DGCIELATEITKLAGYLPLALKVLGSSLRGMSKDEQKSALPRLRTSLNEDIRNVLRVGYD 426

Query:   344 GLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNR-LRM 402
             G+ + +K IFL IAC + GE+ DYV +I+     D   G++VL  +SLI IS  NR + M
Sbjct:   427 GIHDKDKVIFLHIACLFNGENVDYVKQILASSGLDVTFGLQVLTSRSLIHISRCNRTITM 486

Query:   403 HNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
             HNLL+++G++IV  QS  EPGKR  L    +++ VL  NT
Sbjct:   487 HNLLEQLGREIVCEQSIAEPGKRQFLMDASEIYDVLADNT 526

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2175075 AT5G41750 [Arabidopsis thaliana (taxid:3702)]

 Score = 621 (223.7 bits), Expect = 7.8e-60, P = 7.8e-60
 Identities = 158/456 (34%), Positives = 247/456 (54%)

Query:     2 YAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMN 61
             YA S+WCLDELVEI++ K   G  Q++  +FY+V+P+ V+KQ+  FGEAF   E+T +  
Sbjct:    77 YASSSWCLDELVEILKCKEALG--QIVMTVFYEVDPSDVKKQSGVFGEAF---EKTCQGK 131

Query:    62 IEKVQ-KWRDALKKVANVSG-WELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGM 119
              E+V+ +WR+AL  VA ++G   L   +E++ I  IV D+ +  +  P++   F+ +VGM
Sbjct:   132 NEEVKIRWRNALAHVATIAGEHSLNWDNEAKMIQKIVTDVSDKLNLTPSRD--FEGMVGM 189

Query:   120 DSCWNTLRFLMDKEPYGVRXXXXXXXXXXXKTTLARVVYDLSSHEFEASSFLANVREISE 179
             ++    L  L+  E   V+           KTT+AR +++  S  F    F+ N++  S 
Sbjct:   190 EAHLKRLNSLLCLESDEVKMIGIWGPAGIGKTTIARTLFNKISSIFPFKCFMENLKG-SI 248

Query:   180 KGGXXXXXXXXXXXXXXXPDTSTWNV-YDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLA 238
             KGG                     N+    L  I   L  +KVL+I+D   DL+QLE LA
Sbjct:   249 KGGAEHYSKLSLQKQLLSEILKQENMKIHHLGTIKQWLHDQKVLIILDDVDDLEQLEVLA 308

Query:   239 GKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYE 287
                 WF           D+++L  H + +++ +    ++EAL++ C  AFK +     +E
Sbjct:   309 EDPSWFGSGSRIIVTTEDKNILKAHRIQDIYHVDFPSEEEALEILCLSAFKQSSIPDGFE 368

Query:   288 QLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRE 347
             +L+  V +  G LPL L V+G+ L  K+  EWE    R+E   +  I +IL+I +D L  
Sbjct:   369 ELANKVAELCGNLPLGLCVVGASLRRKSKNEWERLLSRIESSLDKNIDNILRIGYDRLST 428

Query:   348 TEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHN-LL 406
              ++ +FL IACF+  E  DY+T ++     D V G  +L D+SL+ IS    + MH+ LL
Sbjct:   429 EDQSLFLHIACFFNNEKVDYLTALLADRKLDVVNGFNILADRSLVRISTDGHVVMHHYLL 488

Query:   407 QEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
             Q++G++IV  Q P EPGKR  L + E++  VLTK T
Sbjct:   489 QKLGRRIVHEQWPNEPGKRQFLIEAEEIRDVLTKGT 524

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2032602 AT1G72860 [Arabidopsis thaliana (taxid:3702)]

 Score = 612 (220.5 bits), Expect = 9.6e-60, Sum P(2) = 9.6e-60
 Identities = 159/462 (34%), Positives = 247/462 (53%)

Query:     1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
             NYA S+WCLDEL  +++L   N  +  + PIFY V+P+ VR QT SF   F K++++   
Sbjct:    76 NYASSSWCLDELRMVMDLHLKNKIK--VVPIFYGVDPSHVRHQTGSF--TFDKYQDSKMP 131

Query:    61 NIEKVQKWRDALKKVANVSGWELKD-RSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGM 119
             N  KV  WR+AL ++A+++G + +    E+  I +IVKDI +    +  +   F D+VGM
Sbjct:   132 N--KVTTWREALTQIASLAGKDFETCEDEASMIEEIVKDISK--KLLIMQPVDFSDIVGM 187

Query:   120 DSCWNTLRFL--MDKEPYGVRXXXXXXXXXXXKTTLARVVYDLSSHEFEASSFLANVREI 177
             ++    L  L  MD E   VR           KTT+A+ ++D  S  F A  FL NV +I
Sbjct:   188 NAHMERLSPLLSMDSENE-VRMIGIWGMGGIGKTTIAKCLFDQFSQGFPARCFLENVSKI 246

Query:   178 SEKGGXXXXXXXXXXXXXXXPDTSTWN--VYDGLKMIGSRLRYRKVLLIVDAAFDLKQLE 235
               KGG                        V  G + I +R   RKV +++D   D++Q+ 
Sbjct:   247 YRKGGVSSLAEKFLSTTLGLSKKKMKGSGVKLGPQEIKARFGCRKVFVVLDNVDDMRQMH 306

Query:   236 SLAGKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWK 284
             + A +  WF           D+ LL T+GV  V+++K + +D ALQLF + AFK   P  
Sbjct:   307 AFAQESSWFGPGSRIIITTRDKGLLNTYGVRTVYEVKCMDNDAALQLFNQLAFKGALPPS 366

Query:   285 E-YEQLSKYVVKYSGGLPLALKVLGSFLYGKTT-KEWESAPKRLERESENEILDILKISF 342
             E YE+LS      + GLP+A++  G F    T+ KEW+ A  R     +  +++ILKIS+
Sbjct:   367 ELYEKLSIRASWLAQGLPVAIEAYGLFFRRMTSLKEWDDALCRFIEAPDESVMEILKISY 426

Query:   343 DGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRM 402
             DGL ET+K +FL +AC + GE     T ++D       +G+++L +KSLIEI+    ++M
Sbjct:   427 DGLEETDKNVFLHVACLFNGEPLRRATTLLDDGVLQGCLGLKILAEKSLIEITASGYIKM 486

Query:   403 HNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNTVS 444
             HNL+ +  + IV ++S +    R  LW   +++ +L +NT S
Sbjct:   487 HNLVDQTARAIVNQESMQRRHGRGVLWNPYEIYELLKRNTTS 528

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2195468 AT1G63880 [Arabidopsis thaliana (taxid:3702)]

 Score = 615 (221.5 bits), Expect = 2.7e-59, P = 2.7e-59
 Identities = 157/455 (34%), Positives = 245/455 (53%)

Query:     2 YAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMN 61
             YA S+WCLDELVEI+E K   G  Q++  IFY V+P+ VRKQ   FG AF+  E   R  
Sbjct:    78 YASSSWCLDELVEILECKKAMG--QIVMTIFYGVDPSDVRKQIGKFGIAFN--ETCARKT 133

Query:    62 IEKVQKWRDALKKVANVSGWE-LKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMD 120
              E+ QKW  AL +V+N++G + L+  +E+  I  I +D+L+  +  P++   F  +VG++
Sbjct:   134 EEERQKWSKALNQVSNIAGEDFLRWDNEAIMIEKIARDVLDKLNATPSRD--FDGMVGIE 191

Query:   121 SCWNTLRFLMDKEPYGVRXXXXXXXXXXXKTTLARVVYDLSSHEFEASSFLANVREISEK 180
             +    ++ L+D +   V+           KTT+AR +Y L S  F+ S F+ N+R     
Sbjct:   192 AHLREIKSLLDLDNVEVKIVAIAGPAGIGKTTIARALYGLLSKRFQLSCFVDNLRGSYHS 251

Query:   181 GGXXXXXXXXXXXXXXXP--DTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLA 238
             G                   + S   +   L  I   L  ++VL+I+D    LKQLE+LA
Sbjct:   252 GFDEYGFKLHLQEQFLSKVLNQSGMRICH-LGAIKENLSDQRVLIILDDVNKLKQLEALA 310

Query:   239 GKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYE 287
              +  WF           ++ LL  HG++  + +    D++AL++ C  AFK   P   +E
Sbjct:   311 NETTWFGPGSRIVVTTENKELLQQHGINNTYHVGFPSDEDALKILCSYAFKQTSPRHGFE 370

Query:   288 QLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRE 347
             +LS+ V K  G LPL L V+GS L GK   EWE    RLE   + +I D+L++ ++ L E
Sbjct:   371 ELSESVTKLCGKLPLGLCVVGSSLRGKKEDEWEDVVTRLETILDQDIEDVLRVGYESLDE 430

Query:   348 TEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEI---SNGN-RLRMH 403
               + +FL IA F+  ED D V  +    D D   G+++L ++SLI++   SNG+ ++ MH
Sbjct:   431 NAQTLFLHIAIFFNKEDGDLVKTMFAESDLDVKYGLKILENRSLIKMKIFSNGDTKIVMH 490

Query:   404 NLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVL 438
              LLQ+MG++ +++Q   EP +R  L    ++ HVL
Sbjct:   491 RLLQQMGKRAIQKQ---EPWERQILIDAREICHVL 522

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0050832 "defense response to fungus" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	445
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-88
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	8e-29
pfam01582	135	pfam01582, TIR, TIR domain	3e-18
smart00255	140	smart00255, TIR, Toll - interleukin 1 - resistance	1e-14

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score =  291 bits (745), Expect = 2e-88
 Identities = 171/467 (36%), Positives = 265/467 (56%), Gaps = 38/467 (8%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S+WCL+EL+EIV  K   G  QL+ P+FY ++P+ VRKQT  FGEAF K   T + 
Sbjct: 76  NYASSSWCLNELLEIVRCKEELG--QLVIPVFYGLDPSHVRKQTGDFGEAFEK---TCQN 130

Query: 61  NIEKVQK-WRDALKKVANVSGWELKD-RSESEFIVDIVKDILEMPSKIPAKSEIFKDLVG 118
             E  +  W+ AL  VAN+ G+  ++  +E++ I +I  D+L   +  P+    F+D VG
Sbjct: 131 KTEDEKIQWKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGKLNLTPSND--FEDFVG 188

Query: 119 MDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEAS-----SFLAN 173
           ++     +  L+  E   VRM+GI G  GIGKTT+AR ++   S +F++S     +F++ 
Sbjct: 189 IEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISK 248

Query: 174 VREISEKGGL------ICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDA 227
             EI            + LQ+  LSE+L   D         L  +  RL++RKVL+ +D 
Sbjct: 249 SMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKI----YHLGAMEERLKHRKVLIFIDD 304

Query: 228 AFDLKQLESLAGKHEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQA 276
             D   L++LAG+ +WF           D+H L  HG+D ++++ +  ++ AL++FC+ A
Sbjct: 305 LDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSA 364

Query: 277 FKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILD 336
           FK N P   + +L+  V   +G LPL L VLGS+L G+  ++W     RL    + +I  
Sbjct: 365 FKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEK 424

Query: 337 ILKISFDGLR-ETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEIS 395
            L++S+DGL  + +K IF  IAC + GE  + +  ++   D D  IG++ L+DKSLI + 
Sbjct: 425 TLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVR 484

Query: 396 NGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNT 442
             + + MH+LLQEMG++IV+ QS  EPG+R  L   +D+  VL  NT
Sbjct: 485 E-DIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNT 529

syringae 6; Provisional. Length = 1153

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

 Score =  114 bits (287), Expect = 8e-29
 Identities = 72/263 (27%), Positives = 121/263 (46%), Gaps = 30/263 (11%)

Query: 119 MDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVY--DLSSHEFEASSFLANVRE 176
           +++    L     +    + ++GI GMGG+GKTTLA+ +Y  D     F++ +++   + 
Sbjct: 5   IEALIEKL----LEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKT 60

Query: 177 ISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLK-MIGSRLRYRKVLLIVDAAFDLKQLE 235
            +E      LQK +L EL              L   I   L  ++ LL++D  ++    +
Sbjct: 61  YTEFR----LQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWD 116

Query: 236 SLAGKHEWFD------------EHLLMTHGVDEVHKLKVLHDDEALQLFCKQAF-KTNQP 282
            +       +                   G  + H+++ L  +E+ +LF  + F K   P
Sbjct: 117 KIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPP 176

Query: 283 WKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTT-KEWESA-----PKRLERESENEILD 336
             E E+++K +V+   GLPLALKVLG  L  K+T +EWE        +   R+  NE+L 
Sbjct: 177 CPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVLS 236

Query: 337 ILKISFDGLRETEKKIFLDIACF 359
           IL +S+D L    K+ FL +A F
Sbjct: 237 ILSLSYDNLPMHLKRCFLYLALF 259

Length = 285

>gnl|CDD|216585 pfam01582, TIR, TIR domain

 Score = 80.4 bits (199), Expect = 3e-18
 Identities = 34/73 (46%), Positives = 47/73 (64%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S WCLDELVEIV+     G +++I PIFY V+P+ VR Q+  FG+AF K  +    
Sbjct: 63  NYASSEWCLDELVEIVKCALEGGGKKVILPIFYKVDPSDVRPQSGKFGKAFLKTLKWSGD 122

Query: 61  NIEKVQKWRDALK 73
             +K++ W+ AL 
Sbjct: 123 KEDKIRFWKKALY 135

The Toll/interleukin-1 receptor (TIR) homology domain is an intracellular signalling domain found in MyD88, interleukin 1 receptor and the Toll receptor. It contains three highly-conserved regions, and mediates protein-protein interactions between the Toll-like receptors (TLRs) and signal-transduction components. TIR-like motifs are also found in plant proteins thought to be involved in resistance to disease. When activated, TIR domains recruit cytoplasmic adaptor proteins MyD88 and TOLLIP (Toll interacting protein). In turn, these associate with various kinases to set off signalling cascades. Length = 135

>gnl|CDD|214587 smart00255, TIR, Toll - interleukin 1 - resistance

 Score = 70.8 bits (174), Expect = 1e-14
 Identities = 32/77 (41%), Positives = 42/77 (54%), Gaps = 2/77 (2%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S WCLDELV  +E          + PIFY+V P+ VRKQ   F + F K+   +  
Sbjct: 65  NYAESEWCLDELVAALENA-LEEGGLRVIPIFYEVIPSDVRKQPGKFRKVFKKNYLKWPE 123

Query: 61  NIEKVQKWRDALKKVAN 77
           + EK Q W+ AL  V +
Sbjct: 124 D-EKEQFWKKALYAVPS 139

Length = 140

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	445
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03194	187	putative disease resistance protein; Provisional	99.91
PRK04841	903	transcriptional regulator MalT; Provisional	99.7
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.48
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.46
COG3899	849	Predicted ATPase [General function prediction only	99.45
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.45
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.41
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.41
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.31
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.22
COG3903	414	Predicted ATPase [General function prediction only	99.1
PRK13342	413	recombination factor protein RarA; Reviewed	98.98
PF01582	141	TIR: TIR domain; InterPro: IPR000157 In Drosophila	98.96
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.88
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.87
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.86
PF05729	166	NACHT: NACHT domain	98.85
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.8
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.73
PRK06893	229	DNA replication initiation factor; Validated	98.72
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.7
PTZ00202	550	tuzin; Provisional	98.66
PRK12402	337	replication factor C small subunit 2; Reviewed	98.66
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.65
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.65
PLN03025	319	replication factor C subunit; Provisional	98.63
PRK04195	482	replication factor C large subunit; Provisional	98.61
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.59
PRK13341	725	recombination factor protein RarA/unknown domain f	98.59
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.57
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.57
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.54
PF14516	331	AAA_35: AAA-like domain	98.52
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.51
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.48
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.46
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.45
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.45
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.44
smart00255	140	TIR Toll - interleukin 1 - resistance.	98.44
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.44
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.42
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.42
PRK08727	233	hypothetical protein; Validated	98.41
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.4
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.4
PRK08084	235	DNA replication initiation factor; Provisional	98.39
PRK05642	234	DNA replication initiation factor; Validated	98.39
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.36
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.36
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.34
KOG2028	554	consensus ATPase related to the helicase subunit o	98.33
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.33
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.33
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.31
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.29
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.28
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.26
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.25
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.25
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.25
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.24
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.24
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.24
cd01128	249	rho_factor Transcription termination factor rho is	98.23
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.23
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.21
PRK09087	226	hypothetical protein; Validated	98.21
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.21
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.21
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.2
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.2
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.2
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.18
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.16
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.15
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.15
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.15
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.14
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.14
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.13
PRK09376	416	rho transcription termination factor Rho; Provisio	98.1
PF13173	128	AAA_14: AAA domain	98.09
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.07
CHL00095	821	clpC Clp protease ATP binding subunit	98.06
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.06
PRK10865	857	protein disaggregation chaperone; Provisional	98.04
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.04
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.04
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.03
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.0
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.99
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.96
TIGR00767	415	rho transcription termination factor Rho. Members	97.95
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.95
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.94
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.93
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.93
PRK06620	214	hypothetical protein; Validated	97.91
PHA02544	316	44 clamp loader, small subunit; Provisional	97.9
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.9
PF00004	132	AAA: ATPase family associated with various cellula	97.9
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.9
CHL00176	638	ftsH cell division protein; Validated	97.9
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.89
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.89
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.89
smart00382	148	AAA ATPases associated with a variety of cellular	97.86
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.86
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.85
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.84
PRK07952	244	DNA replication protein DnaC; Validated	97.84
PRK12377	248	putative replication protein; Provisional	97.83
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.82
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.81
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.76
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.76
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.76
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.69
PRK12422	445	chromosomal replication initiation protein; Provis	97.67
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.67
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.67
PHA00729	226	NTP-binding motif containing protein	97.64
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.58
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.56
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.54
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.54
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.52
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.5
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.49
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.48
CHL00195	489	ycf46 Ycf46; Provisional	97.48
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.48
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.46
CHL00181	287	cbbX CbbX; Provisional	97.45
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.45
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.45
PRK08116	268	hypothetical protein; Validated	97.44
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.44
PRK08118	167	topology modulation protein; Reviewed	97.43
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.42
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.37
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.36
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.34
PRK12608	380	transcription termination factor Rho; Provisional	97.33
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.32
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.31
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.27
PRK06921	266	hypothetical protein; Provisional	97.27
PRK07261	171	topology modulation protein; Provisional	97.23
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.23
PRK06762	166	hypothetical protein; Provisional	97.23
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.23
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.22
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.22
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.21
PRK09354	349	recA recombinase A; Provisional	97.21
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.21
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.2
PRK06696	223	uridine kinase; Validated	97.18
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.17
PRK10536	262	hypothetical protein; Provisional	97.15
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.15
PRK07667	193	uridine kinase; Provisional	97.15
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.15
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.14
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.14
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.13
PRK06835	329	DNA replication protein DnaC; Validated	97.12
PRK08181	269	transposase; Validated	97.12
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.1
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.08
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.07
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.07
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.07
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.06
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.06
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.06
PRK06526	254	transposase; Provisional	97.05
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.05
PRK08939	306	primosomal protein DnaI; Reviewed	97.04
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.04
PRK09183	259	transposase/IS protein; Provisional	97.02
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.02
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.0
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.99
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.99
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.99
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.99
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.97
PRK08233	182	hypothetical protein; Provisional	96.97
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.97
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.94
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.94
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.93
PRK15455	644	PrkA family serine protein kinase; Provisional	96.92
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.92
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.91
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.9
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.89
PRK10865	857	protein disaggregation chaperone; Provisional	96.88
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.88
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.88
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.86
PRK10416	318	signal recognition particle-docking protein FtsY;	96.86
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.85
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.84
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.83
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.81
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.81
PRK13531	498	regulatory ATPase RavA; Provisional	96.81
PRK05541	176	adenylylsulfate kinase; Provisional	96.8
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.8
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.8
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.79
PRK06067	234	flagellar accessory protein FlaH; Validated	96.76
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.75
CHL00095	821	clpC Clp protease ATP binding subunit	96.75
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.74
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.68
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.67
PRK11823	446	DNA repair protein RadA; Provisional	96.66
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.66
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	96.64
PF07726	131	AAA_3: ATPase family associated with various cellu	96.63
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.63
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.61
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.59
PRK03839	180	putative kinase; Provisional	96.59
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.58
PRK05480	209	uridine/cytidine kinase; Provisional	96.57
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.57
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.57
TIGR00959	428	ffh signal recognition particle protein. This mode	96.57
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.56
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.54
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.52
PTZ00035	337	Rad51 protein; Provisional	96.51
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.49
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.48
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.48
PRK04328	249	hypothetical protein; Provisional	96.46
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.46
PTZ00301	210	uridine kinase; Provisional	96.45
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.45
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.44
PRK04132	846	replication factor C small subunit; Provisional	96.44
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.44
PRK04296	190	thymidine kinase; Provisional	96.43
PRK04040	188	adenylate kinase; Provisional	96.43
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.43
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.42
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.41
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.41
PRK00131	175	aroK shikimate kinase; Reviewed	96.4
PRK13765	637	ATP-dependent protease Lon; Provisional	96.4
PRK00625	173	shikimate kinase; Provisional	96.4
PRK06547	172	hypothetical protein; Provisional	96.4
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.39
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.38
KOG3928	461	consensus Mitochondrial ribosome small subunit com	96.38
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.36
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.35
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.35
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.32
PRK08356	195	hypothetical protein; Provisional	96.32
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.31
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.31
PRK06851	367	hypothetical protein; Provisional	96.3
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.3
PRK15453	290	phosphoribulokinase; Provisional	96.26
PRK13947	171	shikimate kinase; Provisional	96.25
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.24
PRK10867	433	signal recognition particle protein; Provisional	96.22
PRK00889	175	adenylylsulfate kinase; Provisional	96.21
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.21
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.2
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.2
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.19
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.18
PF13479	213	AAA_24: AAA domain	96.18
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	96.18
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.17
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.17
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.16
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.15
PTZ00088	229	adenylate kinase 1; Provisional	96.14
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.13
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.12
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.1
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.09
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	96.08
PRK03846	198	adenylylsulfate kinase; Provisional	96.05
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.04
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.04
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.04
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.03
PRK06217	183	hypothetical protein; Validated	96.03
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.01
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.01
COG0488	530	Uup ATPase components of ABC transporters with dup	96.01
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.0
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.0
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.98
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.97
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.97
PRK14974	336	cell division protein FtsY; Provisional	95.96
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	95.96
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.96
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	95.95
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.95
PRK14528	186	adenylate kinase; Provisional	95.93
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	95.93
PRK13949	169	shikimate kinase; Provisional	95.93
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.92
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.92
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.91
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.88
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	95.88
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.84
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.83
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.83
PRK13948	182	shikimate kinase; Provisional	95.83
PRK05439	311	pantothenate kinase; Provisional	95.81
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	95.78
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.77
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	95.76
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.76
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	95.76
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.76
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.75
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	95.74
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	95.74
PRK14530	215	adenylate kinase; Provisional	95.74
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	95.74
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.74
PRK13946	184	shikimate kinase; Provisional	95.73
PRK14738	206	gmk guanylate kinase; Provisional	95.73
PTZ00494	664	tuzin-like protein; Provisional	95.72
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.72
PHA02244	383	ATPase-like protein	95.71
PRK08699	325	DNA polymerase III subunit delta'; Validated	95.69
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.68
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.68
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.67
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.67
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.67
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	95.67
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	95.66
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.65
COG0714	329	MoxR-like ATPases [General function prediction onl	95.64
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.61
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.61
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.6
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.6
PLN02165	334	adenylate isopentenyltransferase	95.6
PRK05057	172	aroK shikimate kinase I; Reviewed	95.59
PF13245	76	AAA_19: Part of AAA domain	95.58
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	95.57
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.55
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	95.55
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.54
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	95.54
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.54
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	95.54
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.54
PRK14737	186	gmk guanylate kinase; Provisional	95.53
PRK04182	180	cytidylate kinase; Provisional	95.53
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	95.53
PRK00300	205	gmk guanylate kinase; Provisional	95.52
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	95.51
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.51
PRK13975	196	thymidylate kinase; Provisional	95.51
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	95.5
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.5
) 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	95.48
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	95.47
PF02456	369	Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR	95.47
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.46
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	95.44
PRK14527	191	adenylate kinase; Provisional	95.44
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.43
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.41
TIGR00665	434	DnaB replicative DNA helicase. This model describe	95.41
KOG0736	953	consensus Peroxisome assembly factor 2 containing	95.39
COG4240	300	Predicted kinase [General function prediction only	95.38
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	95.38
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	95.38
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.37
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	95.35
PLN02200	234	adenylate kinase family protein	95.35
PRK03731	171	aroL shikimate kinase II; Reviewed	95.34
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.34
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.33
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	95.33
PRK09302	509	circadian clock protein KaiC; Reviewed	95.32
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	95.31
PRK13768	253	GTPase; Provisional	95.3
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	95.3
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.3
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.29
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.29
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.29
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.28
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.28
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	95.27
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.26
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.26
PRK05973	237	replicative DNA helicase; Provisional	95.26
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.26
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.25
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.24
PRK06761	282	hypothetical protein; Provisional	95.23
PRK14532	188	adenylate kinase; Provisional	95.22
CHL00206	2281	ycf2 Ycf2; Provisional	95.22
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	95.21
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.21
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	95.2
PLN02318	656	phosphoribulokinase/uridine kinase	95.19
PRK14531	183	adenylate kinase; Provisional	95.19
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	95.18
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.17
PRK14529	223	adenylate kinase; Provisional	95.13
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.13
PLN02348	395	phosphoribulokinase	95.13
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.12
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	95.12
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.12
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	95.09
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.09
PRK13764	602	ATPase; Provisional	95.07
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	95.07
PRK09825	176	idnK D-gluconate kinase; Provisional	95.06
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	95.05
PHA02530	300	pseT polynucleotide kinase; Provisional	95.05
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.04
PRK12678	672	transcription termination factor Rho; Provisional	95.04
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	95.03
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.01
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.01
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	95.01
PRK11608	326	pspF phage shock protein operon transcriptional ac	95.0
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	94.98
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	94.96
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	94.95
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	94.95
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	94.94
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.94
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	94.92
PRK05922	434	type III secretion system ATPase; Validated	94.91
PRK01184	184	hypothetical protein; Provisional	94.91
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	94.91
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	94.9
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	94.9
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	94.9
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	94.86
PRK09165	497	replicative DNA helicase; Provisional	94.86
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	94.86
PRK12338	319	hypothetical protein; Provisional	94.86
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	94.85
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	94.85
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	94.85
PRK00279	215	adk adenylate kinase; Reviewed	94.82
cd03116	159	MobB Molybdenum is an essential trace element in t	94.81
PF00005	137	ABC_tran: ABC transporter This structure is on hol	94.79
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.78
PRK05595	444	replicative DNA helicase; Provisional	94.78
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	94.77
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	94.74
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	94.74
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	94.73
PRK02496	184	adk adenylate kinase; Provisional	94.72
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	94.72
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	94.69
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	94.68
COG4619	223	ABC-type uncharacterized transport system, ATPase	94.68
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	94.66
cd03114	148	ArgK-like The function of this protein family is u	94.66
cd02034	116	CooC The accessory protein CooC, which contains a	94.65
PLN02459	261	probable adenylate kinase	94.62
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	94.61
TIGR01287	275	nifH nitrogenase iron protein. This model describe	94.61
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	94.6
PRK13695	174	putative NTPase; Provisional	94.56
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	94.55
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.54
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	94.51
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	94.5
PLN02796	347	D-glycerate 3-kinase	94.5
COG0283	222	Cmk Cytidylate kinase [Nucleotide transport and me	94.49
PF13555	62	AAA_29: P-loop containing region of AAA domain	94.48
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	94.48
PRK08099	399	bifunctional DNA-binding transcriptional repressor	94.46
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.45
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	94.45
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	94.44
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	94.44

>PLN03210 Resistant to P

Probab=100.00  E-value=3.8e-80  Score=680.44  Aligned_cols=432  Identities=38%  Similarity=0.671  Sum_probs=380.6

Q ss_pred             CCCCChhhHHHHHHHHhchhcCCCccEEEeeeccCCCcccccccchHHHHHHHhHHhhhhcHHHHHHHHHHHHHHHhhcC
Q 045345            1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVSG   80 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~~~~~~~~~v~Pvfy~v~ps~vr~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~~~g   80 (445)
                      |||+|+||||||++||||+++.+  ++|+||||+|||||||+|+|+||++|.++..+.  ..+++++||+||+++|+++|
T Consensus        76 ~ya~s~wcl~el~~i~~~~~~~~--~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g  151 (1153)
T PLN03210         76 NYASSSWCLNELLEIVRCKEELG--QLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILG  151 (1153)
T ss_pred             CcccchHHHHHHHHHHHhhhhcC--ceEEEEEecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCc
Confidence            79999999999999999999999  999999999999999999999999999987754  35789999999999999999


Q ss_pred             CccCC-chhhhhHhhhhhcccCCCCCCCCCccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHh
Q 045345           81 WELKD-RSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus        81 ~~~~~-~~e~~~i~~iv~~v~~~p~~~~~~~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      |++.. .+|+++|++||++|.++  +...++...+++|||+.++++|..+|....+++++|+|+||||+||||||+++|+
T Consensus       152 ~~~~~~~~E~~~i~~Iv~~v~~~--l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~  229 (1153)
T PLN03210        152 YHSQNWPNEAKMIEEIANDVLGK--LNLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFS  229 (1153)
T ss_pred             eecCCCCCHHHHHHHHHHHHHHh--hccccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHH
Confidence            99864 67999999999999999  9888888889999999999999999987777899999999999999999999999


Q ss_pred             hccCccccceeeehh--hh---hhc------cCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCC
Q 045345          160 LSSHEFEASSFLANV--RE---ISE------KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAA  228 (445)
Q Consensus       160 ~~~~~f~~~~~~~~~--~~---~~~------~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv  228 (445)
                      ++..+|++.+|+...  ..   ...      ......++.+++..+..........    ...++++++++|+|||||||
T Consensus       230 ~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~----~~~~~~~L~~krvLLVLDdv  305 (1153)
T PLN03210        230 RLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYH----LGAMEERLKHRKVLIFIDDL  305 (1153)
T ss_pred             HHhhcCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcccCC----HHHHHHHHhCCeEEEEEeCC
Confidence            999999998887532  11   100      1113456677777776543322222    24578889999999999999


Q ss_pred             CCHHHHHHhcCCCCCc--CcccccccC---------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHh
Q 045345          229 FDLKQLESLAGKHEWF--DEHLLMTHG---------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYS  297 (445)
Q Consensus       229 ~~~~~l~~l~~~~~~~--~~~vl~t~~---------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~  297 (445)
                      |+..+++.+.+...|+  +..|++|++         ...+|+++.|+.++|++||+++||+...+++.+.+++.+|+++|
T Consensus       306 ~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c  385 (1153)
T PLN03210        306 DDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRA  385 (1153)
T ss_pred             CCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHh
Confidence            9999999998766665  344555443         45789999999999999999999988777778999999999999


Q ss_pred             CCChHHHHHHHHhhCCCCHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcH-hHHHHHhhhhccCCCCCHHHHHHHHHhCC
Q 045345          298 GGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISFDGLRE-TEKKIFLDIACFYRGEDRDYVTKIIDYCD  376 (445)
Q Consensus       298 ~GlPLal~~~~~~L~~~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~-~~k~~~~~la~f~~~~~~~~l~~~~~~~~  376 (445)
                      +|+||||+++|++|++++..+|+.++.+++..++..|..+|+.||+.|++ .+|.+|+++||||.+.+.+.+..++..++
T Consensus       386 ~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~  465 (1153)
T PLN03210        386 GNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSD  465 (1153)
T ss_pred             CCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcC
Confidence            99999999999999999999999999999988888999999999999976 59999999999999999999999998888


Q ss_pred             CCchhcHHHHhhcCceEEccCCeEEccHHHHHHHHHHHhhcCCCCCCCcccccccchHHHHhhhCcCC
Q 045345          377 FDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKNTVS  444 (445)
Q Consensus       377 ~~~~~~l~~L~~~sLi~~~~~~~~~mHdlvr~~ar~~~~~e~~~~~~~~~rlw~~~d~~~~l~~~~~~  444 (445)
                      ..+..+++.|+++|||+.. ++++.||||+|+||++++++++ .+|++|+|+|+++|++++|++++|.
T Consensus       466 ~~~~~~l~~L~~ksLi~~~-~~~~~MHdLl~~~~r~i~~~~~-~~~~~r~~l~~~~di~~vl~~~~g~  531 (1153)
T PLN03210        466 LDVNIGLKNLVDKSLIHVR-EDIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNTGT  531 (1153)
T ss_pred             CCchhChHHHHhcCCEEEc-CCeEEhhhHHHHHHHHHHHhhc-CCCCcceeEeCHHHHHHHHHhCccc
Confidence            8888899999999999987 6889999999999999999987 6899999999999999999999874

syringae 6; Provisional

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=2e-41  Score=356.70  Aligned_cols=295  Identities=28%  Similarity=0.379  Sum_probs=251.2

Q ss_pred             cccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh---ccCccccceeeehhhhhhccCCHHHHHHHHHHH
Q 045345          117 VGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL---SSHEFEASSFLANVREISEKGGLICLQKQLLSE  193 (445)
Q Consensus       117 vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~---~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~  193 (445)
                      ||.+..++.+...|....  ..+++|+||||+||||||+.++++   +..+|+..+|+.    +|.......++.+|+..
T Consensus       161 VG~e~~~~kl~~~L~~d~--~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~----VSk~f~~~~iq~~Il~~  234 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDD--VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVV----VSKEFTTRKIQQTILER  234 (889)
T ss_pred             ccHHHHHHHHHHHhccCC--CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEE----EcccccHHhHHHHHHHH
Confidence            999999999999998543  389999999999999999999986   568899999999    88889999999999999


Q ss_pred             HhCCCCCC-CcChhhhHHHHHHHHccCcEEEEEcCCCCHHHHHHhcCCCCCc--CcccccccC----------CCceEEc
Q 045345          194 LLKLPDTS-TWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWF--DEHLLMTHG----------VDEVHKL  260 (445)
Q Consensus       194 l~~~~~~~-~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~l~~l~~~~~~~--~~~vl~t~~----------~~~~~~l  260 (445)
                      ++...... ..........+.+.|+++|++|||||||+..+|+.+..+.+.-  +.+++.|++          ....+++
T Consensus       235 l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v  314 (889)
T KOG4658|consen  235 LGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEV  314 (889)
T ss_pred             hccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccc
Confidence            88643322 2334677888999999999999999999999999987555433  356666654          3456899


Q ss_pred             CCCCHHHHHHHHHHhhcCCC-CCchHHHHHHHHHHHHhCCChHHHHHHHHhhCC-CCHHHHHHHHHHHhcC-------Cc
Q 045345          261 KVLHDDEALQLFCKQAFKTN-QPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYG-KTTKEWESAPKRLERE-------SE  331 (445)
Q Consensus       261 ~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~-~~~~~w~~~l~~l~~~-------~~  331 (445)
                      +.|+++|||.||++.+|... ...+..++++++++++|+|+|||+.++|+.|+. .+..+|+.+.+.+...       ..
T Consensus       315 ~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~  394 (889)
T KOG4658|consen  315 ECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGME  394 (889)
T ss_pred             cccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchh
Confidence            99999999999999998763 333458999999999999999999999999998 4577999999988664       24


Q ss_pred             hhHHHHHHHhhcCCcHhHHHHHhhhhccCCC--CCHHHHHHHHHhCCCC------------chhcHHHHhhcCceEEccC
Q 045345          332 NEILDILKISFDGLRETEKKIFLDIACFYRG--EDRDYVTKIIDYCDFD------------PVIGIRVLIDKSLIEISNG  397 (445)
Q Consensus       332 ~~i~~~l~~s~~~L~~~~k~~~~~la~f~~~--~~~~~l~~~~~~~~~~------------~~~~l~~L~~~sLi~~~~~  397 (445)
                      ..+..++..||+.|+++.|.||+|||.||.+  ++.+.+...|.++|+.            +..++.+|++++|+.....
T Consensus       395 ~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~  474 (889)
T KOG4658|consen  395 ESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERD  474 (889)
T ss_pred             hhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhccc
Confidence            6889999999999999999999999999998  7889999999999954            3447999999999987642


Q ss_pred             ----CeEEccHHHHHHHHHHHhhc
Q 045345          398 ----NRLRMHNLLQEMGQQIVKRQ  417 (445)
Q Consensus       398 ----~~~~mHdlvr~~ar~~~~~e  417 (445)
                          ..+.|||+||+||..++++.
T Consensus       475 ~~~~~~~kmHDvvRe~al~ias~~  498 (889)
T KOG4658|consen  475 EGRKETVKMHDVVREMALWIASDF  498 (889)
T ss_pred             ccceeEEEeeHHHHHHHHHHhccc
Confidence                56999999999999999833

>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=1.3e-37  Score=295.42  Aligned_cols=257  Identities=30%  Similarity=0.461  Sum_probs=202.9

Q ss_pred             cchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh--ccCccccceeeehhhhhhccCCHHHHHHHHHHHHhC
Q 045345          119 MDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL--SSHEFEASSFLANVREISEKGGLICLQKQLLSELLK  196 (445)
Q Consensus       119 r~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~--~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~  196 (445)
                      ||.++++|.+.|....++.++|+|+||||+||||||.+++++  +..+|+.++|+.    .+.......++.+++..+..
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~----~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVS----LSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEE----EES-SCCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccc----cccccccccccccccccccc
Confidence            789999999999875578999999999999999999999998  889999999998    55556668888999998876


Q ss_pred             CCCC--CCcChhhhHHHHHHHHccCcEEEEEcCCCCHHHHHHhcCCCCCc--CcccccccCC----------CceEEcCC
Q 045345          197 LPDT--STWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWF--DEHLLMTHGV----------DEVHKLKV  262 (445)
Q Consensus       197 ~~~~--~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~l~~l~~~~~~~--~~~vl~t~~~----------~~~~~l~~  262 (445)
                      ....  ...+.......+.+.|.++++||||||||+...++.+.......  +.++++|++.          ...++|++
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~  156 (287)
T PF00931_consen   77 PDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEP  156 (287)
T ss_dssp             C-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS
T ss_pred             cccccccccccccccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccccccccccc
Confidence            5322  45677778899999999999999999999999887776443322  5667777653          24699999


Q ss_pred             CCHHHHHHHHHHhhcCCC-CCchHHHHHHHHHHHHhCCChHHHHHHHHhhCC-CCHHHHHHHHHHHhcCC------chhH
Q 045345          263 LHDDEALQLFCKQAFKTN-QPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYG-KTTKEWESAPKRLERES------ENEI  334 (445)
Q Consensus       263 L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~-~~~~~w~~~l~~l~~~~------~~~i  334 (445)
                      |+.+||++||.+.++... ...+...+.+++|++.|+|+||||+++|++|+. .+..+|+..++.+....      ...+
T Consensus       157 L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~  236 (287)
T PF00931_consen  157 LSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSV  236 (287)
T ss_dssp             --HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999999997654 233445678999999999999999999999955 35678999988876532      4789


Q ss_pred             HHHHHHhhcCCcHhHHHHHhhhhccCCC--CCHHHHHHHHHhCCCCc
Q 045345          335 LDILKISFDGLRETEKKIFLDIACFYRG--EDRDYVTKIIDYCDFDP  379 (445)
Q Consensus       335 ~~~l~~s~~~L~~~~k~~~~~la~f~~~--~~~~~l~~~~~~~~~~~  379 (445)
                      ..++..||+.|+++.|+||++||+||.+  ++.+.+..+|..+|+..
T Consensus       237 ~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~  283 (287)
T PF00931_consen  237 FSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFIS  283 (287)
T ss_dssp             HHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC
T ss_pred             cccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCc
Confidence            9999999999999999999999999987  56999999999887654

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.

>PLN03194 putative disease resistance protein; Provisional

Probab=99.91  E-value=2e-25  Score=188.47  Aligned_cols=83  Identities=27%  Similarity=0.444  Sum_probs=73.4

Q ss_pred             CCCCChhhHHHHHHHHhchhcCCCccEEEeeeccCCCcccccc-cchHHHHHHHhHHhhhhcHHHHHHHHHHHHHHHhhc
Q 045345            1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQ-TASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVS   79 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~~~~~~~~~v~Pvfy~v~ps~vr~~-~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~~~   79 (445)
                      |||+|+|||+||++|++|+      ..||||||+|||||||+| .|.+             ..+++++||+||+++++++
T Consensus        91 ~Ya~S~WCLdEL~~I~e~~------~~ViPIFY~VdPsdVr~q~~~~~-------------~~e~v~~Wr~AL~~va~l~  151 (187)
T PLN03194         91 RYCESYFCLHELALIMESK------KRVIPIFCDVKPSQLRVVDNGTC-------------PDEEIRRFNWALEEAKYTV  151 (187)
T ss_pred             CcccchhHHHHHHHHHHcC------CEEEEEEecCCHHHhhccccCCC-------------CHHHHHHHHHHHHHHhccc
Confidence            7999999999999999984      589999999999999997 4431             2478999999999999999


Q ss_pred             CCccC--CchhhhhHhhhhhcccCC
Q 045345           80 GWELK--DRSESEFIVDIVKDILEM  102 (445)
Q Consensus        80 g~~~~--~~~e~~~i~~iv~~v~~~  102 (445)
                      |++++  .++|+++|++||+.|.++
T Consensus       152 G~~~~~~~~~e~e~i~~iv~~v~k~  176 (187)
T PLN03194        152 GLTFDSLKGNWSEVVTMASDAVIKN  176 (187)
T ss_pred             cccCCCCCCCHHHHHHHHHHHHHHH
Confidence            98765  467999999999999877

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.70  E-value=3.3e-15  Score=163.92  Aligned_cols=287  Identities=12%  Similarity=0.137  Sum_probs=183.5

Q ss_pred             CccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhh-ccCCHHHHH
Q 045345          109 KSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREIS-EKGGLICLQ  187 (445)
Q Consensus       109 ~~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~l~  187 (445)
                      ||..+..+|-|..-++.|...     ...+++.|+|++|.||||++..+....    +.++|+.    .. ...+...+.
T Consensus         9 ~p~~~~~~~~R~rl~~~l~~~-----~~~~~~~v~apaG~GKTtl~~~~~~~~----~~~~w~~----l~~~d~~~~~f~   75 (903)
T PRK04841          9 RPVRLHNTVVRERLLAKLSGA-----NNYRLVLVTSPAGYGKTTLISQWAAGK----NNLGWYS----LDESDNQPERFA   75 (903)
T ss_pred             CCCCccccCcchHHHHHHhcc-----cCCCeEEEECCCCCCHHHHHHHHHHhC----CCeEEEe----cCcccCCHHHHH
Confidence            444566789998777766532     346899999999999999999988632    3688986    32 223444455


Q ss_pred             HHHHHHHhCCCCC------------CCcChhhhHHHHHHHHc--cCcEEEEEcCCCCH------HHHHHhcCCCCCcCcc
Q 045345          188 KQLLSELLKLPDT------------STWNVYDGLKMIGSRLR--YRKVLLIVDAAFDL------KQLESLAGKHEWFDEH  247 (445)
Q Consensus       188 ~~il~~l~~~~~~------------~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~------~~l~~l~~~~~~~~~~  247 (445)
                      ..++..+......            ...+.......+...+.  +.+++|||||++..      +.+..++..... +.+
T Consensus        76 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~-~~~  154 (903)
T PRK04841         76 SYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPE-NLT  154 (903)
T ss_pred             HHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCC-CeE
Confidence            5555555311111            00122222333333333  68999999999753      244444433221 344


Q ss_pred             cccccCCC------------ceEEcC----CCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhh
Q 045345          248 LLMTHGVD------------EVHKLK----VLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFL  311 (445)
Q Consensus       248 vl~t~~~~------------~~~~l~----~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  311 (445)
                      ++++++..            ...++.    +|+.+|+.+||...... ..+    .+.+.+|.+.|+|+|+++..++..+
T Consensus       155 lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~-~~~----~~~~~~l~~~t~Gwp~~l~l~~~~~  229 (903)
T PRK04841        155 LVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS-PIE----AAESSRLCDDVEGWATALQLIALSA  229 (903)
T ss_pred             EEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCC-CCC----HHHHHHHHHHhCChHHHHHHHHHHH
Confidence            44444432            123455    89999999999876522 211    2457789999999999999998877


Q ss_pred             CCCCHHHHHHHHHHHhcCCchhHHHHHHH-hhcCCcHhHHHHHhhhhccCCCCCHHHHHHHHHhCCCCchhcHHHHhhcC
Q 045345          312 YGKTTKEWESAPKRLERESENEILDILKI-SFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKS  390 (445)
Q Consensus       312 ~~~~~~~w~~~l~~l~~~~~~~i~~~l~~-s~~~L~~~~k~~~~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~s  390 (445)
                      ...... .......+...+...+...+.. .++.||++.+.++..+|+++ .++.+.+..+.+  ..+....++.|.+.+
T Consensus       230 ~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~~~~~l~~~l~~--~~~~~~~L~~l~~~~  305 (903)
T PRK04841        230 RQNNSS-LHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-SMNDALIVRVTG--EENGQMRLEELERQG  305 (903)
T ss_pred             hhCCCc-hhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-cCCHHHHHHHcC--CCcHHHHHHHHHHCC
Confidence            543210 1111222222223446555443 48999999999999999985 778777666654  224567899999999


Q ss_pred             ceEE-cc--CCeEEccHHHHHHHHHHHhhcC
Q 045345          391 LIEI-SN--GNRLRMHNLLQEMGQQIVKRQS  418 (445)
Q Consensus       391 Li~~-~~--~~~~~mHdlvr~~ar~~~~~e~  418 (445)
                      |+.. .+  ..+|++|++++++.++.+..+.
T Consensus       306 l~~~~~~~~~~~yr~H~L~r~~l~~~l~~~~  336 (903)
T PRK04841        306 LFIQRMDDSGEWFRYHPLFASFLRHRCQWEL  336 (903)
T ss_pred             CeeEeecCCCCEEehhHHHHHHHHHHHHhcC
Confidence            9653 22  2379999999999999886553

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.48  E-value=1.1e-11  Score=123.11  Aligned_cols=274  Identities=16%  Similarity=0.119  Sum_probs=162.4

Q ss_pred             cccccccccchhHHHHHhhhccC--CCCeEEEEEEccCCCchhHHHHHHHhhccCccc--cceeeehhhhhhccCCHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKE--PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE--ASSFLANVREISEKGGLICL  186 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~l  186 (445)
                      ..|+.|+||+.++++|...+...  ....+.+.|+|++|+|||++++.+++.+....+  ..+++.    .....+...+
T Consensus        27 ~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in----~~~~~~~~~~  102 (394)
T PRK00411         27 YVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYIN----CQIDRTRYAI  102 (394)
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEE----CCcCCCHHHH
Confidence            46678999999999999988542  233456789999999999999999998755432  233443    2233456677


Q ss_pred             HHHHHHHHhCCCC-CCCcChhhhHHHHHHHHc--cCcEEEEEcCCCCHH------HHHHhcCCCCCc-C-c--cccccc-
Q 045345          187 QKQLLSELLKLPD-TSTWNVYDGLKMIGSRLR--YRKVLLIVDAAFDLK------QLESLAGKHEWF-D-E--HLLMTH-  252 (445)
Q Consensus       187 ~~~il~~l~~~~~-~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~------~l~~l~~~~~~~-~-~--~vl~t~-  252 (445)
                      +..++.++..... ....+..+....+.+.+.  +++.+||||+++...      .+..+....... + .  .++++. 
T Consensus       103 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~  182 (394)
T PRK00411        103 FSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSD  182 (394)
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECC
Confidence            7888888765222 222345556666666665  456899999998643      344433211100 0 0  111111 


Q ss_pred             --------------CCCceEEcCCCCHHHHHHHHHHhhcC---CC-CCchHHHHHHHHHHHHhCCChHHHHHHHHhh---
Q 045345          253 --------------GVDEVHKLKVLHDDEALQLFCKQAFK---TN-QPWKEYEQLSKYVVKYSGGLPLALKVLGSFL---  311 (445)
Q Consensus       253 --------------~~~~~~~l~~L~~~ea~~Lf~~~a~~---~~-~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L---  311 (445)
                                    .....+.+++++.++..+++..++..   .. .+.+..+.+++......|..+.|+.++-...   
T Consensus       183 ~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a  262 (394)
T PRK00411        183 LTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIA  262 (394)
T ss_pred             cchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHH
Confidence                          11245789999999999999877622   11 2222222222322222455777777664322   


Q ss_pred             --CC---CCHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccC----CCCCHHHHHHH----HHhCCCC
Q 045345          312 --YG---KTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFY----RGEDRDYVTKI----IDYCDFD  378 (445)
Q Consensus       312 --~~---~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~----~~~~~~~l~~~----~~~~~~~  378 (445)
                        .+   -+.+....+.+.+.       ...+...+..||..+|.++..++...    ..+....+...    ....+..
T Consensus       263 ~~~~~~~I~~~~v~~a~~~~~-------~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~  335 (394)
T PRK00411        263 EREGSRKVTEEDVRKAYEKSE-------IVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYE  335 (394)
T ss_pred             HHcCCCCcCHHHHHHHHHHHH-------HHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCC
Confidence              11   13455555555441       23345568899999999888777543    23444444322    2222332


Q ss_pred             c------hhcHHHHhhcCceEEc
Q 045345          379 P------VIGIRVLIDKSLIEIS  395 (445)
Q Consensus       379 ~------~~~l~~L~~~sLi~~~  395 (445)
                      +      ...+..|...|||...
T Consensus       336 ~~~~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        336 PRTHTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             cCcHHHHHHHHHHHHhcCCeEEE
Confidence            2      3468999999999853

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.46  E-value=1.3e-12  Score=126.07  Aligned_cols=275  Identities=14%  Similarity=0.130  Sum_probs=155.3

Q ss_pred             cccccccccchhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....+|+|++..++.+..++..   .....+.+.|+|++|+|||+||+.+++.+...+.   +.. .......    ..+
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~---~~~-~~~~~~~----~~l   93 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR---ITS-GPALEKP----GDL   93 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeE---EEe-cccccCh----HHH
Confidence            3567899999999999887753   2233567889999999999999999998754321   111 0000000    111


Q ss_pred             HHHHHHHhCCCCCCCcChh----hhHHHHHHHHccCcEEEEEcCCCCHHHHHHhcCCCCCc---C--cccc--cccCCCc
Q 045345          188 KQLLSELLKLPDTSTWNVY----DGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWF---D--EHLL--MTHGVDE  256 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~----~~~~~l~~~l~~~~~LlVlDdv~~~~~l~~l~~~~~~~---~--~~vl--~t~~~~~  256 (445)
                      ..++..+......-.++.+    ...+.+...+.+.+..+++|+..+..++....+....+   +  ..+.  ..++...
T Consensus        94 ~~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~  173 (328)
T PRK00080         94 AAILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGI  173 (328)
T ss_pred             HHHHHhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCe
Confidence            2222222110000000111    11222333444445555555544333222111110000   0  0000  1112345


Q ss_pred             eEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCCCHHHHHHHHH--HHhcCCchhH
Q 045345          257 VHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPK--RLERESENEI  334 (445)
Q Consensus       257 ~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~--~l~~~~~~~i  334 (445)
                      .+++++++.++..+++...+......  -..+.+..|++.|+|.|-.+..+...+.     .|.....  .+....-...
T Consensus       174 ~~~l~~~~~~e~~~il~~~~~~~~~~--~~~~~~~~ia~~~~G~pR~a~~~l~~~~-----~~a~~~~~~~I~~~~v~~~  246 (328)
T PRK00080        174 VQRLEFYTVEELEKIVKRSARILGVE--IDEEGALEIARRSRGTPRIANRLLRRVR-----DFAQVKGDGVITKEIADKA  246 (328)
T ss_pred             eeecCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHcCCCchHHHHHHHHHH-----HHHHHcCCCCCCHHHHHHH
Confidence            68999999999999999887443322  2346688999999999976655554331     1111100  0000001223


Q ss_pred             HHHHHHhhcCCcHhHHHHHh-hhhccCCC-CCHHHHHHHHHhCCCCchhcHH-HHhhcCceEEccCCeE
Q 045345          335 LDILKISFDGLRETEKKIFL-DIACFYRG-EDRDYVTKIIDYCDFDPVIGIR-VLIDKSLIEISNGNRL  400 (445)
Q Consensus       335 ~~~l~~s~~~L~~~~k~~~~-~la~f~~~-~~~~~l~~~~~~~~~~~~~~l~-~L~~~sLi~~~~~~~~  400 (445)
                      ...+...+..|++..+..+. .+..|..+ +..+.+...++.+....+..++ .|++.+||.....|++
T Consensus       247 l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~~~li~~~~~gr~  315 (328)
T PRK00080        247 LDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQQGFIQRTPRGRV  315 (328)
T ss_pred             HHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHHHcCCcccCCchHH
Confidence            34556777889998888886 55666544 7889999988877777777788 9999999987656653

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.45  E-value=2.8e-12  Score=136.95  Aligned_cols=300  Identities=16%  Similarity=0.200  Sum_probs=182.5

Q ss_pred             cccccchhHHHHHhhhccC-CCCeEEEEEEccCCCchhHHHHHHHhhccCcc--------c-------cceeeehhhhhh
Q 045345          115 DLVGMDSCWNTLRFLMDKE-PYGVRMIGICGMGGIGKTTLARVVYDLSSHEF--------E-------ASSFLANVREIS  178 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f--------~-------~~~~~~~~~~~~  178 (445)
                      .++||+.+++.|...+..- .....++.+.|.+|||||+|+++|...+..++        +       -..|+..+++..
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~   80 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLM   80 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHH
Confidence            3799999999999998863 34467999999999999999999998754441        1       112222222211


Q ss_pred             c------cCCHHHHHHHHHHHHhCCC-----------------CC--C--CcChhh-----hHHHHHHHH-ccCcEEEEE
Q 045345          179 E------KGGLICLQKQLLSELLKLP-----------------DT--S--TWNVYD-----GLKMIGSRL-RYRKVLLIV  225 (445)
Q Consensus       179 ~------~~~~~~l~~~il~~l~~~~-----------------~~--~--~~~~~~-----~~~~l~~~l-~~~~~LlVl  225 (445)
                      .      .........+++..++...                 ++  +  ......     ....+.... +.+|.++|+
T Consensus        81 ~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~l  160 (849)
T COG3899          81 GQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVL  160 (849)
T ss_pred             HHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEE
Confidence            1      1111222223333222110                 00  0  000001     122222223 346999999


Q ss_pred             cCCCC-----HHHHHHhcCCCC--Cc-Cccccccc-------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCch
Q 045345          226 DAAFD-----LKQLESLAGKHE--WF-DEHLLMTH-------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWK  284 (445)
Q Consensus       226 Ddv~~-----~~~l~~l~~~~~--~~-~~~vl~t~-------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~  284 (445)
                      ||+..     ..-++.++....  .+ +..+...+             ..-..+.|.||+..+...|...........  
T Consensus       161 eDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~--  238 (849)
T COG3899         161 EDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKLL--  238 (849)
T ss_pred             ecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcccc--
Confidence            99952     223444432221  11 11222211             122568999999999999998877332222  


Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHhhCCC-------CHHHHHHHHHHHhcCC-chhHHHHHHHhhcCCcHhHHHHHhhh
Q 045345          285 EYEQLSKYVVKYSGGLPLALKVLGSFLYGK-------TTKEWESAPKRLERES-ENEILDILKISFDGLRETEKKIFLDI  356 (445)
Q Consensus       285 ~~~~~~~~i~~~~~GlPLal~~~~~~L~~~-------~~~~w~~~l~~l~~~~-~~~i~~~l~~s~~~L~~~~k~~~~~l  356 (445)
                       ..+....|++++.|+|+.++.+-..+...       +...|..-...+.... ...+...+..-.+.||...|+++...
T Consensus       239 -~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~~A  317 (849)
T COG3899         239 -PAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTTREVLKAA  317 (849)
T ss_pred             -cchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence             23568889999999999999999888663       2344555444443322 13355678889999999999999999


Q ss_pred             hccCCCCCHHHHHHHHHhCCCCchhcHHHHhhcCceEEcc--------CC---eEEccHHHHHHHHHHHhhc
Q 045345          357 ACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISN--------GN---RLRMHNLLQEMGQQIVKRQ  417 (445)
Q Consensus       357 a~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~--------~~---~~~mHdlvr~~ar~~~~~e  417 (445)
                      ||+.+.|+.+.+..++..........+-.....++|...+        ..   +-..|++||+.|...+.+.
T Consensus       318 A~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~~i~~~  389 (849)
T COG3899         318 ACIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYNLIPES  389 (849)
T ss_pred             HHhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhccCchh
Confidence            9999999999999998754443334444444445544321        11   1267999999887765443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.45  E-value=1.7e-12  Score=124.16  Aligned_cols=269  Identities=12%  Similarity=0.085  Sum_probs=152.5

Q ss_pred             ccccccchhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          114 KDLVGMDSCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      .+|||++..++.|..++..   .....+.+.|+|++|+|||+||+.+++.+...+.   ...    ......... ....
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~---~~~----~~~~~~~~~-l~~~   75 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLK---ITS----GPALEKPGD-LAAI   75 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEE---Eec----cchhcCchh-HHHH
Confidence            5799999999999888863   1223456889999999999999999987654321   111    000011111 1111


Q ss_pred             HHHHhCCCCCCCcCh----hhhHHHHHHHHccCcEEEEEcCCCCHHHHHHhcCCCCCc-----Ccccc--cccCCCceEE
Q 045345          191 LSELLKLPDTSTWNV----YDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWF-----DEHLL--MTHGVDEVHK  259 (445)
Q Consensus       191 l~~l~~~~~~~~~~~----~~~~~~l~~~l~~~~~LlVlDdv~~~~~l~~l~~~~~~~-----~~~vl--~t~~~~~~~~  259 (445)
                      +..+......-.++.    ....+.+...+.+.+..+|+++..+..++....+....+     ...+.  ..++....+.
T Consensus        76 l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~  155 (305)
T TIGR00635        76 LTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILR  155 (305)
T ss_pred             HHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEE
Confidence            222211000000000    011233444445555556666554443333222111000     00000  1122345689


Q ss_pred             cCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCCCHHHHHHHHHHHhc--CCc---hhH
Q 045345          260 LKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLER--ESE---NEI  334 (445)
Q Consensus       260 l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~l~~--~~~---~~i  334 (445)
                      +++++.++..+++.+.+......  -..+.+..|++.|+|.|..+..++..+.       .... ....  ...   ...
T Consensus       156 l~~l~~~e~~~il~~~~~~~~~~--~~~~al~~ia~~~~G~pR~~~~ll~~~~-------~~a~-~~~~~~it~~~v~~~  225 (305)
T TIGR00635       156 LEFYTVEELAEIVSRSAGLLNVE--IEPEAALEIARRSRGTPRIANRLLRRVR-------DFAQ-VRGQKIINRDIALKA  225 (305)
T ss_pred             eCCCCHHHHHHHHHHHHHHhCCC--cCHHHHHHHHHHhCCCcchHHHHHHHHH-------HHHH-HcCCCCcCHHHHHHH
Confidence            99999999999999887432221  2245678899999999987765554331       1100 0000  000   122


Q ss_pred             HHHHHHhhcCCcHhHHHHHh-hhhccCC-CCCHHHHHHHHHhCCCCchhcHH-HHhhcCceEEccCCeE
Q 045345          335 LDILKISFDGLRETEKKIFL-DIACFYR-GEDRDYVTKIIDYCDFDPVIGIR-VLIDKSLIEISNGNRL  400 (445)
Q Consensus       335 ~~~l~~s~~~L~~~~k~~~~-~la~f~~-~~~~~~l~~~~~~~~~~~~~~l~-~L~~~sLi~~~~~~~~  400 (445)
                      ...+...+..|++.++..+. .++.+.. +++.+.+...++.........++ .|++++||...+.|++
T Consensus       226 l~~l~~~~~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~~~~~g~~  294 (305)
T TIGR00635       226 LEMLMIDELGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRGRI  294 (305)
T ss_pred             HHHhCCCCCCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCcccCCchhh
Confidence            22256678889998888777 4465643 37788888888877777777788 6999999987666654

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.41  E-value=2.9e-11  Score=123.29  Aligned_cols=290  Identities=16%  Similarity=0.150  Sum_probs=186.8

Q ss_pred             ccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhc-cCCHHHHHH
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE-KGGLICLQK  188 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~l~~  188 (445)
                      |..+.+.|-|..-++.+...     .+.+++.|..|+|.|||||+.+++. ....-..+.|+.    .++ ..+......
T Consensus        15 P~~~~~~v~R~rL~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wls----lde~dndp~rF~~   84 (894)
T COG2909          15 PVRPDNYVVRPRLLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLS----LDESDNDPARFLS   84 (894)
T ss_pred             CCCcccccccHHHHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEee----cCCccCCHHHHHH
Confidence            34467788888776666553     3578999999999999999999988 444556789987    433 456667777


Q ss_pred             HHHHHHhCCCCCCC------------cChhhhHHHHHHHHc--cCcEEEEEcCCCCH------HHHHHhcCCCCCcCccc
Q 045345          189 QLLSELLKLPDTST------------WNVYDGLKMIGSRLR--YRKVLLIVDAAFDL------KQLESLAGKHEWFDEHL  248 (445)
Q Consensus       189 ~il~~l~~~~~~~~------------~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~------~~l~~l~~~~~~~~~~v  248 (445)
                      .++..+....+...            .+.......+..-+.  .+|+.|||||..-.      .-++.++...+. +-.+
T Consensus        85 yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~-~l~l  163 (894)
T COG2909          85 YLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPE-NLTL  163 (894)
T ss_pred             HHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCC-CeEE
Confidence            77777663322221            223334444444343  47899999998622      235555433332 4555


Q ss_pred             ccccCCCce------------EEc----CCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhC
Q 045345          249 LMTHGVDEV------------HKL----KVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLY  312 (445)
Q Consensus       249 l~t~~~~~~------------~~l----~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~  312 (445)
                      +++++....            .++    =.++.+|+.++|.... +..    -....++.+.+.++|.+-|+..++-.++
T Consensus       164 vv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~-~l~----Ld~~~~~~L~~~teGW~~al~L~aLa~~  238 (894)
T COG2909         164 VVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRG-SLP----LDAADLKALYDRTEGWAAALQLIALALR  238 (894)
T ss_pred             EEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcC-CCC----CChHHHHHHHhhcccHHHHHHHHHHHcc
Confidence            555553322            222    2488999999997765 111    1123478899999999999999998887


Q ss_pred             CC-CHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccCCCCCHHHHHHHHHhCCCCchhcHHHHhhcCc
Q 045345          313 GK-TTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSL  391 (445)
Q Consensus       313 ~~-~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sL  391 (445)
                      .. +.+.   ....+......-..-..+--++.||++.|..++.+|++ ..++-+...++.+.  .+....+++|.+++|
T Consensus       239 ~~~~~~q---~~~~LsG~~~~l~dYL~eeVld~Lp~~l~~FLl~~svl-~~f~~eL~~~Ltg~--~ng~amLe~L~~~gL  312 (894)
T COG2909         239 NNTSAEQ---SLRGLSGAASHLSDYLVEEVLDRLPPELRDFLLQTSVL-SRFNDELCNALTGE--ENGQAMLEELERRGL  312 (894)
T ss_pred             CCCcHHH---HhhhccchHHHHHHHHHHHHHhcCCHHHHHHHHHHHhH-HHhhHHHHHHHhcC--CcHHHHHHHHHhCCC
Confidence            43 2222   11112211111112234556899999999999999998 33444444444332  234556899999998


Q ss_pred             eE--Ec-cCCeEEccHHHHHHHHHHHhhcCCCC
Q 045345          392 IE--IS-NGNRLRMHNLLQEMGQQIVKRQSPKE  421 (445)
Q Consensus       392 i~--~~-~~~~~~mHdlvr~~ar~~~~~e~~~~  421 (445)
                      .-  .+ +++.|+.|.+..+|-++..+.+.+..
T Consensus       313 Fl~~Ldd~~~WfryH~LFaeFL~~r~~~~~~~~  345 (894)
T COG2909         313 FLQRLDDEGQWFRYHHLFAEFLRQRLQRELAAR  345 (894)
T ss_pred             ceeeecCCCceeehhHHHHHHHHhhhccccCCc
Confidence            75  33 26779999999999999998865444

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.41  E-value=2.2e-10  Score=112.49  Aligned_cols=274  Identities=16%  Similarity=0.084  Sum_probs=158.1

Q ss_pred             cccccccccchhHHHHHhhhcc--CCCCeEEEEEEccCCCchhHHHHHHHhhccCccc------cceeeehhhhhhccCC
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK--EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE------ASSFLANVREISEKGG  182 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~------~~~~~~~~~~~~~~~~  182 (445)
                      ..|+.|+||+.++++|...+..  .....+.+.|+|++|+|||++++.+++.+.....      ..+|+.    .....+
T Consensus        12 ~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in----~~~~~~   87 (365)
T TIGR02928        12 YVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVN----CQILDT   87 (365)
T ss_pred             CCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEE----CCCCCC
Confidence            3456899999999999998864  1223457899999999999999999987643322      234444    233345


Q ss_pred             HHHHHHHHHHHHhC--CCC-CCCcChhhhHHHHHHHHc--cCcEEEEEcCCCCH-----HHHHHhcCC--CCC---cCcc
Q 045345          183 LICLQKQLLSELLK--LPD-TSTWNVYDGLKMIGSRLR--YRKVLLIVDAAFDL-----KQLESLAGK--HEW---FDEH  247 (445)
Q Consensus       183 ~~~l~~~il~~l~~--~~~-~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~-----~~l~~l~~~--~~~---~~~~  247 (445)
                      ...++..++.++..  ... ....+..+....+.+.+.  +++++||||+++..     +.+..+...  ...   ..-.
T Consensus        88 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~  167 (365)
T TIGR02928        88 LYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVG  167 (365)
T ss_pred             HHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEE
Confidence            56777788887742  111 112233444455555553  56789999999866     123333221  000   0000


Q ss_pred             -ccccc--------------CC-CceEEcCCCCHHHHHHHHHHhhc---CCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          248 -LLMTH--------------GV-DEVHKLKVLHDDEALQLFCKQAF---KTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       248 -vl~t~--------------~~-~~~~~l~~L~~~ea~~Lf~~~a~---~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                       +.++.              +. ...+.+++++.++..+++..++-   ......++..+.+..++..+.|.|..+..+.
T Consensus       168 lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l  247 (365)
T TIGR02928       168 VIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLL  247 (365)
T ss_pred             EEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHH
Confidence             11111              11 24578999999999999988763   2222233334455667777788885443322


Q ss_pred             Hh-h----C-C---CCHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccCC----CCCHHHHHH----H
Q 045345          309 SF-L----Y-G---KTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYR----GEDRDYVTK----I  371 (445)
Q Consensus       309 ~~-L----~-~---~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~----~~~~~~l~~----~  371 (445)
                      .. .    . +   -+.+....+.+.+.       ......++..||.+++.++..++....    .+....+..    +
T Consensus       248 ~~a~~~a~~~~~~~it~~~v~~a~~~~~-------~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~  320 (365)
T TIGR02928       248 RVAGEIAEREGAERVTEDHVEKAQEKIE-------KDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEV  320 (365)
T ss_pred             HHHHHHHHHcCCCCCCHHHHHHHHHHHH-------HHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHH
Confidence            11 1    1 1   23344444444331       233455678899988888877663321    233333333    1


Q ss_pred             HHhCCCCc------hhcHHHHhhcCceEEc
Q 045345          372 IDYCDFDP------VIGIRVLIDKSLIEIS  395 (445)
Q Consensus       372 ~~~~~~~~------~~~l~~L~~~sLi~~~  395 (445)
                      ....+..+      ...+..|...|||+..
T Consensus       321 ~~~~~~~~~~~~~~~~~l~~l~~~gli~~~  350 (365)
T TIGR02928       321 CEDIGVDPLTQRRISDLLNELDMLGLVEAE  350 (365)
T ss_pred             HHhcCCCCCcHHHHHHHHHHHHhcCCeEEE
Confidence            12223222      3468999999999964

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.

>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=99.31  E-value=2.2e-11  Score=111.62  Aligned_cols=186  Identities=19%  Similarity=0.206  Sum_probs=95.1

Q ss_pred             ccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHH------HHH
Q 045345          116 LVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICL------QKQ  189 (445)
Q Consensus       116 ~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l------~~~  189 (445)
                      |+||+.+++.|.+++..+  ..+.+.|+|+.|+|||+|++.+.+.........+|+........ ......      ...
T Consensus         1 F~gR~~el~~l~~~l~~~--~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~-~~~~~~~~~~~~~~~   77 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG--PSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNE-SSLRSFIEETSLADE   77 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHH-HHHHHHHHHHHHHCH
T ss_pred             CCCHHHHHHHHHHHHHhh--cCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhh-hHHHHHHHHHHHHHH
Confidence            799999999999999853  34688899999999999999999987554334555542211110 001111      111


Q ss_pred             HHHHHhCC-CC--------CCCcChhhhHHHHHHHHc--cCcEEEEEcCCCCHH-----------HHHHhcCC---CCCc
Q 045345          190 LLSELLKL-PD--------TSTWNVYDGLKMIGSRLR--YRKVLLIVDAAFDLK-----------QLESLAGK---HEWF  244 (445)
Q Consensus       190 il~~l~~~-~~--------~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~-----------~l~~l~~~---~~~~  244 (445)
                      +...+... ..        ............+.+.+.  +++++||+||++...           .+..++..   ... 
T Consensus        78 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-  156 (234)
T PF01637_consen   78 LSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQN-  156 (234)
T ss_dssp             CHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TT-
T ss_pred             HHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCC-
Confidence            11112110 00        011222333344444443  345999999987554           12222211   111 


Q ss_pred             Cccccccc----------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHH
Q 045345          245 DEHLLMTH----------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKV  306 (445)
Q Consensus       245 ~~~vl~t~----------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  306 (445)
                      -..|+..+                .....+.|++|+.+++.+++....-.. ..-+...+...+|+..+||+|..|..
T Consensus       157 ~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  157 VSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHH
T ss_pred             ceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            01111111                112338999999999999998865222 11012345679999999999998865

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

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

Probab=99.22  E-value=1e-09  Score=103.04  Aligned_cols=168  Identities=20%  Similarity=0.171  Sum_probs=100.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH-
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR-  215 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~-  215 (445)
                      .++++|+|++|+|||||++.+++.+...-...+++.     ....+...+...++..++....  ..+.......+... 
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~-----~~~~~~~~~l~~i~~~lG~~~~--~~~~~~~~~~l~~~l  115 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLV-----NTRVDAEDLLRMVAADFGLETE--GRDKAALLRELEDFL  115 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeee-----CCCCCHHHHHHHHHHHcCCCCC--CCCHHHHHHHHHHHH
Confidence            458899999999999999999987653211122322     1223455667777766653321  12222222233222 


Q ss_pred             ----HccCcEEEEEcCCCCH--HHHHH---hcCCCC-CcC-cc-cccc-----------------cCCCceEEcCCCCHH
Q 045345          216 ----LRYRKVLLIVDAAFDL--KQLES---LAGKHE-WFD-EH-LLMT-----------------HGVDEVHKLKVLHDD  266 (445)
Q Consensus       216 ----l~~~~~LlVlDdv~~~--~~l~~---l~~~~~-~~~-~~-vl~t-----------------~~~~~~~~l~~L~~~  266 (445)
                          ..+++.+||+||++..  ..++.   +..... ... .. +++.                 .+....+.+++|+.+
T Consensus       116 ~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~  195 (269)
T TIGR03015       116 IEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDRE  195 (269)
T ss_pred             HHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHH
Confidence                2568899999999854  23333   221110 000 00 1111                 112345789999999


Q ss_pred             HHHHHHHHhhcCCC--CCchHHHHHHHHHHHHhCCChHHHHHHHHhh
Q 045345          267 EALQLFCKQAFKTN--QPWKEYEQLSKYVVKYSGGLPLALKVLGSFL  311 (445)
Q Consensus       267 ea~~Lf~~~a~~~~--~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  311 (445)
                      |..+++...+....  ....-..+..+.|++.++|+|..|..++..+
T Consensus       196 e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       196 ETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            99999887653221  1112335788999999999999999998775

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.

>COG3903 Predicted ATPase [General function prediction only]

Probab=99.10  E-value=1.6e-10  Score=109.54  Aligned_cols=272  Identities=20%  Similarity=0.258  Sum_probs=178.7

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR  215 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~  215 (445)
                      ..+.+.++|+|||||||++-++.. +...|....|+.+...++++.-+.   -.+...++ ...   .+-+.....+...
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD~~~v~---~~~ag~~g-l~~---~~g~~~~~~~~~~   84 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITDPALVF---PTLAGALG-LHV---QPGDSAVDTLVRR   84 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCchhHhH---HHHHhhcc-ccc---ccchHHHHHHHHH
Confidence            357999999999999999999999 888899888887666555433222   22222222 111   1112234456777


Q ss_pred             HccCcEEEEEcCCCCHHH-----HHHhcCCCCCcCcccccccC------CCceEEcCCCCHH-HHHHHHHHhhcCCC---
Q 045345          216 LRYRKVLLIVDAAFDLKQ-----LESLAGKHEWFDEHLLMTHG------VDEVHKLKVLHDD-EALQLFCKQAFKTN---  280 (445)
Q Consensus       216 l~~~~~LlVlDdv~~~~~-----l~~l~~~~~~~~~~vl~t~~------~~~~~~l~~L~~~-ea~~Lf~~~a~~~~---  280 (445)
                      ..+++.++|+||......     +..+.....  ...++.|.+      .+..+.+++|+.. ++.++|...+....   
T Consensus        85 ~~~rr~llvldncehl~~~~a~~i~all~~~~--~~~~~atsre~~l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f  162 (414)
T COG3903          85 IGDRRALLVLDNCEHLLDACAALIVALLGACP--RLAILATSREAILVAGEVHRRVPSLSLFDEAIELFVCRAVLVALSF  162 (414)
T ss_pred             HhhhhHHHHhcCcHHHHHHHHHHHHHHHccch--hhhhHHHhHhhhcccccccccCCccccCCchhHHHHHHHHHhccce
Confidence            788999999999876532     333333333  223333332      3456788888876 79999887663221   


Q ss_pred             CCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCCCHHHHHHHHHH----Hhc------CCchhHHHHHHHhhcCCcHhHH
Q 045345          281 QPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKR----LER------ESENEILDILKISFDGLRETEK  350 (445)
Q Consensus       281 ~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~----l~~------~~~~~i~~~l~~s~~~L~~~~k  350 (445)
                      ............|++...|.||+|..+++..+.....+....+..    +..      .........+..||.-|+..++
T Consensus       163 ~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe~  242 (414)
T COG3903         163 WLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWER  242 (414)
T ss_pred             eecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHHH
Confidence            122344567888999999999999999999887554443333222    222      1135667889999999999999


Q ss_pred             HHHhhhhccCCCCCHHHHHHHHHhC-----CCCchhcHHHHhhcCceEEcc---CCeEEccHHHHHHHHHHHhhc
Q 045345          351 KIFLDIACFYRGEDRDYVTKIIDYC-----DFDPVIGIRVLIDKSLIEISN---GNRLRMHNLLQEMGQQIVKRQ  417 (445)
Q Consensus       351 ~~~~~la~f~~~~~~~~l~~~~~~~-----~~~~~~~l~~L~~~sLi~~~~---~~~~~mHdlvr~~ar~~~~~e  417 (445)
                      -.|..++.|..+|..+.........     .+.....+-.|+++|++...+   .-+|+.-.-++.|+.+.+.+.
T Consensus       243 ~~~~rLa~~~g~f~~~l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~  317 (414)
T COG3903         243 ALFGRLAVFVGGFDLGLALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRS  317 (414)
T ss_pred             HHhcchhhhhhhhcccHHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999998887333332222     222344677899999987543   234666666777776666544

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.98  E-value=1.5e-08  Score=100.74  Aligned_cols=170  Identities=21%  Similarity=0.256  Sum_probs=99.0

Q ss_pred             cccccccccchhHHH---HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWNT---LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~---l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....++||.+..+..   |..++..  .....+.|+|++|+||||||+.+++.....|..   +..   .  ..+... .
T Consensus         9 ~~l~d~vGq~~~v~~~~~L~~~i~~--~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~---l~a---~--~~~~~~-i   77 (413)
T PRK13342          9 KTLDEVVGQEHLLGPGKPLRRMIEA--GRLSSMILWGPPGTGKTTLARIIAGATDAPFEA---LSA---V--TSGVKD-L   77 (413)
T ss_pred             CCHHHhcCcHHHhCcchHHHHHHHc--CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEE---Eec---c--cccHHH-H
Confidence            345679999888766   7777763  345578899999999999999999876544321   110   0  011111 1


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHH-HccCcEEEEEcCCCCH--HHHHHhcCCCCCcCccccc-cc-----------
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSR-LRYRKVLLIVDAAFDL--KQLESLAGKHEWFDEHLLM-TH-----------  252 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~--~~l~~l~~~~~~~~~~vl~-t~-----------  252 (445)
                      ..++                  ...... ..+++.+|+||+++..  .+.+.++.........++. |+           
T Consensus        78 r~ii------------------~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~~~iilI~att~n~~~~l~~aL  139 (413)
T PRK13342         78 REVI------------------EEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVEDGTITLIGATTENPSFEVNPAL  139 (413)
T ss_pred             HHHH------------------HHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhcCcEEEEEeCCCChhhhccHHH
Confidence            1111                  111111 1457789999999844  3444443222111111110 11           


Q ss_pred             -CCCceEEcCCCCHHHHHHHHHHhhcCCCC-CchHHHHHHHHHHHHhCCChHHHHHHHH
Q 045345          253 -GVDEVHKLKVLHDDEALQLFCKQAFKTNQ-PWKEYEQLSKYVVKYSGGLPLALKVLGS  309 (445)
Q Consensus       253 -~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~GlPLal~~~~~  309 (445)
                       .....+.+.+|+.++..+++.+.+..... ...-..+....|++.++|.|..+..+..
T Consensus       140 ~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le  198 (413)
T PRK13342        140 LSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLE  198 (413)
T ss_pred             hccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence             01256899999999999999876532111 0022346678899999999987654443

>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo

Probab=98.96  E-value=1.5e-10  Score=97.42  Aligned_cols=73  Identities=34%  Similarity=0.523  Sum_probs=61.1

Q ss_pred             CCCCChhhHHHHHHHHhchhcCCCccEEEeeeccCCCcccc-cccchHHHHHHHhHHhhhhc--HHHHHHHHHHHH
Q 045345            1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVR-KQTASFGEAFSKHEETFRMN--IEKVQKWRDALK   73 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~~~~~~~~~v~Pvfy~v~ps~vr-~~~~~~~~~~~~~~~~~~~~--~~~~~~w~~al~   73 (445)
                      ||++|.||+.||..+++|..+.+...+|+||||+|.|++++ .+.+.|...|..+.......  ..+...|++++.
T Consensus        65 ~y~~s~wc~~el~~a~~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~  140 (141)
T PF01582_consen   65 NYLSSEWCLFELQEALERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY  140 (141)
T ss_dssp             HHHHHTHHHHHHHHHHHHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred             ccccccchhhhhhhhhhhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence            58999999999999999997755348999999999999999 79999999998876665543  457889998864

In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.88  E-value=4.5e-08  Score=101.29  Aligned_cols=273  Identities=15%  Similarity=0.069  Sum_probs=145.3

Q ss_pred             cccccccccchhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHhhccCc-----cc--cceeeehhhhhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-----FE--ASSFLANVREISEK  180 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-----f~--~~~~~~~~~~~~~~  180 (445)
                      ..|+.+.||+.++++|...|..   ++....++-|+|++|.|||++++.+.+.+...     .+  ..+++.    ....
T Consensus       752 YVPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYIN----Cm~L  827 (1164)
T PTZ00112        752 VVPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEIN----GMNV  827 (1164)
T ss_pred             cCCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEe----CCcc
Confidence            4567899999999999988864   22233567799999999999999998876322     12  123443    2233


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHc---cCcEEEEEcCCCCHH-----HHHHhcCCCCCcC-------
Q 045345          181 GGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLR---YRKVLLIVDAAFDLK-----QLESLAGKHEWFD-------  245 (445)
Q Consensus       181 ~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~---~~~~LlVlDdv~~~~-----~l~~l~~~~~~~~-------  245 (445)
                      .....+...|..++.+..+............+...+.   ....+||||+++...     .+-.+.......+       
T Consensus       828 stp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIG  907 (1164)
T PTZ00112        828 VHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIA  907 (1164)
T ss_pred             CCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEE
Confidence            4556667777777754443333333344444444442   234689999997432     1222211100001       


Q ss_pred             ------------cccccccCCCceEEcCCCCHHHHHHHHHHhhcCC--CCCchHHHHHHHHHHHHhCCChHHHHHHHHhh
Q 045345          246 ------------EHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKT--NQPWKEYEQLSKYVVKYSGGLPLALKVLGSFL  311 (445)
Q Consensus       246 ------------~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~--~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  311 (445)
                                  .++....+ ...+..++++.++-.+++..++-..  ...+...+-+|+.++...|-.=.||.++-...
T Consensus       908 ISNdlDLperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        908 ISNTMDLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             ecCchhcchhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence                        11111111 1235678899999999998877421  12223333333434444455555665554333


Q ss_pred             CC--C---CHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccCC-----CCCHHHHHH----HHH----
Q 045345          312 YG--K---TTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYR-----GEDRDYVTK----IID----  373 (445)
Q Consensus       312 ~~--~---~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~-----~~~~~~l~~----~~~----  373 (445)
                      ..  .   ..+....+...+.       ...+......||.+.|.+|..+.....     +++...+-.    +..    
T Consensus       987 EikegskVT~eHVrkAleeiE-------~srI~e~IktLPlHqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce~~Gk 1059 (1164)
T PTZ00112        987 ENKRGQKIVPRDITEATNQLF-------DSPLTNAINYLPWPFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVETSGK 1059 (1164)
T ss_pred             hhcCCCccCHHHHHHHHHHHH-------hhhHHHHHHcCCHHHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHHhhhh
Confidence            21  1   1222333333221       122344456788888877765543322     133322222    222    


Q ss_pred             hCCCC-----chhcHHHHhhcCceEEc
Q 045345          374 YCDFD-----PVIGIRVLIDKSLIEIS  395 (445)
Q Consensus       374 ~~~~~-----~~~~l~~L~~~sLi~~~  395 (445)
                      .-|.+     ....|.+|...|+|.+.
T Consensus      1060 ~iGv~plTqRV~d~L~eL~~LGIIl~e 1086 (1164)
T PTZ00112       1060 YIGMCSNNELFKIMLDKLVKMGILLIR 1086 (1164)
T ss_pred             hcCCCCcHHHHHHHHHHHHhcCeEEec
Confidence            11222     23357889999998865

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

Probab=98.87  E-value=1.8e-08  Score=95.24  Aligned_cols=160  Identities=24%  Similarity=0.292  Sum_probs=93.1

Q ss_pred             ccccccchhH---HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          114 KDLVGMDSCW---NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       114 ~~~vGr~~~l---~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      +++||.+.-+   .-|..++.  ++......+||++|+||||||+.++......|...-=+        ..++.+     
T Consensus        24 de~vGQ~HLlg~~~~lrr~v~--~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv--------~~gvkd-----   88 (436)
T COG2256          24 DEVVGQEHLLGEGKPLRRAVE--AGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAV--------TSGVKD-----   88 (436)
T ss_pred             HHhcChHhhhCCCchHHHHHh--cCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccc--------cccHHH-----
Confidence            4455544433   22333333  34566677999999999999999998766655431111        112222     


Q ss_pred             HHHHhCCCCCCCcChhhhHHHH-HHHHccCcEEEEEcCCC--CHHHHHHhcCCCCCcCccccc--ccC------------
Q 045345          191 LSELLKLPDTSTWNVYDGLKMI-GSRLRYRKVLLIVDAAF--DLKQLESLAGKHEWFDEHLLM--THG------------  253 (445)
Q Consensus       191 l~~l~~~~~~~~~~~~~~~~~l-~~~l~~~~~LlVlDdv~--~~~~l~~l~~~~~~~~~~vl~--t~~------------  253 (445)
                                    +...++.- .....+++.+|++|.|+  +..|-+.+++..... ..+++  |+.            
T Consensus        89 --------------lr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE~G-~iilIGATTENPsF~ln~ALlS  153 (436)
T COG2256          89 --------------LREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVENG-TIILIGATTENPSFELNPALLS  153 (436)
T ss_pred             --------------HHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhhcCC-eEEEEeccCCCCCeeecHHHhh
Confidence                          12222222 23345789999999997  556666676554432 11111  111            


Q ss_pred             CCceEEcCCCCHHHHHHHHHHhhcCCC-----CCchHHHHHHHHHHHHhCCChHH
Q 045345          254 VDEVHKLKVLHDDEALQLFCKQAFKTN-----QPWKEYEQLSKYVVKYSGGLPLA  303 (445)
Q Consensus       254 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~-----~~~~~~~~~~~~i~~~~~GlPLa  303 (445)
                      ...++.+++|+.++-.+++.+.+....     ....-.+++...++..++|=-.+
T Consensus       154 R~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~  208 (436)
T COG2256         154 RARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARR  208 (436)
T ss_pred             hhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHH
Confidence            235789999999999999988432211     11112345667788888886543

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

Probab=98.86  E-value=3.7e-07  Score=88.54  Aligned_cols=272  Identities=17%  Similarity=0.113  Sum_probs=159.7

Q ss_pred             cccccccccchhHHHHHhhhcc--CCCCeEEEEEEccCCCchhHHHHHHHhhccCcccc--ceeeehhhhhhccCCHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK--EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEA--SSFLANVREISEKGGLICL  186 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~l  186 (445)
                      ..|..+.+|+.+++++...|..  ......-+.|+|.+|+|||+.++.+++++......  .+++.    .....+...+
T Consensus        14 ~iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yIN----c~~~~t~~~i   89 (366)
T COG1474          14 YIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYIN----CLELRTPYQV   89 (366)
T ss_pred             CCcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEe----eeeCCCHHHH
Confidence            3455699999999999988764  22223348899999999999999999987665443  35665    4556778888


Q ss_pred             HHHHHHHHhCCCCCCCcChhhhHHHHHHHHc--cCcEEEEEcCCCCHH-----HHHHhcCCCCCc---------------
Q 045345          187 QKQLLSELLKLPDTSTWNVYDGLKMIGSRLR--YRKVLLIVDAAFDLK-----QLESLAGKHEWF---------------  244 (445)
Q Consensus       187 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~-----~l~~l~~~~~~~---------------  244 (445)
                      ...++..++..+. ......+....+.+.+.  ++.+++|||+++...     .+-.+.......               
T Consensus        90 ~~~i~~~~~~~p~-~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~  168 (366)
T COG1474          90 LSKILNKLGKVPL-TGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKF  168 (366)
T ss_pred             HHHHHHHcCCCCC-CCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHH
Confidence            8899998873332 33444555666666664  478999999997432     222333222211               


Q ss_pred             ----CcccccccCCCceEEcCCCCHHHHHHHHHHhh---cCCCCCchHHHHHHHHHHHHhCC-ChHHHHHHH--HhhCCC
Q 045345          245 ----DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQA---FKTNQPWKEYEQLSKYVVKYSGG-LPLALKVLG--SFLYGK  314 (445)
Q Consensus       245 ----~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a---~~~~~~~~~~~~~~~~i~~~~~G-lPLal~~~~--~~L~~~  314 (445)
                          +.++-...+. ..+..+|-+.+|-.+.+..++   |......+..-+++..++...+| -=.||..+-  +.++++
T Consensus       169 ~~~ld~rv~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~  247 (366)
T COG1474         169 LDYLDPRVKSSLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAER  247 (366)
T ss_pred             HHHhhhhhhhccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHh
Confidence                1122212111 236778888888888887766   34444444444555555555554 333443332  222220


Q ss_pred             ------CHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccCCCCCHHHHHHHH----HhCCC---Cchh
Q 045345          315 ------TTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYVTKII----DYCDF---DPVI  381 (445)
Q Consensus       315 ------~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~~~~~~~l~~~~----~~~~~---~~~~  381 (445)
                            +.+.-..+....       -...+.-.+..|+.+++..+..++..-.++....+-...    ...+.   ....
T Consensus       248 ~~~~~v~~~~v~~a~~~~-------~~~~~~~~~~~L~~~~ki~L~~i~~~~~~~~~~~~y~~y~~~~~~~~~~~~~~~~  320 (366)
T COG1474         248 EGSRKVSEDHVREAQEEI-------ERDVLEEVLKTLPLHQKIVLLAIVELTVEISTGELYDVYESLCERLRTSQRRFSD  320 (366)
T ss_pred             hCCCCcCHHHHHHHHHHh-------hHHHHHHHHHcCCHhHHHHHHHHHHhcCCCChHHHHHHHHHHHhhhCchHHHHHH
Confidence                  111111111111       122334447888888888877766654445544443332    22333   2234


Q ss_pred             cHHHHhhcCceEEc
Q 045345          382 GIRVLIDKSLIEIS  395 (445)
Q Consensus       382 ~l~~L~~~sLi~~~  395 (445)
                      .+..|...|+|...
T Consensus       321 ii~~L~~lgiv~~~  334 (366)
T COG1474         321 IISELEGLGIVSAS  334 (366)
T ss_pred             HHHHHHhcCeEEee
Confidence            68889999999854

>PF05729 NACHT: NACHT domain

Probab=98.85  E-value=1.6e-08  Score=87.26  Aligned_cols=131  Identities=23%  Similarity=0.294  Sum_probs=73.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCcc------ccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHH
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEF------EASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKM  211 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~  211 (445)
                      |++.|+|.+|+||||+++.++..+....      ...+|+. .+..........+...+.......    ......   .
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~----~~~~~~---~   72 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFS-LRDISDSNNSRSLADLLFDQLPES----IAPIEE---L   72 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEe-ehhhhhccccchHHHHHHHhhccc----hhhhHH---H
Confidence            5789999999999999999998754443      2233333 333332222223333333332211    111111   1


Q ss_pred             HHH-HHccCcEEEEEcCCCCHHH-------------HHHhcCCCCCcCcccccccCC------------CceEEcCCCCH
Q 045345          212 IGS-RLRYRKVLLIVDAAFDLKQ-------------LESLAGKHEWFDEHLLMTHGV------------DEVHKLKVLHD  265 (445)
Q Consensus       212 l~~-~l~~~~~LlVlDdv~~~~~-------------l~~l~~~~~~~~~~vl~t~~~------------~~~~~l~~L~~  265 (445)
                      +.. ....++++||||++++...             +..+......-+.+++++++.            ...+++.+|+.
T Consensus        73 ~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~  152 (166)
T PF05729_consen   73 LQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSE  152 (166)
T ss_pred             HHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCH
Confidence            222 2257899999999974432             333333311114445555432            23589999999


Q ss_pred             HHHHHHHHHhh
Q 045345          266 DEALQLFCKQA  276 (445)
Q Consensus       266 ~ea~~Lf~~~a  276 (445)
                      ++..+++.+..
T Consensus       153 ~~~~~~~~~~f  163 (166)
T PF05729_consen  153 EDIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHHh
Confidence            99999987654

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

Probab=98.80  E-value=1.9e-08  Score=88.63  Aligned_cols=50  Identities=30%  Similarity=0.405  Sum_probs=35.2

Q ss_pred             cccccchhHHHHHhhhcc-CCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          115 DLVGMDSCWNTLRFLMDK-EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .||||+.+++++...|.. .....+.+.|+|++|+|||+|.++++..+...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            489999999999999953 33446899999999999999999999887665

>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=98.73  E-value=2.3e-07  Score=82.03  Aligned_cols=168  Identities=20%  Similarity=0.201  Sum_probs=89.4

Q ss_pred             ccccccccchhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ..++|||.+.-+..+.-++..   .......+.+||++|+||||||.-+++.....|.   +..      . ..+     
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~---~~s------g-~~i-----   86 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFK---ITS------G-PAI-----   86 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EE---EEE------C-CC------
T ss_pred             CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeE---ecc------c-hhh-----
Confidence            457899999999888766542   2334677889999999999999999998877663   121      0 000     


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHhcCCCCCc-----------Cc---------
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESLAGKHEWF-----------DE---------  246 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l~~~~~~~-----------~~---------  246 (445)
                                    ....++...+ ..+ +++-+|.+|+++..  .+-+.+.+....+           .+         
T Consensus        87 --------------~k~~dl~~il-~~l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~F  150 (233)
T PF05496_consen   87 --------------EKAGDLAAIL-TNL-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPF  150 (233)
T ss_dssp             ---------------SCHHHHHHH-HT---TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----
T ss_pred             --------------hhHHHHHHHH-Hhc-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCc
Confidence                          0011111111 112 24457888999743  3333332211111           00         


Q ss_pred             -cccccc-----------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhC
Q 045345          247 -HLLMTH-----------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLY  312 (445)
Q Consensus       247 -~vl~t~-----------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~  312 (445)
                       -+-.|+           +..-+.+++..+.+|-.++..+.+..-+.  +-..+.+.+|+..+.|-|.-..-+-..++
T Consensus       151 TligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i--~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  151 TLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNI--EIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT---EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             eEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCC--CcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence             000111           12234589999999999999877733332  23457789999999999976655544443

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=98.72  E-value=2.7e-07  Score=84.25  Aligned_cols=170  Identities=14%  Similarity=0.153  Sum_probs=93.0

Q ss_pred             CCCccccccccccchhHHHHHhhhcc-CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHH
Q 045345          107 PAKSEIFKDLVGMDSCWNTLRFLMDK-EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLIC  185 (445)
Q Consensus       107 ~~~~~~~~~~vGr~~~l~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~  185 (445)
                      ..+....++|+|-+... .+..+... .....+.+.|+|++|+|||+|+.++++....+...+.|+..    ...   ..
T Consensus         9 ~~~~~~fd~f~~~~~~~-~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~----~~~---~~   80 (229)
T PRK06893          9 QIDDETLDNFYADNNLL-LLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPL----SKS---QY   80 (229)
T ss_pred             CCCcccccccccCChHH-HHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeH----HHh---hh
Confidence            33445567788654322 22222211 12234678899999999999999999986555555666652    100   00


Q ss_pred             HHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH---HHHH----HhcCCCCCcCccc-cccc-----
Q 045345          186 LQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL---KQLE----SLAGKHEWFDEHL-LMTH-----  252 (445)
Q Consensus       186 l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~l~----~l~~~~~~~~~~v-l~t~-----  252 (445)
                      ....                      +.+.+. +.-+|+|||++..   ..++    .+......-+..+ ++|+     
T Consensus        81 ~~~~----------------------~~~~~~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~  137 (229)
T PRK06893         81 FSPA----------------------VLENLE-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPH  137 (229)
T ss_pred             hhHH----------------------HHhhcc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChH
Confidence            0000                      111111 2348999999753   1221    1111000001121 2222     


Q ss_pred             -------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHH
Q 045345          253 -------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGS  309 (445)
Q Consensus       253 -------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~  309 (445)
                                   +...++++++++.++.++++.+.+......  -.++...-|++.+.|..-.+..+-.
T Consensus       138 ~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l~--l~~~v~~~L~~~~~~d~r~l~~~l~  205 (229)
T PRK06893        138 ALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGIE--LSDEVANFLLKRLDRDMHTLFDALD  205 (229)
T ss_pred             HccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhccCCHHHHHHHHH
Confidence                         223478999999999999999888644322  2235677788888877766654443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.70  E-value=2.7e-07  Score=84.14  Aligned_cols=166  Identities=17%  Similarity=0.204  Sum_probs=91.9

Q ss_pred             cccccccc--cchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          111 EIFKDLVG--MDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       111 ~~~~~~vG--r~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ...++|++  .+..++.+.+++..  ...+.+.|+|++|+|||+||+.+++.........+++. .......      ..
T Consensus        12 ~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~-~~~~~~~------~~   82 (226)
T TIGR03420        12 PTFDNFYAGGNAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLP-LAELAQA------DP   82 (226)
T ss_pred             hhhcCcCcCCcHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe-HHHHHHh------HH
Confidence            34456763  44467777776542  23568889999999999999999987544333444554 1111100      00


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH-------HHHHhcCCCCCcCcccccccC--------
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK-------QLESLAGKHEWFDEHLLMTHG--------  253 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------~l~~l~~~~~~~~~~vl~t~~--------  253 (445)
                      .                      +...+.+ .-+|||||++...       .+-.+.......+..+++++.        
T Consensus        83 ~----------------------~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~  139 (226)
T TIGR03420        83 E----------------------VLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPL  139 (226)
T ss_pred             H----------------------HHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCc
Confidence            1                      1111222 2388899997432       122211100000112222211        


Q ss_pred             ----------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHh
Q 045345          254 ----------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSF  310 (445)
Q Consensus       254 ----------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~  310 (445)
                                ....+++++++.++-..++...+-.....  -..+....|++.++|+|..+..+...
T Consensus       140 ~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~--~~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       140 RLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRGLQ--LPDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             ccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhccCCHHHHHHHHHH
Confidence                      12468899999988888887654222211  22355677888899999877766443

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.

>PTZ00202 tuzin; Provisional

Probab=98.66  E-value=2.9e-07  Score=88.71  Aligned_cols=106  Identities=16%  Similarity=0.198  Sum_probs=72.7

Q ss_pred             CCccccccccccchhHHHHHhhhccCCC-CeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHH
Q 045345          108 AKSEIFKDLVGMDSCWNTLRFLMDKEPY-GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICL  186 (445)
Q Consensus       108 ~~~~~~~~~vGr~~~l~~l~~~L~~~~~-~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l  186 (445)
                      ..|.....|+||+.++.+|...|...+. ..+++.|.|++|+|||||++.+.....    ...++.+.      .+..++
T Consensus       256 ~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNp------rg~eEl  325 (550)
T PTZ00202        256 SAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDV------RGTEDT  325 (550)
T ss_pred             CCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ceEEEECC------CCHHHH
Confidence            4456778999999999999999975332 356999999999999999999987654    22444432      256889


Q ss_pred             HHHHHHHHhCCCCCCCcChhhhHHHHHHHH-----c-cCcEEEEEc
Q 045345          187 QKQLLSELLKLPDTSTWNVYDGLKMIGSRL-----R-YRKVLLIVD  226 (445)
Q Consensus       187 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-----~-~~~~LlVlD  226 (445)
                      +..++.+++......   ..++...+.+.+     . +++.+||+-
T Consensus       326 Lr~LL~ALGV~p~~~---k~dLLrqIqeaLl~~~~e~GrtPVLII~  368 (550)
T PTZ00202        326 LRSVVKALGVPNVEA---CGDLLDFISEACRRAKKMNGETPLLVLK  368 (550)
T ss_pred             HHHHHHHcCCCCccc---HHHHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence            999999998532222   223333333332     2 566666653

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.66  E-value=1.6e-06  Score=84.21  Aligned_cols=188  Identities=15%  Similarity=0.137  Sum_probs=97.4

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcc-cc-ceeeehhhhhhccCCHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF-EA-SSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f-~~-~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      .....++|++..++.+..++..+  ..+.+.|+|++|+||||+|+.+++.+.... .. .+++. ..+.... ....+..
T Consensus        12 ~~~~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~-~~~~~~~-~~~~~~~   87 (337)
T PRK12402         12 ALLEDILGQDEVVERLSRAVDSP--NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFN-VADFFDQ-GKKYLVE   87 (337)
T ss_pred             CcHHHhcCCHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEec-hhhhhhc-chhhhhc
Confidence            34567999999999999988743  344678999999999999999998764332 21 22332 1111000 0000000


Q ss_pred             --HHHHHHhCCCCCCCcChhhhHHHH-HHHH-----ccCcEEEEEcCCCCHH--H---HHHhcCCCCCcCccccccc---
Q 045345          189 --QLLSELLKLPDTSTWNVYDGLKMI-GSRL-----RYRKVLLIVDAAFDLK--Q---LESLAGKHEWFDEHLLMTH---  252 (445)
Q Consensus       189 --~il~~l~~~~~~~~~~~~~~~~~l-~~~l-----~~~~~LlVlDdv~~~~--~---l~~l~~~~~~~~~~vl~t~---  252 (445)
                        .....+........ ........+ ....     ...+-+||+||++...  .   +..++..... +..++.++   
T Consensus        88 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~-~~~~Il~~~~~  165 (337)
T PRK12402         88 DPRFAHFLGTDKRIRS-SKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSR-TCRFIIATRQP  165 (337)
T ss_pred             Ccchhhhhhhhhhhcc-chHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccC-CCeEEEEeCCh
Confidence              00000000000000 001111111 1111     1334589999997442  1   2222221111 11121111   


Q ss_pred             --------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHH
Q 045345          253 --------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKV  306 (445)
Q Consensus       253 --------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  306 (445)
                              .....+++.+++.++..+++...+......  -..+.+..+++.++|.+-.+..
T Consensus       166 ~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~--~~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        166 SKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD--YDDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             hhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence                    112457889999999999888766332222  2245678899999998766543

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

Probab=98.65  E-value=7.9e-08  Score=79.57  Aligned_cols=90  Identities=22%  Similarity=0.220  Sum_probs=62.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc-----cccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE-----FEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKM  211 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~-----f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~  211 (445)
                      .+.+.|+|++|+|||+++..+++.+...     -...+|+.    .........+...++..+...... ..+.......
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~i~~~l~~~~~~-~~~~~~l~~~   78 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVN----CPSSRTPRDFAQEILEALGLPLKS-RQTSDELRSL   78 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEE----HHHHSSHHHHHHHHHHHHT-SSSS-TS-HHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEE----eCCCCCHHHHHHHHHHHhCccccc-cCCHHHHHHH
Confidence            4688999999999999999999876442     23455666    444447888899999988754433 3456666777


Q ss_pred             HHHHHccCcE-EEEEcCCCCH
Q 045345          212 IGSRLRYRKV-LLIVDAAFDL  231 (445)
Q Consensus       212 l~~~l~~~~~-LlVlDdv~~~  231 (445)
                      +.+.+...+. +||+|+++..
T Consensus        79 ~~~~l~~~~~~~lviDe~~~l   99 (131)
T PF13401_consen   79 LIDALDRRRVVLLVIDEADHL   99 (131)
T ss_dssp             HHHHHHHCTEEEEEEETTHHH
T ss_pred             HHHHHHhcCCeEEEEeChHhc
Confidence            7777776554 9999999875

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.65  E-value=2.2e-06  Score=82.44  Aligned_cols=173  Identities=15%  Similarity=0.106  Sum_probs=96.1

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....+++|++..++.+..++..+  ..+.+.|+|++|+||||+|+.+++.+........++. +. .+...+...+. ..
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~~--~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~-~~-~~~~~~~~~~~-~~   88 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKEK--NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLE-LN-ASDERGIDVIR-NK   88 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEE-ec-cccccchHHHH-HH
Confidence            34567999999999999988743  3345789999999999999999987533211111221 00 11111111111 11


Q ss_pred             HHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--H---HHHHhcCCCCCcCcccccccC----------CC
Q 045345          191 LSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--K---QLESLAGKHEWFDEHLLMTHG----------VD  255 (445)
Q Consensus       191 l~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~---~l~~l~~~~~~~~~~vl~t~~----------~~  255 (445)
                      +..+....+               .....+-+|++|+++..  +   .+..+.........-++++..          ..
T Consensus        89 i~~~~~~~~---------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~  153 (319)
T PRK00440         89 IKEFARTAP---------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRC  153 (319)
T ss_pred             HHHHHhcCC---------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHh
Confidence            111110000               00123568999998743  2   233332221111112222211          12


Q ss_pred             ceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHH
Q 045345          256 EVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       256 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  305 (445)
                      ..+++.+++.++....+...+...+..  -..+.+..+++.++|.+.-+.
T Consensus       154 ~~~~~~~l~~~ei~~~l~~~~~~~~~~--i~~~al~~l~~~~~gd~r~~~  201 (319)
T PRK00440        154 AVFRFSPLKKEAVAERLRYIAENEGIE--ITDDALEAIYYVSEGDMRKAI  201 (319)
T ss_pred             heeeeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            357899999999988888776433321  123567889999999987643

>PLN03025 replication factor C subunit; Provisional

Probab=98.63  E-value=4.3e-06  Score=80.37  Aligned_cols=173  Identities=16%  Similarity=0.139  Sum_probs=95.2

Q ss_pred             ccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc-cCccccceeeehhhhhhccCCHHHHHH
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS-SHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~-~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      |....+++|.+..++.|..++..+  ..+.+.++|++|+||||+|..+++.+ ...|...+.-.+   .+...+... .+
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln---~sd~~~~~~-vr   82 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARDG--NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELN---ASDDRGIDV-VR   82 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeec---ccccccHHH-HH
Confidence            345577999999999998887643  34457799999999999999999875 333322111111   111112221 11


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HH---HHHhcCCCCCcCcccccccC----------
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQ---LESLAGKHEWFDEHLLMTHG----------  253 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~---l~~l~~~~~~~~~~vl~t~~----------  253 (445)
                      .++.........              ...++.-++|||+++..  ..   +............-++++..          
T Consensus        83 ~~i~~~~~~~~~--------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~S  148 (319)
T PLN03025         83 NKIKMFAQKKVT--------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQS  148 (319)
T ss_pred             HHHHHHHhcccc--------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHH
Confidence            111111100000              00134669999999843  22   22222221110111111111          


Q ss_pred             CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          254 VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       254 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                      ....+++++++.++..+.+...+-..+..-  ..+....|++.++|-...+
T Consensus       149 Rc~~i~f~~l~~~~l~~~L~~i~~~egi~i--~~~~l~~i~~~~~gDlR~a  197 (319)
T PLN03025        149 RCAIVRFSRLSDQEILGRLMKVVEAEKVPY--VPEGLEAIIFTADGDMRQA  197 (319)
T ss_pred             hhhcccCCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHH
Confidence            124688999999999988887764333221  1355778899998877544

>PRK04195 replication factor C large subunit; Provisional

Probab=98.61  E-value=2.1e-06  Score=87.19  Aligned_cols=171  Identities=17%  Similarity=0.156  Sum_probs=99.9

Q ss_pred             cccccccccchhHHHHHhhhccC--CCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKE--PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ....+++|.+..++.|..++..-  ....+.+.|+|++|+||||+|..+++.+.  |+ .+-+.    .+...... ...
T Consensus        11 ~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~--~~-~ieln----asd~r~~~-~i~   82 (482)
T PRK04195         11 KTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG--WE-VIELN----ASDQRTAD-VIE   82 (482)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC--CC-EEEEc----ccccccHH-HHH
Confidence            44577999999999999988642  11267899999999999999999999763  22 11121    12211111 222


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH------HHHHh---cCCCCCcCccccccc-------
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK------QLESL---AGKHEWFDEHLLMTH-------  252 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~------~l~~l---~~~~~~~~~~vl~t~-------  252 (445)
                      .++.......               .....++-+||||+++...      .+..+   +....  ...++++.       
T Consensus        83 ~~i~~~~~~~---------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~~--~~iIli~n~~~~~~~  145 (482)
T PRK04195         83 RVAGEAATSG---------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKKAK--QPIILTANDPYDPSL  145 (482)
T ss_pred             HHHHHhhccC---------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHcCC--CCEEEeccCccccch
Confidence            2222211100               0011367799999997542      12222   22111  11111111       


Q ss_pred             ----CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          253 ----GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       253 ----~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                          .....+++.+++.++....+...+.......  ..+....|++.++|....+....
T Consensus       146 k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i--~~eaL~~Ia~~s~GDlR~ain~L  203 (482)
T PRK04195        146 RELRNACLMIEFKRLSTRSIVPVLKRICRKEGIEC--DDEALKEIAERSGGDLRSAINDL  203 (482)
T ss_pred             hhHhccceEEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHHH
Confidence                1235688999999999988887764333221  24667889999998777654433

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=2.7e-06  Score=89.48  Aligned_cols=187  Identities=19%  Similarity=0.125  Sum_probs=100.7

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-c-c-cceeeehh-hhhhccCCHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-F-E-ASSFLANV-REISEKGGLICL  186 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f-~-~~~~~~~~-~~~~~~~~~~~l  186 (445)
                      ....++||-+..++.|...+..+. =...+.++|++|+||||+|+.+++.+... . . ..|..+.. ..+..... .. 
T Consensus        13 ~tFddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~-~D-   89 (944)
T PRK14949         13 ATFEQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRF-VD-   89 (944)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCC-ce-
Confidence            445789999999999999887432 13456899999999999999999875432 1 0 01111100 00000000 00 


Q ss_pred             HHHHHHHHhCCCCCCCcChhhhHHHHHH-HHccCcEEEEEcCCCCH--HHHHHhcC---C-CCC--c------Ccccccc
Q 045345          187 QKQLLSELLKLPDTSTWNVYDGLKMIGS-RLRYRKVLLIVDAAFDL--KQLESLAG---K-HEW--F------DEHLLMT  251 (445)
Q Consensus       187 ~~~il~~l~~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~--~~l~~l~~---~-~~~--~------~~~vl~t  251 (445)
                          +..+.........++......+.. -..++.-++|||+++..  ...+.|+.   . ...  |      ...++.|
T Consensus        90 ----viEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~T  165 (944)
T PRK14949         90 ----LIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVT  165 (944)
T ss_pred             ----EEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHH
Confidence                000000000011111111111111 12356779999999743  44444432   1 111  1      2222222


Q ss_pred             c-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHH
Q 045345          252 H-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKV  306 (445)
Q Consensus       252 ~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  306 (445)
                      . .....|++++|+.++..+.+.+.+-....  ....+.+..|++.++|.|.-+..
T Consensus       166 IlSRCq~f~fkpLs~eEI~~~L~~il~~EgI--~~edeAL~lIA~~S~Gd~R~ALn  219 (944)
T PRK14949        166 VLSRCLQFNLKSLTQDEIGTQLNHILTQEQL--PFEAEALTLLAKAANGSMRDALS  219 (944)
T ss_pred             HHHhheEEeCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHH
Confidence            1 12367899999999999988876633221  12345678899999998864433

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

Probab=98.59  E-value=3.8e-06  Score=88.38  Aligned_cols=165  Identities=22%  Similarity=0.277  Sum_probs=94.2

Q ss_pred             cccccccccchhHH---HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWN---TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~---~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....+|+|.+..+.   .+...+..  +....+.|+|++|+||||||+.+++.....|.   .+..   ..  .++..  
T Consensus        25 ~tldd~vGQe~ii~~~~~L~~~i~~--~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~---~lna---~~--~~i~d--   92 (725)
T PRK13341         25 RTLEEFVGQDHILGEGRLLRRAIKA--DRVGSLILYGPPGVGKTTLARIIANHTRAHFS---SLNA---VL--AGVKD--   92 (725)
T ss_pred             CcHHHhcCcHHHhhhhHHHHHHHhc--CCCceEEEECCCCCCHHHHHHHHHHHhcCcce---eehh---hh--hhhHH--
Confidence            44567999998874   46666653  34556789999999999999999987655442   1110   00  01111  


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHHH--ccCcEEEEEcCCCC--HHHHHHhcCCCCCcCccccc--ccC--------
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSRL--RYRKVLLIVDAAFD--LKQLESLAGKHEWFDEHLLM--THG--------  253 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~--~~~l~~l~~~~~~~~~~vl~--t~~--------  253 (445)
                                       ...........+  .+++.+|||||++.  ..+.+.+++.... ...+++  |+.        
T Consensus        93 -----------------ir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE~-g~IiLI~aTTenp~~~l~~  154 (725)
T PRK13341         93 -----------------LRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVEN-GTITLIGATTENPYFEVNK  154 (725)
T ss_pred             -----------------HHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhcC-ceEEEEEecCCChHhhhhh
Confidence                             111111111111  24667999999974  3444444432221 111111  110        


Q ss_pred             ----CCceEEcCCCCHHHHHHHHHHhhcC-----CCCCchHHHHHHHHHHHHhCCChHHHH
Q 045345          254 ----VDEVHKLKVLHDDEALQLFCKQAFK-----TNQPWKEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       254 ----~~~~~~l~~L~~~ea~~Lf~~~a~~-----~~~~~~~~~~~~~~i~~~~~GlPLal~  305 (445)
                          ...++.+++|+.++...++.+.+-.     ......-.++....|++.+.|....+.
T Consensus       155 aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~ll  215 (725)
T PRK13341        155 ALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLL  215 (725)
T ss_pred             HhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHH
Confidence                1346899999999999998876531     011112234567888899988765443

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.57  E-value=6.4e-06  Score=85.16  Aligned_cols=185  Identities=16%  Similarity=0.161  Sum_probs=99.2

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||.+..++.|..++..+. -...+.++|..|+||||+|+.+++.+...-..    .     ....+.......+
T Consensus        13 qtFdEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~----~-----~~PCG~C~sCr~I   82 (830)
T PRK07003         13 KDFASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETGV----T-----SQPCGVCRACREI   82 (830)
T ss_pred             CcHHHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccCC----C-----CCCCcccHHHHHH
Confidence            455789999999999999987432 24566799999999999999999865321000    0     0000000011111


Q ss_pred             HHH----HhCCCCCCCcChhhhHHHHHHH----HccCcEEEEEcCCCCHH--HHHHhcC---C-CCC--c------Cccc
Q 045345          191 LSE----LLKLPDTSTWNVYDGLKMIGSR----LRYRKVLLIVDAAFDLK--QLESLAG---K-HEW--F------DEHL  248 (445)
Q Consensus       191 l~~----l~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~~--~l~~l~~---~-~~~--~------~~~v  248 (445)
                      ...    +......+....++....+...    ..++.-++|||+++...  .++.|+.   . ...  |      ..++
T Consensus        83 ~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KI  162 (830)
T PRK07003         83 DEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKI  162 (830)
T ss_pred             hcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhc
Confidence            000    0000000111112211111111    12355689999998542  2333332   1 111  1      1222


Q ss_pred             cccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCCh-HHHHHH
Q 045345          249 LMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLP-LALKVL  307 (445)
Q Consensus       249 l~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlP-Lal~~~  307 (445)
                      +.|. .....++++.|+.++..+.+.+.+......  -..+....|++.++|.. -+|..+
T Consensus       163 p~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~--id~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        163 PVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIA--FEPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             cchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2221 123568999999999999998876333221  22456778999998865 455553

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=7.3e-06  Score=83.00  Aligned_cols=179  Identities=16%  Similarity=0.134  Sum_probs=101.3

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc--Cccccceeeehhhh-hhc--cCCHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS--HEFEASSFLANVRE-ISE--KGGLIC  185 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~--~~f~~~~~~~~~~~-~~~--~~~~~~  185 (445)
                      ....+++|-+...+.|..++..+. -...+.++|++|+||||+|+.+++.+.  ..+...|+.+.... +..  ..++. 
T Consensus        11 ~~~~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~-   88 (504)
T PRK14963         11 ITFDEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVL-   88 (504)
T ss_pred             CCHHHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceE-
Confidence            345679999999999988887532 234668999999999999999998753  22333455432110 000  00000 


Q ss_pred             HHHHHHHHHhCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhcCC---CCCcCccccccc---
Q 045345          186 LQKQLLSELLKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLAGK---HEWFDEHLLMTH---  252 (445)
Q Consensus       186 l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~~~---~~~~~~~vl~t~---  252 (445)
                             .+.   .......+. +..+...+     .+++-++|||+++..  ..++.++..   ......-++.+.   
T Consensus        89 -------el~---~~~~~~vd~-iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~  157 (504)
T PRK14963         89 -------EID---AASNNSVED-VRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPE  157 (504)
T ss_pred             -------Eec---ccccCCHHH-HHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChh
Confidence                   000   000111111 11222222     245668999999843  334444321   111001111111   


Q ss_pred             -------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          253 -------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       253 -------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                             .....+++.+++.++..+.+.+.+-..+...  ..+.+..|++.++|.+.-+
T Consensus       158 kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i--~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        158 KMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREA--EPEALQLVARLADGAMRDA  214 (504)
T ss_pred             hCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHH
Confidence                   1235689999999999999988774333221  2456788999999998655

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.54  E-value=1.3e-05  Score=78.50  Aligned_cols=178  Identities=16%  Similarity=0.179  Sum_probs=96.4

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccc---cceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE---ASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~---~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....+++|.+..++.+...+..+. -...+.++|++|+||||+|+.+++.+.....   ..|-.+            ...
T Consensus        13 ~~~~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c------------~~c   79 (363)
T PRK14961         13 QYFRDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKC------------IIC   79 (363)
T ss_pred             CchhhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCC------------HHH
Confidence            445789999999999998887432 2456789999999999999999987532110   001000            000


Q ss_pred             HHHHHH----HhCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCHH--HHHHhcC---CCCCcCccccccc-
Q 045345          188 KQLLSE----LLKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDLK--QLESLAG---KHEWFDEHLLMTH-  252 (445)
Q Consensus       188 ~~il~~----l~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~l~~l~~---~~~~~~~~vl~t~-  252 (445)
                      .++...    +...........++ ...+.+.+     .+++-++|+|+++...  ..+.++.   ..+..-.-+++++ 
T Consensus        80 ~~~~~~~~~d~~~~~~~~~~~v~~-ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~  158 (363)
T PRK14961         80 KEIEKGLCLDLIEIDAASRTKVEE-MREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTD  158 (363)
T ss_pred             HHHhcCCCCceEEecccccCCHHH-HHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCC
Confidence            011000    00000000011111 11222222     2345699999998543  2333331   1111001111111 


Q ss_pred             ---------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          253 ---------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       253 ---------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                               .....+++.+++.++..+.+...+...+..  -.++.+..|++.++|.|..+
T Consensus       159 ~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~--i~~~al~~ia~~s~G~~R~a  217 (363)
T PRK14961        159 VEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESID--TDEYALKLIAYHAHGSMRDA  217 (363)
T ss_pred             hHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence                     113568999999999998888766332211  12356778999999988643

>PF14516 AAA_35: AAA-like domain

Probab=98.52  E-value=6.9e-05  Score=72.27  Aligned_cols=194  Identities=11%  Similarity=0.094  Sum_probs=112.8

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhc--cCCHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE--KGGLICLQK  188 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~l~~  188 (445)
                      ...+.+|+|...-+++.+.+...   ...+.|.|+-.+|||+|...+.+.....--.+++++ +.....  ..+......
T Consensus         8 ~~~~~Yi~R~~~e~~~~~~i~~~---G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id-~~~~~~~~~~~~~~f~~   83 (331)
T PF14516_consen    8 LDSPFYIERPPAEQECYQEIVQP---GSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYID-LQQLGSAIFSDLEQFLR   83 (331)
T ss_pred             CCCCcccCchHHHHHHHHHHhcC---CCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEE-eecCCCcccCCHHHHHH
Confidence            34567889996666666655531   348899999999999999999887654322334443 222221  234555555


Q ss_pred             HHHHHHhCCCCC----------CCcChhhhHHHHHHHH---ccCcEEEEEcCCCCHHH----HHHhc-------CC----
Q 045345          189 QLLSELLKLPDT----------STWNVYDGLKMIGSRL---RYRKVLLIVDAAFDLKQ----LESLA-------GK----  240 (445)
Q Consensus       189 ~il~~l~~~~~~----------~~~~~~~~~~~l~~~l---~~~~~LlVlDdv~~~~~----l~~l~-------~~----  240 (445)
                      .++..+...-..          ...+.......+.+.+   .+++++|+||+++..-.    .+.++       ..    
T Consensus        84 ~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~  163 (331)
T PF14516_consen   84 WFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNN  163 (331)
T ss_pred             HHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccC
Confidence            555444321110          0112222333344432   25899999999974321    11111       10    


Q ss_pred             CCCcCccccccc---------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHH
Q 045345          241 HEWFDEHLLMTH---------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       241 ~~~~~~~vl~t~---------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  305 (445)
                      ..|-.-.++...               .....++|++++.+|...|+..+-..   ..   ....++|...+||+|.-+.
T Consensus       164 ~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~---~~---~~~~~~l~~~tgGhP~Lv~  237 (331)
T PF14516_consen  164 PIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE---FS---QEQLEQLMDWTGGHPYLVQ  237 (331)
T ss_pred             cccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc---CC---HHHHHHHHHHHCCCHHHHH
Confidence            011100000000               12245789999999999999876422   11   1228889999999999999


Q ss_pred             HHHHhhCCC
Q 045345          306 VLGSFLYGK  314 (445)
Q Consensus       306 ~~~~~L~~~  314 (445)
                      .++..+...
T Consensus       238 ~~~~~l~~~  246 (331)
T PF14516_consen  238 KACYLLVEE  246 (331)
T ss_pred             HHHHHHHHc
Confidence            999998663

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.51  E-value=1.1e-05  Score=82.31  Aligned_cols=187  Identities=13%  Similarity=0.103  Sum_probs=100.0

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccc-cceeeehhhhhhccCCHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE-ASSFLANVREISEKGGLICLQKQ  189 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~l~~~  189 (445)
                      ....++||-+..++.|.+.+..+. -...+.++|+.|+||||+|+.+++.+-..-. ..--+     .+...+.......
T Consensus        13 qtFddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~-----~~~PCG~C~sC~~   86 (700)
T PRK12323         13 RDFTTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGI-----TAQPCGQCRACTE   86 (700)
T ss_pred             CcHHHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccC-----CCCCCcccHHHHH
Confidence            455789999999999999987432 2456789999999999999999987532100 00000     0000000000111


Q ss_pred             HHHH----HhCCCCCCCcChhhhHHHHHHH----HccCcEEEEEcCCCCH--HHHHHhcCCCC---CcCcccccccC---
Q 045345          190 LLSE----LLKLPDTSTWNVYDGLKMIGSR----LRYRKVLLIVDAAFDL--KQLESLAGKHE---WFDEHLLMTHG---  253 (445)
Q Consensus       190 il~~----l~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~--~~l~~l~~~~~---~~~~~vl~t~~---  253 (445)
                      |...    +......+...+++..+.+...    ..++.-++|||+++..  ...+.|+....   ..-.-+++|+.   
T Consensus        87 I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~k  166 (700)
T PRK12323         87 IDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQK  166 (700)
T ss_pred             HHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHh
Confidence            1000    0000000111122222222111    1345679999999843  44555543221   10122222322   


Q ss_pred             -------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHH
Q 045345          254 -------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       254 -------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  305 (445)
                             ....+.++.++.++..+.+.+.+......  ...+....|++.++|.|.-..
T Consensus       167 LlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~--~d~eAL~~IA~~A~Gs~RdAL  223 (700)
T PRK12323        167 IPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIA--HEVNALRLLAQAAQGSMRDAL  223 (700)
T ss_pred             hhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence                   12558999999999999888766332221  123456788999999996443

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.48  E-value=1.3e-05  Score=80.60  Aligned_cols=185  Identities=21%  Similarity=0.212  Sum_probs=96.7

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-c--ccceeeeh-hhhhhc--cCCHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-F--EASSFLAN-VREISE--KGGLI  184 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f--~~~~~~~~-~~~~~~--~~~~~  184 (445)
                      ....++||.+.....|...+..+. -...+.++|++|+||||+|+.+++.+... -  ...|-.+. ......  ...+.
T Consensus        11 ~~~~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~   89 (472)
T PRK14962         11 KTFSEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVI   89 (472)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccE
Confidence            345789999988888888777432 13467899999999999999998864321 0  00000000 000000  00000


Q ss_pred             HHHHHHHHHHhCCCCCCCcChhhhHHHHHHH-----HccCcEEEEEcCCCCH--HHHHHhcCCCCCc--Ccc-ccccc--
Q 045345          185 CLQKQLLSELLKLPDTSTWNVYDGLKMIGSR-----LRYRKVLLIVDAAFDL--KQLESLAGKHEWF--DEH-LLMTH--  252 (445)
Q Consensus       185 ~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~l~~l~~~~~~~--~~~-vl~t~--  252 (445)
                              .   .........+. +..+.+.     ..+++-++|+|+++..  ...+.++......  ... ++.++  
T Consensus        90 --------e---l~aa~~~gid~-iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~  157 (472)
T PRK14962         90 --------E---LDAASNRGIDE-IRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNL  157 (472)
T ss_pred             --------E---EeCcccCCHHH-HHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCCh
Confidence                    0   00000011111 1112222     2245679999999754  2333333211110  111 11111  


Q ss_pred             --------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCC-ChHHHHHHHHh
Q 045345          253 --------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGG-LPLALKVLGSF  310 (445)
Q Consensus       253 --------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~G-lPLal~~~~~~  310 (445)
                              .....+++.+++.++....+...+...+..  -..+....|++.++| ++.++..+-..
T Consensus       158 ~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~--i~~eal~~Ia~~s~GdlR~aln~Le~l  222 (472)
T PRK14962        158 EKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIE--IDREALSFIAKRASGGLRDALTMLEQV  222 (472)
T ss_pred             HhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence                    122568899999999999888776332221  123567778887754 46677666543

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.46  E-value=1.2e-05  Score=78.31  Aligned_cols=190  Identities=14%  Similarity=0.035  Sum_probs=99.5

Q ss_pred             ccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc-cCcc-ccceeeehhhhhhccCCHHHHH
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS-SHEF-EASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~-~~~f-~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      |....+++|.+...+.|.+.+..+. -...+.++|+.|+||+++|..+++.+ .+.- .......... .....+.....
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~-~l~~~~~c~~c   92 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRSGR-LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPT-SLAIDPDHPVA   92 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccc-cccCCCCChHH
Confidence            4456789999999999999888532 24568899999999999999999874 2221 1000000000 00000000011


Q ss_pred             HHHHHHH-------hC---CCC---CCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCC--HHHHHHhc---CCC-CC
Q 045345          188 KQLLSEL-------LK---LPD---TSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFD--LKQLESLA---GKH-EW  243 (445)
Q Consensus       188 ~~il~~l-------~~---~~~---~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~l~~l~---~~~-~~  243 (445)
                      ..+....       ..   ...   ...-.+++ +..+.+.+     .+.+.++|+|+++.  ......++   ... ..
T Consensus        93 ~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~  171 (365)
T PRK07471         93 RRIAAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPAR  171 (365)
T ss_pred             HHHHccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCC
Confidence            1111000       00   000   00011222 23333333     24677999999974  33333332   222 11


Q ss_pred             --c------Cccccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          244 --F------DEHLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       244 --~------~~~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                        +      ...++.|. .....+.+.+|+.++..+++......   ..   .+....++..++|.|+....+.
T Consensus       172 ~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~~---~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        172 SLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---LP---DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             eEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---CC---HHHHHHHHHHcCCCHHHHHHHh
Confidence              1      11222221 12457899999999999999875411   11   1223678999999998665443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.45  E-value=4.4e-06  Score=76.24  Aligned_cols=168  Identities=20%  Similarity=0.174  Sum_probs=87.7

Q ss_pred             CCCcccccccc-ccchh-HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHH
Q 045345          107 PAKSEIFKDLV-GMDSC-WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLI  184 (445)
Q Consensus       107 ~~~~~~~~~~v-Gr~~~-l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~  184 (445)
                      ...+...++|+ |.... +..+..+... ....+.+.|+|++|+|||+||.++++.....-....++.... ..      
T Consensus        11 ~~~~~~~d~f~~~~~~~~~~~l~~~~~~-~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~-~~------   82 (227)
T PRK08903         11 PPPPPTFDNFVAGENAELVARLRELAAG-PVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAAS-PL------   82 (227)
T ss_pred             CCChhhhcccccCCcHHHHHHHHHHHhc-cCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHH-hH------
Confidence            33344456666 54443 3444444332 223467889999999999999999987533222334443110 00      


Q ss_pred             HHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHh---cCCCCCcCc-cccccc------
Q 045345          185 CLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESL---AGKHEWFDE-HLLMTH------  252 (445)
Q Consensus       185 ~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~~~-~vl~t~------  252 (445)
                         ..+                       .. ....-+||+||++..  .....+   ......... .++++.      
T Consensus        83 ---~~~-----------------------~~-~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~  135 (227)
T PRK08903         83 ---LAF-----------------------DF-DPEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLA  135 (227)
T ss_pred             ---HHH-----------------------hh-cccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHh
Confidence               000                       00 112336777888632  111111   110000011 111111      


Q ss_pred             ---------C--CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhh
Q 045345          253 ---------G--VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFL  311 (445)
Q Consensus       253 ---------~--~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  311 (445)
                               +  ....+++++|+.++-..++.+.+-.....  -.++....+++.+.|++..+..+...+
T Consensus       136 ~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v~--l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        136 LPLREDLRTRLGWGLVYELKPLSDADKIAALKAAAAERGLQ--LADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             CCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence                     1  12568899999887777776544222211  223567778888999998887666554

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.45  E-value=9.9e-06  Score=80.38  Aligned_cols=182  Identities=15%  Similarity=0.082  Sum_probs=99.1

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccc---cceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE---ASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~---~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....++||-+..+..|..++..+. -...+.++|++|+||||+|+.+++.+-....   ..|..+.        ....+.
T Consensus        15 ~~f~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~--------sC~~i~   85 (484)
T PRK14956         15 QFFRDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECT--------SCLEIT   85 (484)
T ss_pred             CCHHHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCc--------HHHHHH
Confidence            455789999999999999887432 1346789999999999999999987533211   0111110        000000


Q ss_pred             HHHHHHHhCCC---CCCCcChhhhHHHHHH-HHccCcEEEEEcCCCC--HHHHHHhcCCCCCc--Ccc-cccccC-----
Q 045345          188 KQLLSELLKLP---DTSTWNVYDGLKMIGS-RLRYRKVLLIVDAAFD--LKQLESLAGKHEWF--DEH-LLMTHG-----  253 (445)
Q Consensus       188 ~~il~~l~~~~---~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~--~~~l~~l~~~~~~~--~~~-vl~t~~-----  253 (445)
                      ......+....   .....++.+....+.. ...++.-++|||+++.  .+.++.++.....-  ... ++.|+.     
T Consensus        86 ~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~  165 (484)
T PRK14956         86 KGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIP  165 (484)
T ss_pred             ccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhcc
Confidence            00000000000   0011111111111211 1235667999999984  34455554222110  111 112211     


Q ss_pred             -----CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHH
Q 045345          254 -----VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLA  303 (445)
Q Consensus       254 -----~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLa  303 (445)
                           ....|.+.+++.++..+.+.+.+-..+..  -..+....|++.++|.+.-
T Consensus       166 ~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~--~e~eAL~~Ia~~S~Gd~Rd  218 (484)
T PRK14956        166 ETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQ--YDQEGLFWIAKKGDGSVRD  218 (484)
T ss_pred             HHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCChHHH
Confidence                 12468999999999988888776332221  2345678899999999853

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.44  E-value=1.7e-06  Score=84.79  Aligned_cols=163  Identities=14%  Similarity=0.149  Sum_probs=91.4

Q ss_pred             cccccccccchhHHHHHhhhccC--C---------CCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKE--P---------YGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE  179 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~--~---------~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~  179 (445)
                      ....++.|++..+++|...+...  .         ...+-+.|+|++|+|||+||+++++.....|-....         
T Consensus       119 ~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~---------  189 (364)
T TIGR01242       119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVG---------  189 (364)
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecch---------
Confidence            34467899999999998876421  1         124558899999999999999999987655422110         


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHH-HHHccCcEEEEEcCCCCHH----------------HHHHhcCCCC
Q 045345          180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIG-SRLRYRKVLLIVDAAFDLK----------------QLESLAGKHE  242 (445)
Q Consensus       180 ~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~-~~l~~~~~LlVlDdv~~~~----------------~l~~l~~~~~  242 (445)
                          .    .+.....+       ........+. ..-...+.+|+||+++...                .+..++....
T Consensus       190 ----~----~l~~~~~g-------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld  254 (364)
T TIGR01242       190 ----S----ELVRKYIG-------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELD  254 (364)
T ss_pred             ----H----HHHHHhhh-------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhh
Confidence                0    01111000       0011111121 2223467899999987531                1222221111


Q ss_pred             Cc----Ccccccc--------------cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCc-hHHHHHHHHHHHHhCCCh
Q 045345          243 WF----DEHLLMT--------------HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPW-KEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       243 ~~----~~~vl~t--------------~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~-~~~~~~~~~i~~~~~GlP  301 (445)
                      .+    +..++.+              .+.+..+.++..+.++..++|..++.+..... .+    ...+++.+.|..
T Consensus       255 ~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       255 GFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CCCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCC----HHHHHHHcCCCC
Confidence            00    1112222              23356788999999999999988774433221 12    345667776654

Many proteins may score above the trusted cutoff because an internal

>smart00255 TIR Toll - interleukin 1 - resistance

Probab=98.44  E-value=4.9e-07  Score=75.79  Aligned_cols=74  Identities=39%  Similarity=0.680  Sum_probs=61.2

Q ss_pred             CCCCChhhHHHHHHHHhchhc-CCCccEEEeeeccCCCcccccccchHHHHHHHhHHhhhhcHHHHHHHHHHHHHHHh
Q 045345            1 NYAYSTWCLDELVEIVELKST-NGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVAN   77 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~~~-~~~~~~v~Pvfy~v~ps~vr~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~   77 (445)
                      +|..|.||..|+..++++..+ ..  ..||||||+..|+.+..+.+.++.++..+..++.....+ ..|++++..+++
T Consensus        65 ~~~~S~w~~~E~~~a~~~~~~~~~--~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~  139 (140)
T smart00255       65 NYAESEWCLDELVAALENALEEGG--LRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS  139 (140)
T ss_pred             ccccChhHHHHHHHHHHHHHHcCC--CeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence            689999999999999998865 44  799999999999999999999999998875555544333 689988876653

>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=98.44  E-value=1.1e-06  Score=73.69  Aligned_cols=54  Identities=26%  Similarity=0.282  Sum_probs=40.8

Q ss_pred             cccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          117 VGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       117 vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +|++..+..+...+...  ..+.+.|+|++|+|||+|++.+++.+......++++.
T Consensus         1 ~~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   54 (151)
T cd00009           1 VGQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLN   54 (151)
T ss_pred             CchHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEe
Confidence            47888999998888742  3467889999999999999999998643333344443

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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.42  E-value=3.1e-05  Score=77.67  Aligned_cols=181  Identities=22%  Similarity=0.163  Sum_probs=96.7

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||-+..++.|...+..+. -...+.++|+.|+||||+|+.++..+-..+...         ....+.......+
T Consensus        10 ~~f~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~---------~~pCg~C~~C~~i   79 (491)
T PRK14964         10 SSFKDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISLCLNCSNGPT---------SDPCGTCHNCISI   79 (491)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHHHHcCcCCCC---------CCCccccHHHHHH
Confidence            456789999999999988887432 134788999999999999999987532111100         0000000011111


Q ss_pred             HHHHh----CCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCcccccccC---
Q 045345          191 LSELL----KLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEHLLMTHG---  253 (445)
Q Consensus       191 l~~l~----~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~vl~t~~---  253 (445)
                      .....    .....+....++.. .+.+..     .++.-++|+|+++..  ...+.++   ........-++.++.   
T Consensus        80 ~~~~~~Dv~eidaas~~~vddIR-~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~K  158 (491)
T PRK14964         80 KNSNHPDVIEIDAASNTSVDDIK-VILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKK  158 (491)
T ss_pred             hccCCCCEEEEecccCCCHHHHH-HHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHH
Confidence            10000    00000011111111 111111     245668999999743  3333333   222111111222211   


Q ss_pred             -------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          254 -------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       254 -------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                             ....+++.+++.++..+.+...+...+..  -..+.+..|++.++|.+..+
T Consensus       159 l~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~--i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        159 IPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIE--HDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             HHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence                   23568999999999999988877433322  22355778999999988643

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.42  E-value=2.1e-05  Score=80.44  Aligned_cols=183  Identities=17%  Similarity=0.144  Sum_probs=98.8

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||.+...+.|..++..+. -...+.++|+.|+||||+|+.+++.+-....    ..     ....+.......+
T Consensus        12 ktFddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~----~~-----~~pCg~C~sC~~I   81 (702)
T PRK14960         12 RNFNELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCLNCETG----VT-----STPCEVCATCKAV   81 (702)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCcC----CC-----CCCCccCHHHHHH
Confidence            455789999999999999988432 2467789999999999999999987532110    00     0000000001111


Q ss_pred             HHH----HhCCCCCCCcChhhhHHHHHH----HHccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCccccccc-----
Q 045345          191 LSE----LLKLPDTSTWNVYDGLKMIGS----RLRYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEHLLMTH-----  252 (445)
Q Consensus       191 l~~----l~~~~~~~~~~~~~~~~~l~~----~l~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~vl~t~-----  252 (445)
                      ...    +......+....++....+..    -..++.-++|||+++..  .....++   ......-.-+++++     
T Consensus        82 ~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kI  161 (702)
T PRK14960         82 NEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKL  161 (702)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhh
Confidence            000    000000001112221111111    11356679999999844  3333333   22111111111111     


Q ss_pred             -----CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHH
Q 045345          253 -----GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       253 -----~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  305 (445)
                           .....+++.+|+.++..+.+...+-..+..  ...+....|++.++|.+..+.
T Consensus       162 p~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~--id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        162 PITVISRCLQFTLRPLAVDEITKHLGAILEKEQIA--ADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             hHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence                 123568999999999999888776333222  223567789999999875443

>PRK08727 hypothetical protein; Validated

Probab=98.41  E-value=6.1e-06  Score=75.51  Aligned_cols=59  Identities=20%  Similarity=0.266  Sum_probs=38.1

Q ss_pred             ccccccccchh-HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          112 IFKDLVGMDSC-WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       112 ~~~~~vGr~~~-l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..++|++.... +..+..+...  .....+.|+|.+|+|||+|+.++++....+...+.|+.
T Consensus        17 ~f~~f~~~~~n~~~~~~~~~~~--~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~   76 (233)
T PRK08727         17 RFDSYIAAPDGLLAQLQALAAG--QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP   76 (233)
T ss_pred             ChhhccCCcHHHHHHHHHHHhc--cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            45567765543 3333333321  12346899999999999999999988655544556654

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.40  E-value=3.5e-05  Score=79.57  Aligned_cols=182  Identities=16%  Similarity=0.129  Sum_probs=96.9

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||.+..++.|..++..+. -...+.++|+.|+||||+|+.++..+-..-... +..        .+.......+
T Consensus        13 ~tFddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~-~~p--------Cg~C~sCr~i   82 (709)
T PRK08691         13 KTFADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSLNCENAQH-GEP--------CGVCQSCTQI   82 (709)
T ss_pred             CCHHHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCC-CCC--------CcccHHHHHH
Confidence            456789999999999999988532 245778999999999999999988642211000 000        0000000000


Q ss_pred             HHH----HhCCCCCCCcChhhhHHHHHH----HHccCcEEEEEcCCCCHH--HHHHhc---CC-CCCcCcccccccC---
Q 045345          191 LSE----LLKLPDTSTWNVYDGLKMIGS----RLRYRKVLLIVDAAFDLK--QLESLA---GK-HEWFDEHLLMTHG---  253 (445)
Q Consensus       191 l~~----l~~~~~~~~~~~~~~~~~l~~----~l~~~~~LlVlDdv~~~~--~l~~l~---~~-~~~~~~~vl~t~~---  253 (445)
                      ...    +...........+.....+..    -..+++-++|||+++...  ....++   .. ... -.-|++++.   
T Consensus        83 ~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~-v~fILaTtd~~k  161 (709)
T PRK08691         83 DAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEH-VKFILATTDPHK  161 (709)
T ss_pred             hccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCC-cEEEEEeCCccc
Confidence            000    000000011111111111111    012466799999998543  222222   11 111 111222221   


Q ss_pred             -------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHH
Q 045345          254 -------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       254 -------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  305 (445)
                             ....+.+.+++.++..+.+.+.+-..+..  -..+.+..|++.++|.+.-+.
T Consensus       162 L~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~--id~eAL~~Ia~~A~GslRdAl  218 (709)
T PRK08691        162 VPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIA--YEPPALQLLGRAAAGSMRDAL  218 (709)
T ss_pred             cchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHhCCCHHHHH
Confidence                   12346888999999999888776433322  224567889999999986443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.40  E-value=3.7e-06  Score=81.28  Aligned_cols=187  Identities=17%  Similarity=0.113  Sum_probs=103.3

Q ss_pred             CccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc----cccceeeehhhhhhccCCHH
Q 045345          109 KSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE----FEASSFLANVREISEKGGLI  184 (445)
Q Consensus       109 ~~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~----f~~~~~~~~~~~~~~~~~~~  184 (445)
                      .|.....++|-+...+.+...+..+. ....+.|+|+.|+||||+|..+++.+-..    +......       ...+..
T Consensus        18 ~P~~~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~-------~~~~~c   89 (351)
T PRK09112         18 SPSENTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLA-------DPDPAS   89 (351)
T ss_pred             CCCchhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccC-------CCCCCC
Confidence            44566789999999999999988542 24578899999999999999999875331    1110000       000011


Q ss_pred             HHHHHHHHH-------HhCCCCC------CCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCC
Q 045345          185 CLQKQLLSE-------LLKLPDT------STWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKH  241 (445)
Q Consensus       185 ~l~~~il~~-------l~~~~~~------~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~  241 (445)
                      .....+...       +....+.      ..-.+++ +..+.+.+     .++.-++|+|+++..  ...+.++   ...
T Consensus        90 ~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEp  168 (351)
T PRK09112         90 PVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEP  168 (351)
T ss_pred             HHHHHHHcCCCCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcC
Confidence            111222111       0000000      0111222 22333333     246679999999843  3333332   221


Q ss_pred             CCc---------CcccccccC-CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          242 EWF---------DEHLLMTHG-VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       242 ~~~---------~~~vl~t~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                      ...         ...++.|.+ ....+++.+++.++..+++........    ...+.+..+++.++|.|+....+.
T Consensus       169 p~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~----~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        169 PARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG----SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             CCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC----CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            111         111222211 235789999999999999987432111    113446789999999998655443

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.39  E-value=9.4e-06  Score=74.36  Aligned_cols=161  Identities=17%  Similarity=0.131  Sum_probs=83.8

Q ss_pred             cccc-ccc-hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHH
Q 045345          114 KDLV-GMD-SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLL  191 (445)
Q Consensus       114 ~~~v-Gr~-~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il  191 (445)
                      ++|+ |-. ..+..+.++...  ...+.+.|+|++|+|||+|+.++++........+.|+.    ......   ..    
T Consensus        22 d~f~~~~n~~a~~~l~~~~~~--~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~----~~~~~~---~~----   88 (235)
T PRK08084         22 ASFYPGDNDSLLAALQNALRQ--EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVP----LDKRAW---FV----   88 (235)
T ss_pred             cccccCccHHHHHHHHHHHhC--CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE----HHHHhh---hh----
Confidence            4555 632 234444444432  23457889999999999999999987654433445554    111000   00    


Q ss_pred             HHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH---HHHH----Hhc-CCCCCcCcccccccC----------
Q 045345          192 SELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL---KQLE----SLA-GKHEWFDEHLLMTHG----------  253 (445)
Q Consensus       192 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~l~----~l~-~~~~~~~~~vl~t~~----------  253 (445)
                                    .+    +.+.+.. --+|+|||++..   .+++    .+. .........++.|+.          
T Consensus        89 --------------~~----~~~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~  149 (235)
T PRK08084         89 --------------PE----VLEGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGL  149 (235)
T ss_pred             --------------HH----HHHHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCccc
Confidence                          00    1111111 137888998642   1111    111 100000112333322          


Q ss_pred             --------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          254 --------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       254 --------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                              ...++++++++.++-.+++.+.+......  -.++...-|++.+.|..-.+..+-
T Consensus       150 ~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~--l~~~v~~~L~~~~~~d~r~l~~~l  210 (235)
T PRK08084        150 PDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRGFE--LPEDVGRFLLKRLDREMRTLFMTL  210 (235)
T ss_pred             HHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhhcCCHHHHHHHH
Confidence                    22568899999988888887766332211  224566777777777666554443

>PRK05642 DNA replication initiation factor; Validated

Probab=98.39  E-value=6.7e-06  Score=75.22  Aligned_cols=141  Identities=18%  Similarity=0.182  Sum_probs=76.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL  216 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l  216 (445)
                      .+.+.|+|.+|+|||.|++++++.+...-..++|+.. .+             +...               ...+.+.+
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~-~~-------------~~~~---------------~~~~~~~~   95 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL-AE-------------LLDR---------------GPELLDNL   95 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH-HH-------------HHhh---------------hHHHHHhh
Confidence            3578899999999999999998876544345566651 11             1100               01122333


Q ss_pred             ccCcEEEEEcCCCCH---HH----HHHhcCCCCCcCcccccccC------------------CCceEEcCCCCHHHHHHH
Q 045345          217 RYRKVLLIVDAAFDL---KQ----LESLAGKHEWFDEHLLMTHG------------------VDEVHKLKVLHDDEALQL  271 (445)
Q Consensus       217 ~~~~~LlVlDdv~~~---~~----l~~l~~~~~~~~~~vl~t~~------------------~~~~~~l~~L~~~ea~~L  271 (445)
                      .+-. +||+||+...   ..    +-.+......-++.+++++.                  ...++++++++.++-.+.
T Consensus        96 ~~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~i  174 (234)
T PRK05642         96 EQYE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRA  174 (234)
T ss_pred             hhCC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHH
Confidence            3332 6788998522   12    11111100000223333332                  224578899999988888


Q ss_pred             HHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHH
Q 045345          272 FCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGS  309 (445)
Q Consensus       272 f~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~  309 (445)
                      +..++.......  .+++..-|++.+.|-.-.+..+-.
T Consensus       175 l~~ka~~~~~~l--~~ev~~~L~~~~~~d~r~l~~~l~  210 (234)
T PRK05642        175 LQLRASRRGLHL--TDEVGHFILTRGTRSMSALFDLLE  210 (234)
T ss_pred             HHHHHHHcCCCC--CHHHHHHHHHhcCCCHHHHHHHHH
Confidence            885553322211  135666677777776655544433

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=8.8e-06  Score=82.70  Aligned_cols=186  Identities=19%  Similarity=0.151  Sum_probs=97.5

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccc---cceeee-hhhhhhc--cCCHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE---ASSFLA-NVREISE--KGGLI  184 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~---~~~~~~-~~~~~~~--~~~~~  184 (445)
                      ....++||-+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+.....   ..|-.+ ....+..  ..++.
T Consensus        13 ~~f~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dli   91 (546)
T PRK14957         13 QSFAEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLI   91 (546)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceE
Confidence            445789999999999998887432 2456789999999999999999986532110   000000 0000000  00000


Q ss_pred             HHHHHHHHHHhCCCCCCCcChhhhHHHHHHH-HccCcEEEEEcCCCCH--HHHHHhc---CCCCCc---------Ccccc
Q 045345          185 CLQKQLLSELLKLPDTSTWNVYDGLKMIGSR-LRYRKVLLIVDAAFDL--KQLESLA---GKHEWF---------DEHLL  249 (445)
Q Consensus       185 ~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~---------~~~vl  249 (445)
                      .+        .........+.......+... ..+++-++|+|+++..  ...+.++   ......         ...++
T Consensus        92 ei--------daas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil  163 (546)
T PRK14957         92 EI--------DAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIP  163 (546)
T ss_pred             Ee--------ecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhh
Confidence            00        000000111111222222111 2356679999999843  3333333   222111         11122


Q ss_pred             cc-cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHHHH
Q 045345          250 MT-HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALKVL  307 (445)
Q Consensus       250 ~t-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~~~  307 (445)
                      .+ ......+++.+++.++..+.+...+-..+.  ....+....|++.++|.+. |+..+
T Consensus       164 ~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi--~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        164 VTILSRCIQLHLKHISQADIKDQLKIILAKENI--NSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             hhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            12 112367899999999988888775532221  1234556778999999765 44444

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

Probab=98.36  E-value=1.7e-05  Score=71.96  Aligned_cols=253  Identities=17%  Similarity=0.228  Sum_probs=137.9

Q ss_pred             cccccccccchhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....+|||.+...++|.=.+..   .....--|.++|++|.||||||.-+++.+...+....    ..-.....++.   
T Consensus        23 ~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~ts----Gp~leK~gDla---   95 (332)
T COG2255          23 KTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITS----GPALEKPGDLA---   95 (332)
T ss_pred             ccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecc----cccccChhhHH---
Confidence            3457899999888888766653   2223567889999999999999999998755432100    00001111111   


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH-HHHHh-cCCCCCc-----------Ccc-------
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK-QLESL-AGKHEWF-----------DEH-------  247 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-~l~~l-~~~~~~~-----------~~~-------  247 (445)
                       .++..                      |+ ..=+|.+|.++-.. ..+++ .+...-|           .+.       
T Consensus        96 -aiLt~----------------------Le-~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLpp  151 (332)
T COG2255          96 -AILTN----------------------LE-EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPP  151 (332)
T ss_pred             -HHHhc----------------------CC-cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCC
Confidence             11111                      11 22245667665321 11111 1111111           000       


Q ss_pred             ---cccccC-----------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCC
Q 045345          248 ---LLMTHG-----------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYG  313 (445)
Q Consensus       248 ---vl~t~~-----------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~  313 (445)
                         |-.|++           ..-+.+++--+.+|-.+...+.+..-+.  +-.++.+.+|++++.|-|.-..-+-+.++.
T Consensus       152 FTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i--~i~~~~a~eIA~rSRGTPRIAnRLLrRVRD  229 (332)
T COG2255         152 FTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGI--EIDEEAALEIARRSRGTPRIANRLLRRVRD  229 (332)
T ss_pred             eeEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCC--CCChHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence               111111           2245678888899988888877722221  122456889999999999644433333221


Q ss_pred             CCHHHHHHHHHH--HhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccC--CCCCHHHHHHHHHhCCCCchhcHH-HHhh
Q 045345          314 KTTKEWESAPKR--LERESENEILDILKISFDGLRETEKKIFLDIACFY--RGEDRDYVTKIIDYCDFDPVIGIR-VLID  388 (445)
Q Consensus       314 ~~~~~w~~~l~~--l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~--~~~~~~~l~~~~~~~~~~~~~~l~-~L~~  388 (445)
                           +..+...  +...........|..-=..|+...++++..+.-.+  ++...+.+...++.+....++.++ .|++
T Consensus       230 -----fa~V~~~~~I~~~ia~~aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPVGl~tia~~lge~~~TiEdv~EPyLiq  304 (332)
T COG2255         230 -----FAQVKGDGDIDRDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAAALGEDRDTIEDVIEPYLIQ  304 (332)
T ss_pred             -----HHHHhcCCcccHHHHHHHHHHhCcccccccHHHHHHHHHHHHHhCCCCccHHHHHHHhcCchhHHHHHHhHHHHH
Confidence                 1110000  00000122333444444567777777777776555  346678887777654444444443 5999


Q ss_pred             cCceEEccCCeEE
Q 045345          389 KSLIEISNGNRLR  401 (445)
Q Consensus       389 ~sLi~~~~~~~~~  401 (445)
                      .|+|+.+..|++-
T Consensus       305 ~gfi~RTpRGR~a  317 (332)
T COG2255         305 QGFIQRTPRGRIA  317 (332)
T ss_pred             hchhhhCCCccee
Confidence            9999998888764

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.34  E-value=3.2e-05  Score=78.10  Aligned_cols=184  Identities=16%  Similarity=0.125  Sum_probs=98.6

Q ss_pred             ccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccc-------cceeeeh-hhhhhc--
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE-------ASSFLAN-VREISE--  179 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~-------~~~~~~~-~~~~~~--  179 (445)
                      |....++||-+..++.|...+..+. -...+.++|++|+||||+|+.+++.+-....       ..|..+. ...+..  
T Consensus        17 P~~f~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~   95 (507)
T PRK06645         17 PSNFAELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHN   95 (507)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCC
Confidence            3456789999999999988776432 2357889999999999999999987532110       0111110 000000  


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHH-HHccCcEEEEEcCCCCH--HHHHHhc---CCCCCc---------
Q 045345          180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGS-RLRYRKVLLIVDAAFDL--KQLESLA---GKHEWF---------  244 (445)
Q Consensus       180 ~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~---------  244 (445)
                      ..++.        .+.........++...+..... -..+++-++|+|+++..  ..++.++   ......         
T Consensus        96 h~Dv~--------eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte  167 (507)
T PRK06645         96 HPDII--------EIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTE  167 (507)
T ss_pred             CCcEE--------EeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCC
Confidence            00000        0000000111111111111110 12346678999999853  3344443   211110         


Q ss_pred             Cccccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          245 DEHLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       245 ~~~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                      ...+..+. .....+++.+++.++..+.+...+...+..  -..+....|++.++|.+.-+
T Consensus       168 ~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~--ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        168 VQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLK--TDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             hHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence            11122111 123568999999999999998877433322  12355777999999987544

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

Probab=98.33  E-value=3.2e-06  Score=78.93  Aligned_cols=168  Identities=21%  Similarity=0.256  Sum_probs=92.5

Q ss_pred             cccccccccchhHHH---HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWNT---LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~---l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ..-.++||.+..+.+   |.+++.  .+..+.+.+||++|+||||||+.++..-+.+  ...|+.    .+....-..-.
T Consensus       135 ktL~dyvGQ~hlv~q~gllrs~ie--q~~ipSmIlWGppG~GKTtlArlia~tsk~~--Syrfve----lSAt~a~t~dv  206 (554)
T KOG2028|consen  135 KTLDDYVGQSHLVGQDGLLRSLIE--QNRIPSMILWGPPGTGKTTLARLIASTSKKH--SYRFVE----LSATNAKTNDV  206 (554)
T ss_pred             chHHHhcchhhhcCcchHHHHHHH--cCCCCceEEecCCCCchHHHHHHHHhhcCCC--ceEEEE----EeccccchHHH
Confidence            344567776655443   233333  4567888899999999999999999865443  134444    22211111111


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCC--CHHHHHHhcCCCCCcCccccc-cc------------
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAF--DLKQLESLAGKHEWFDEHLLM-TH------------  252 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~--~~~~l~~l~~~~~~~~~~vl~-t~------------  252 (445)
                      +.++.+-.                -...+.++|.+|.+|.|.  +..|-+.+++.....+..++- |+            
T Consensus       207 R~ife~aq----------------~~~~l~krkTilFiDEiHRFNksQQD~fLP~VE~G~I~lIGATTENPSFqln~aLl  270 (554)
T KOG2028|consen  207 RDIFEQAQ----------------NEKSLTKRKTILFIDEIHRFNKSQQDTFLPHVENGDITLIGATTENPSFQLNAALL  270 (554)
T ss_pred             HHHHHHHH----------------HHHhhhcceeEEEeHHhhhhhhhhhhcccceeccCceEEEecccCCCccchhHHHH
Confidence            11111110                112345788999999996  445555565543322111110 00            


Q ss_pred             CCCceEEcCCCCHHHHHHHHHHhh--c-CCC-----CCc---hHHHHHHHHHHHHhCCChH
Q 045345          253 GVDEVHKLKVLHDDEALQLFCKQA--F-KTN-----QPW---KEYEQLSKYVVKYSGGLPL  302 (445)
Q Consensus       253 ~~~~~~~l~~L~~~ea~~Lf~~~a--~-~~~-----~~~---~~~~~~~~~i~~~~~GlPL  302 (445)
                      ....++.|++|+.++...++.+..  . ...     .+.   .-...+.+-++..|.|-..
T Consensus       271 SRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  271 SRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             hccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence            123568899999999998887632  1 111     111   1234556666777777543

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.33  E-value=4.2e-05  Score=78.87  Aligned_cols=185  Identities=15%  Similarity=0.152  Sum_probs=98.5

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-cc--cceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-FE--ASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~--~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....++||-+..++.|..++..+. -...+.++|+.|+||||+|+.+++.+-.. -+  ...       .....+.....
T Consensus        13 ~~f~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~-------~~~pCg~C~~C   84 (618)
T PRK14951         13 RSFSEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGI-------TATPCGVCQAC   84 (618)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCC-------CCCCCCccHHH
Confidence            445789999999999999888532 24567899999999999999998764211 00  000       00001111111


Q ss_pred             HHHHHH----HhCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhcC---CCCCcCccccccc-
Q 045345          188 KQLLSE----LLKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLAG---KHEWFDEHLLMTH-  252 (445)
Q Consensus       188 ~~il~~----l~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~~---~~~~~~~~vl~t~-  252 (445)
                      ..+...    +...........++..+ +.+..     .++.-++|||+|+..  ...+.++.   .....-.-++.|+ 
T Consensus        85 ~~i~~g~h~D~~eldaas~~~Vd~iRe-li~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd  163 (618)
T PRK14951         85 RDIDSGRFVDYTELDAASNRGVDEVQQ-LLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTD  163 (618)
T ss_pred             HHHHcCCCCceeecCcccccCHHHHHH-HHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECC
Confidence            111000    00000001111222111 11221     234558999999843  34444432   2111111122221 


Q ss_pred             ---------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHH
Q 045345          253 ---------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKV  306 (445)
Q Consensus       253 ---------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  306 (445)
                               .....+++++|+.++..+.+.+.+...+...  ..+.+..|++.++|.+.-+..
T Consensus       164 ~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~i--e~~AL~~La~~s~GslR~al~  224 (618)
T PRK14951        164 PQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPA--EPQALRLLARAARGSMRDALS  224 (618)
T ss_pred             chhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHH
Confidence                     1235689999999999998887764333221  235677889999998754433

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.33  E-value=7.1e-06  Score=82.18  Aligned_cols=156  Identities=18%  Similarity=0.192  Sum_probs=90.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccc--cceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFE--ASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGS  214 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~  214 (445)
                      ...+.|+|..|+|||+|++++++.+....+  .++++.          ...+...+...+...        ......+.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~----------~~~f~~~~~~~l~~~--------~~~~~~~~~  202 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS----------GDEFARKAVDILQKT--------HKEIEQFKN  202 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE----------HHHHHHHHHHHHHHh--------hhHHHHHHH
Confidence            356789999999999999999987654322  233433          223344444443311        012233444


Q ss_pred             HHccCcEEEEEcCCCCHH----HHHHhcCCCCCc---Cccccccc------------------CCCceEEcCCCCHHHHH
Q 045345          215 RLRYRKVLLIVDAAFDLK----QLESLAGKHEWF---DEHLLMTH------------------GVDEVHKLKVLHDDEAL  269 (445)
Q Consensus       215 ~l~~~~~LlVlDdv~~~~----~l~~l~~~~~~~---~~~vl~t~------------------~~~~~~~l~~L~~~ea~  269 (445)
                      .++ ..-+|||||+....    ..+.+.......   ++.+++++                  ...-++.+++++.++-.
T Consensus       203 ~~~-~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~  281 (450)
T PRK14087        203 EIC-QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTAT  281 (450)
T ss_pred             Hhc-cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHH
Confidence            444 34478889996331    122221110000   22333332                  12345789999999999


Q ss_pred             HHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhh
Q 045345          270 QLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFL  311 (445)
Q Consensus       270 ~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  311 (445)
                      +++.+.+-.......-.++...-|++.++|.|..+.-+...+
T Consensus       282 ~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        282 AIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            999888733221112335778889999999999887665433

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.31  E-value=2.7e-05  Score=79.16  Aligned_cols=181  Identities=15%  Similarity=0.110  Sum_probs=94.2

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||-+..++.|...+..+. -...+.++|++|+||||+|+.+++.+-..-...         ....+.......+
T Consensus        13 ~~f~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---------~~pCg~C~~C~~i   82 (509)
T PRK14958         13 RCFQEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVS---------ANPCNDCENCREI   82 (509)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCC---------cccCCCCHHHHHH
Confidence            455789999999999999997432 234678999999999999999998642210000         0000000000000


Q ss_pred             HHH----HhCCCCCCCcChhhhHHHHHHH-----HccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCcccccccC---
Q 045345          191 LSE----LLKLPDTSTWNVYDGLKMIGSR-----LRYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEHLLMTHG---  253 (445)
Q Consensus       191 l~~----l~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~vl~t~~---  253 (445)
                      ...    +...........++... +.+.     ..++.-++|+|+|+..  ...+.++   ......-.-++.|+.   
T Consensus        83 ~~g~~~d~~eidaas~~~v~~iR~-l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~k  161 (509)
T PRK14958         83 DEGRFPDLFEVDAASRTKVEDTRE-LLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHK  161 (509)
T ss_pred             hcCCCceEEEEcccccCCHHHHHH-HHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHh
Confidence            000    00000000111111111 1111     1245568999999843  3343333   221111111222211   


Q ss_pred             -------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          254 -------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       254 -------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                             ....+++++++.++..+.+...+-..+...  ..+....|++.++|.+.-+
T Consensus       162 l~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~--~~~al~~ia~~s~GslR~a  217 (509)
T PRK14958        162 LPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEF--ENAALDLLARAANGSVRDA  217 (509)
T ss_pred             chHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCcHHHH
Confidence                   124578999999998877766653322221  2345677899999988644

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.29  E-value=7.2e-06  Score=80.85  Aligned_cols=52  Identities=21%  Similarity=0.269  Sum_probs=40.2

Q ss_pred             ccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...++.|++..+++|...+..           +-...+-|.|+|++|+|||+||+++++....
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~  191 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA  191 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCC
Confidence            345688999999999886532           1123456889999999999999999987654

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.28  E-value=1.3e-05  Score=82.82  Aligned_cols=183  Identities=17%  Similarity=0.130  Sum_probs=99.5

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||-+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+-....    ..     ....+.......+
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~----~~-----~~pCg~C~~C~~i   82 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETG----IT-----ATPCGECDNCREI   82 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccC----CC-----CCCCCCCHHHHHH
Confidence            456789999999999999887432 2345789999999999999999987532210    00     0000111111111


Q ss_pred             HHH-------HhCCCCCCCcChhhhHHHHHH-HHccCcEEEEEcCCCC--HHHHHHhc---CC-CCC--c------Cccc
Q 045345          191 LSE-------LLKLPDTSTWNVYDGLKMIGS-RLRYRKVLLIVDAAFD--LKQLESLA---GK-HEW--F------DEHL  248 (445)
Q Consensus       191 l~~-------l~~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~--~~~l~~l~---~~-~~~--~------~~~v  248 (445)
                      ...       +.........++.+....+.. -..++.-++|||+++.  ....+.|+   .. ...  |      ...+
T Consensus        83 ~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kL  162 (647)
T PRK07994         83 EQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL  162 (647)
T ss_pred             HcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCcccc
Confidence            100       000000011111111111111 1235667999999984  33444443   11 111  1      2223


Q ss_pred             cccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHH
Q 045345          249 LMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       249 l~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  305 (445)
                      +.|. .....|++++|+.++..+.+.+.+-.....  ...+....|++.++|.+.-..
T Consensus       163 l~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~--~e~~aL~~Ia~~s~Gs~R~Al  218 (647)
T PRK07994        163 PVTILSRCLQFHLKALDVEQIRQQLEHILQAEQIP--FEPRALQLLARAADGSMRDAL  218 (647)
T ss_pred             chHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            3221 124678999999999999888765222221  223556789999999887443

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

Probab=98.26  E-value=3e-05  Score=75.04  Aligned_cols=160  Identities=16%  Similarity=0.166  Sum_probs=96.1

Q ss_pred             ccccccccchhHHHHHhhhcc--CCCCeEEEEEEccCCCchhHHHHHHHhhccCcccc--ceeeehhhhhhccCCHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK--EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEA--SSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~l~  187 (445)
                      .+..++||+.++..+..++..  ..+..+.+=|.|-+|.|||.+...++.+.......  .+++.    ...-.....++
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~in----c~sl~~~~aiF  223 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYIN----CTSLTEASAIF  223 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEe----eccccchHHHH
Confidence            457799999999999998875  33445677899999999999999999886655443  24443    22224455666


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHHHcc--CcEEEEEcCCCCHH-----------HHHHhcCCC-------CCc--C
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSRLRY--RKVLLIVDAAFDLK-----------QLESLAGKH-------EWF--D  245 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~--~~~LlVlDdv~~~~-----------~l~~l~~~~-------~~~--~  245 (445)
                      ..|+..+.......... .+....+......  ..+|+|+|..|...           .|..+....       +.+  .
T Consensus       224 ~kI~~~~~q~~~s~~~~-~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlT  302 (529)
T KOG2227|consen  224 KKIFSSLLQDLVSPGTG-MQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLT  302 (529)
T ss_pred             HHHHHHHHHHhcCCchh-HHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHH
Confidence            66666663222212212 2334444444443  36899999987442           111111000       000  1


Q ss_pred             cccccccC-----CCceEEcCCCCHHHHHHHHHHhh
Q 045345          246 EHLLMTHG-----VDEVHKLKVLHDDEALQLFCKQA  276 (445)
Q Consensus       246 ~~vl~t~~-----~~~~~~l~~L~~~ea~~Lf~~~a  276 (445)
                      .+.+.+..     ....+..++-+.++-.++|....
T Consensus       303 dR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl  338 (529)
T KOG2227|consen  303 DRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRL  338 (529)
T ss_pred             HHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHH
Confidence            11222111     13457788999999999998877

>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=98.25  E-value=2.3e-05  Score=70.93  Aligned_cols=171  Identities=18%  Similarity=0.220  Sum_probs=86.1

Q ss_pred             ccc-cccchh--HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcccc--ceeeehhhhhhccCCHHHHHH
Q 045345          114 KDL-VGMDSC--WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEA--SSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       114 ~~~-vGr~~~--l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ++| +|-..+  .................+.|+|..|+|||.|.+++++.+...++.  ++++.          ......
T Consensus         8 dnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~----------~~~f~~   77 (219)
T PF00308_consen    8 DNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS----------AEEFIR   77 (219)
T ss_dssp             CCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE----------HHHHHH
T ss_pred             ccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec----------HHHHHH
Confidence            445 465333  333333333323234567899999999999999999987654443  34443          222233


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH---HH-HHhcCCCCCc---Cccccccc---------
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK---QL-ESLAGKHEWF---DEHLLMTH---------  252 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~---~l-~~l~~~~~~~---~~~vl~t~---------  252 (445)
                      .+...+..          .....+...++ .-=+|+|||++...   .+ +.+....+.+   ++.+++++         
T Consensus        78 ~~~~~~~~----------~~~~~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~  146 (219)
T PF00308_consen   78 EFADALRD----------GEIEEFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSG  146 (219)
T ss_dssp             HHHHHHHT----------TSHHHHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTT
T ss_pred             HHHHHHHc----------ccchhhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccc
Confidence            33333321          11233444444 33477889986431   11 1111000000   23333333         


Q ss_pred             ---------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          253 ---------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       253 ---------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                               ...-++++++++.++-.+++.+.+......  -.++++.-|++.+.+..-.|.-+
T Consensus       147 ~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~--l~~~v~~~l~~~~~~~~r~L~~~  208 (219)
T PF00308_consen  147 LLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGIE--LPEEVIEYLARRFRRDVRELEGA  208 (219)
T ss_dssp             S-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT----S-HHHHHHHHHHTTSSHHHHHHH
T ss_pred             cChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCCC--CcHHHHHHHHHhhcCCHHHHHHH
Confidence                     233468899999999999998877433322  22456666777766665555433

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.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.25  E-value=3.9e-05  Score=75.02  Aligned_cols=185  Identities=15%  Similarity=0.123  Sum_probs=96.5

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc----cccceeeeh-hhhhhc--cCCH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE----FEASSFLAN-VREISE--KGGL  183 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~----f~~~~~~~~-~~~~~~--~~~~  183 (445)
                      .....++|.+..++.+...+..+. -...+.++|++|+|||++|+.++..+...    +.. |-.+. ...+..  ..++
T Consensus        11 ~~~~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~-c~~c~~c~~~~~~~~~~~   88 (355)
T TIGR02397        11 QTFEDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEP-CNECESCKEINSGSSLDV   88 (355)
T ss_pred             CcHhhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCC-CCCCHHHHHHhcCCCCCE
Confidence            445678999999999999887432 23577899999999999999998875321    110 00000 000000  0000


Q ss_pred             HHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH-HccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCcc-ccccc----
Q 045345          184 ICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR-LRYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEH-LLMTH----  252 (445)
Q Consensus       184 ~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~-vl~t~----  252 (445)
                      ..+        .+.......+.......+... ..+++-++|+|+++..  .....++   ..... +.. ++.+.    
T Consensus        89 ~~~--------~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~-~~~lIl~~~~~~~  159 (355)
T TIGR02397        89 IEI--------DAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPE-HVVFILATTEPHK  159 (355)
T ss_pred             EEe--------eccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCcc-ceeEEEEeCCHHH
Confidence            000        000000000111111111110 1234568899998744  3233332   11111 111 11111    


Q ss_pred             ------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          253 ------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       253 ------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                            .....+++.+++.++..+++...+-..+...  ..+.+..+++.++|.|..+....
T Consensus       160 l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i--~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       160 IPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKI--EDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             HHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCChHHHHHHH
Confidence                  1124678999999999998887663332221  13667889999999997665443

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.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.25  E-value=9e-05  Score=75.69  Aligned_cols=185  Identities=16%  Similarity=0.138  Sum_probs=97.1

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....+++|.+..++.+...+..+. -.+.+.++|+.|+||||+|+.+++.+...-    |..    . ...+.......+
T Consensus        13 ~~F~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~----~~~----~-~~Cg~C~sCr~i   82 (605)
T PRK05896         13 HNFKQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAINCLN----PKD----G-DCCNSCSVCESI   82 (605)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCCC----CCC----C-CCCcccHHHHHH
Confidence            455789999999999999886432 245788999999999999999998753211    110    0 000000111111


Q ss_pred             HHHH----hCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCc---------Ccc
Q 045345          191 LSEL----LKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWF---------DEH  247 (445)
Q Consensus       191 l~~l----~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~---------~~~  247 (445)
                      ....    ...........++ +..+....     .+++-++|+|+++..  .....|+   ..++..         ...
T Consensus        83 ~~~~h~DiieIdaas~igVd~-IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~K  161 (605)
T PRK05896         83 NTNQSVDIVELDAASNNGVDE-IRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQK  161 (605)
T ss_pred             HcCCCCceEEeccccccCHHH-HHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHh
Confidence            1000    0000000011111 11111111     123447999999743  3333332   221111         112


Q ss_pred             cccc-cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHHHHH
Q 045345          248 LLMT-HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALKVLG  308 (445)
Q Consensus       248 vl~t-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~~~~  308 (445)
                      +..| ......+++.+++.++....+...+-..+..  -..+.+..+++.++|.+. |+..+-
T Consensus       162 Ll~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~--Is~eal~~La~lS~GdlR~AlnlLe  222 (605)
T PRK05896        162 IPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIK--IEDNAIDKIADLADGSLRDGLSILD  222 (605)
T ss_pred             hhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            2212 1123568999999999998888766332211  113457789999999765 444443

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.24  E-value=9.7e-05  Score=73.17  Aligned_cols=188  Identities=15%  Similarity=0.112  Sum_probs=97.3

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc--cccceeeehhhhhhccCCHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE--FEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ....+++|.+...+.|...+..+. -...+.++|++|+||||+|..+++.+...  +....|....   ....+......
T Consensus        13 ~~~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~---~~~c~~c~~c~   88 (397)
T PRK14955         13 KKFADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEV---TEPCGECESCR   88 (397)
T ss_pred             CcHhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccC---CCCCCCCHHHH
Confidence            345789999999999998887432 13457899999999999999999875321  1111111000   00000001111


Q ss_pred             HHHHHHh----CCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCcccccccC-
Q 045345          189 QLLSELL----KLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEHLLMTHG-  253 (445)
Q Consensus       189 ~il~~l~----~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~vl~t~~-  253 (445)
                      .+.....    ..........++.. .+.+.+     .+.+-++|+|+++..  ...+.++   ........-++++.. 
T Consensus        89 ~~~~~~~~n~~~~~~~~~~~id~Ir-~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~  167 (397)
T PRK14955         89 DFDAGTSLNISEFDAASNNSVDDIR-LLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTEL  167 (397)
T ss_pred             HHhcCCCCCeEeecccccCCHHHHH-HHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence            1110000    00000111122222 222323     245568899999743  2333332   222111111222221 


Q ss_pred             ---------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHH
Q 045345          254 ---------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       254 ---------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  305 (445)
                               ....+++.+++.++..+.+...+-....  .-..+.+..|++.++|.+--+.
T Consensus       168 ~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~--~i~~~al~~l~~~s~g~lr~a~  226 (397)
T PRK14955        168 HKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGI--SVDADALQLIGRKAQGSMRDAQ  226 (397)
T ss_pred             HHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHH
Confidence                     1245789999999998888776532221  1224567889999999886443

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.24  E-value=3.2e-05  Score=79.02  Aligned_cols=184  Identities=19%  Similarity=0.158  Sum_probs=96.3

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||-+..++.|..++..+. -...+.++|++|+||||+|+.++..+-...... .        ...+.......+
T Consensus        13 ~~f~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-~--------~pcg~C~~C~~i   82 (527)
T PRK14969         13 KSFSELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKSLNCETGVT-A--------TPCGVCSACLEI   82 (527)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-C--------CCCCCCHHHHHH
Confidence            455789999999999999887432 234678999999999999999988753211000 0        000000000000


Q ss_pred             HHH----HhCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCcccccccC---
Q 045345          191 LSE----LLKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEHLLMTHG---  253 (445)
Q Consensus       191 l~~----l~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~vl~t~~---  253 (445)
                      ...    +...........++.. .+....     .+++-++|+|+++..  ...+.++   ......-.-++.|..   
T Consensus        83 ~~~~~~d~~ei~~~~~~~vd~ir-~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~k  161 (527)
T PRK14969         83 DSGRFVDLIEVDAASNTQVDAMR-ELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQK  161 (527)
T ss_pred             hcCCCCceeEeeccccCCHHHHH-HHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhh
Confidence            000    0000000011111111 111111     245679999999844  2233332   221111112222221   


Q ss_pred             -------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHHHH
Q 045345          254 -------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALKVL  307 (445)
Q Consensus       254 -------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~~~  307 (445)
                             ....+++++++.++..+.+...+-..+..  ...+.+..|++.++|.+. |+..+
T Consensus       162 il~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~--~~~~al~~la~~s~Gslr~al~ll  221 (527)
T PRK14969        162 IPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIP--FDATALQLLARAAAGSMRDALSLL  221 (527)
T ss_pred             CchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence                   12457899999999998887765322221  223556778999999875 44333

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.24  E-value=3e-05  Score=76.06  Aligned_cols=176  Identities=14%  Similarity=0.076  Sum_probs=92.8

Q ss_pred             cccccccchhHHHHHhhhccCCC--------CeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHH
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPY--------GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLI  184 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~--------~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~  184 (445)
                      ..+++|-+..++.|...+..+..        -...+.++|++|+|||++|..++..+-.....  .-.        .+..
T Consensus         4 f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~--~~~--------Cg~C   73 (394)
T PRK07940          4 WDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD--EPG--------CGEC   73 (394)
T ss_pred             hhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC--CCC--------CCCC
Confidence            35689999999999998875421        24568899999999999999998864222110  000        0000


Q ss_pred             HHHHHHHHHHh-----CCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCc---
Q 045345          185 CLQKQLLSELL-----KLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWFDE---  246 (445)
Q Consensus       185 ~l~~~il~~l~-----~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~---  246 (445)
                      .....+.....     ..........++ +..+.+.+     .+++-++|+|+++..  .....++   ..++....   
T Consensus        74 ~~C~~~~~~~hpD~~~i~~~~~~i~i~~-iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL  152 (394)
T PRK07940         74 RACRTVLAGTHPDVRVVAPEGLSIGVDE-VRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLL  152 (394)
T ss_pred             HHHHHHhcCCCCCEEEeccccccCCHHH-HHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEE
Confidence            00000000000     000000111111 12222222     234558888999743  2222232   22211111   


Q ss_pred             ------cccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHH
Q 045345          247 ------HLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKV  306 (445)
Q Consensus       247 ------~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  306 (445)
                            .++.|. .....+.+++++.++..+.+....   ..+    .+.+..++..++|.|.....
T Consensus       153 ~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~---~~~----~~~a~~la~~s~G~~~~A~~  212 (394)
T PRK07940        153 CAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRD---GVD----PETARRAARASQGHIGRARR  212 (394)
T ss_pred             EECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhc---CCC----HHHHHHHHHHcCCCHHHHHH
Confidence                  122121 123578999999999998887432   111    24467789999999975433

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

Probab=98.23  E-value=1.2e-06  Score=80.28  Aligned_cols=93  Identities=15%  Similarity=0.062  Sum_probs=58.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC-ccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcC-----hhhhHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH-EFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWN-----VYDGLK  210 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~-----~~~~~~  210 (445)
                      ...++|.|++|+|||||++.+++.+.. +|+..+|+..+.+  ...++.++++.+...+..........     ......
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~e--r~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~   93 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDE--RPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLE   93 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccC--CCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHH
Confidence            457889999999999999999998644 5888889874322  12577778777744333221111110     011122


Q ss_pred             HHHHH-HccCcEEEEEcCCCCH
Q 045345          211 MIGSR-LRYRKVLLIVDAAFDL  231 (445)
Q Consensus       211 ~l~~~-l~~~~~LlVlDdv~~~  231 (445)
                      ..... -.+++++|++|++...
T Consensus        94 ~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          94 KAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHCCCCEEEEEECHHHh
Confidence            22222 2478999999998654

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.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.23  E-value=0.0001  Score=78.72  Aligned_cols=178  Identities=15%  Similarity=0.119  Sum_probs=96.1

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccc--c-ceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE--A-SSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~--~-~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....++||.+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+.....  . .|=.+            ...
T Consensus        12 ~~f~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C------------~sC   78 (824)
T PRK07764         12 ATFAEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGEC------------DSC   78 (824)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCccc------------HHH
Confidence            445789999999999999988432 2346789999999999999999987532110  0 00000            000


Q ss_pred             HHHHHH------HhCCCCCCCcChhhhHHHHHHH-----HccCcEEEEEcCCCCH--HHHHHh---cCCCCCc-------
Q 045345          188 KQLLSE------LLKLPDTSTWNVYDGLKMIGSR-----LRYRKVLLIVDAAFDL--KQLESL---AGKHEWF-------  244 (445)
Q Consensus       188 ~~il~~------l~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~-------  244 (445)
                      ..+...      +..........+++.. .+.+.     ..++.-++|||+++..  ...+.|   +......       
T Consensus        79 ~~~~~g~~~~~dv~eidaas~~~Vd~iR-~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~t  157 (824)
T PRK07764         79 VALAPGGPGSLDVTEIDAASHGGVDDAR-ELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFAT  157 (824)
T ss_pred             HHHHcCCCCCCcEEEecccccCCHHHHH-HHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence            011000      0000000011122211 12221     2345568899999843  333333   3222111       


Q ss_pred             --Cccccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          245 --DEHLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       245 --~~~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                        ..+++.|. .....|++..++.++..+++.+.+-..+..  ...+....|++.++|.+..+
T Consensus       158 t~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~--id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        158 TEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVP--VEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             CChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence              11233221 124568999999999988887765322221  12345677899999988433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.21  E-value=0.00012  Score=75.31  Aligned_cols=184  Identities=20%  Similarity=0.173  Sum_probs=97.7

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||.+..++.|...+..+. -...+.++|+.|+||||+|+.++..+....... .        ...+.......+
T Consensus        10 ~~f~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-~--------~pCg~C~~C~~i   79 (584)
T PRK14952         10 ATFAEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARSLNCAQGPT-A--------TPCGVCESCVAL   79 (584)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCC-C--------CcccccHHHHHh
Confidence            345789999999999999987432 234578999999999999999998753211000 0        000000001111


Q ss_pred             HHHHhC------CCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCC--HHHHHHhc---CCCCCc---------C
Q 045345          191 LSELLK------LPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFD--LKQLESLA---GKHEWF---------D  245 (445)
Q Consensus       191 l~~l~~------~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~l~~l~---~~~~~~---------~  245 (445)
                      ......      ........+++. ..+.+.+     .++.-++|+|+++.  ....+.|+   ......         .
T Consensus        80 ~~~~~~~~dvieidaas~~gvd~i-Rel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~  158 (584)
T PRK14952         80 APNGPGSIDVVELDAASHGGVDDT-RELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEP  158 (584)
T ss_pred             hcccCCCceEEEeccccccCHHHH-HHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence            100000      000001111111 1122211     34566899999973  33343333   221111         1


Q ss_pred             ccccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHHHH
Q 045345          246 EHLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALKVL  307 (445)
Q Consensus       246 ~~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~~~  307 (445)
                      ..++.|. .....+++.+++.++..+.+...+...+...  ..+.+..|++.++|.+. ++..+
T Consensus       159 ~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i--~~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        159 EKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVV--DDAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             HhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHHH
Confidence            2222221 1246789999999999988877663333211  23456778889999875 44443

>PRK09087 hypothetical protein; Validated

Probab=98.21  E-value=4.4e-05  Score=69.32  Aligned_cols=52  Identities=13%  Similarity=0.003  Sum_probs=36.7

Q ss_pred             CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          255 DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       255 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                      ..++++++++.++-.+++.+.+-....  .-.+++..-|++.+.|..-++..+-
T Consensus       145 gl~~~l~~pd~e~~~~iL~~~~~~~~~--~l~~ev~~~La~~~~r~~~~l~~~l  196 (226)
T PRK09087        145 ATVVEIGEPDDALLSQVIFKLFADRQL--YVDPHVVYYLVSRMERSLFAAQTIV  196 (226)
T ss_pred             CceeecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHhhhhHHHHHHHH
Confidence            356899999999999999888733221  1224667778888888777666443

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.21  E-value=4e-05  Score=79.65  Aligned_cols=185  Identities=17%  Similarity=0.122  Sum_probs=98.8

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||.+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+.......-        ....+.......+
T Consensus        13 ~~~~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~--------~~~c~~c~~c~~i   83 (585)
T PRK14950         13 QTFAELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPK--------GRPCGTCEMCRAI   83 (585)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC--------CCCCccCHHHHHH
Confidence            345789999999999988887432 2356789999999999999999987532110000        0000111111122


Q ss_pred             HHHHhC----CCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhcC---CCCCcCccccccc----
Q 045345          191 LSELLK----LPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLAG---KHEWFDEHLLMTH----  252 (445)
Q Consensus       191 l~~l~~----~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~~---~~~~~~~~vl~t~----  252 (445)
                      ......    .........++. ..+.+.+     .+++-++|||+++..  +..+.|+.   .......-++.+.    
T Consensus        84 ~~~~~~d~~~i~~~~~~~vd~i-r~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~k  162 (585)
T PRK14950         84 AEGSAVDVIEMDAASHTSVDDA-REIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHK  162 (585)
T ss_pred             hcCCCCeEEEEeccccCCHHHH-HHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhh
Confidence            111000    000011111211 1222222     235668999999743  33444431   1111001111111    


Q ss_pred             ------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          253 ------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       253 ------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                            .....+++.+++.++....+...+...+..  -..+.+..|++.++|.+..+...
T Consensus       163 ll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~--i~~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        163 VPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN--LEPGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             hhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence                  122467899999999988888776433221  12356788999999999755443

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

Probab=98.21  E-value=1.4e-05  Score=85.29  Aligned_cols=47  Identities=17%  Similarity=0.161  Sum_probs=39.5

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +.++||+.+++.+.+.|....  ..-+.++|++|+|||+||+.+++++.
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~--~~n~lL~G~pG~GKT~l~~~la~~~~  228 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK--KNNPLLVGEPGVGKTAIAEGLALRIA  228 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHHHHH
Confidence            569999999999999887532  33567999999999999999999863

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=8.8e-05  Score=76.12  Aligned_cols=188  Identities=15%  Similarity=0.175  Sum_probs=100.2

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....+++|-+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+-......         ....+.......+
T Consensus        13 ~sf~dIiGQe~v~~~L~~ai~~~r-i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~---------~~pCg~C~sC~~i   82 (624)
T PRK14959         13 QTFAEVAGQETVKAILSRAAQENR-VAPAYLFSGTRGVGKTTIARIFAKALNCETAPT---------GEPCNTCEQCRKV   82 (624)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhccccCCCC---------CCCCcccHHHHHH
Confidence            445778999988888888887432 246788999999999999999998753211000         0000000001111


Q ss_pred             HHHHh----CCCCCCCcChhhhHHHHHHH-----HccCcEEEEEcCCCCH--HHHHHhc---CCC-CCc--------Ccc
Q 045345          191 LSELL----KLPDTSTWNVYDGLKMIGSR-----LRYRKVLLIVDAAFDL--KQLESLA---GKH-EWF--------DEH  247 (445)
Q Consensus       191 l~~l~----~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~l~~l~---~~~-~~~--------~~~  247 (445)
                      .....    .........+++ +..+.+.     ..+++-++|||+++..  .....|+   ... ...        ...
T Consensus        83 ~~g~hpDv~eId~a~~~~Id~-iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~k  161 (624)
T PRK14959         83 TQGMHVDVVEIDGASNRGIDD-AKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHK  161 (624)
T ss_pred             hcCCCCceEEEecccccCHHH-HHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhh
Confidence            10000    000000001111 1112222     2346679999999744  3333333   211 110        111


Q ss_pred             ccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCCh-HHHHHHHHhh
Q 045345          248 LLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLP-LALKVLGSFL  311 (445)
Q Consensus       248 vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlP-Lal~~~~~~L  311 (445)
                      ++.|. .....+++++++.++..+.+...+......  -..+.+..|++.++|.+ .|+..+...+
T Consensus       162 ll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~--id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        162 FPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVD--YDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             hhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            22111 113468999999999998888766433221  12356788999999965 5777665443

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.20  E-value=0.0003  Score=71.01  Aligned_cols=190  Identities=14%  Similarity=0.113  Sum_probs=99.7

Q ss_pred             ccc-cccchh--HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcccc--ceeeehhhhhhccCCHHHHHH
Q 045345          114 KDL-VGMDSC--WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEA--SSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       114 ~~~-vGr~~~--l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ++| +|....  .....++..........+.|+|++|+|||+|++++++.+..+++.  ++++.          ...+..
T Consensus       122 d~fv~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~----------~~~~~~  191 (450)
T PRK00149        122 DNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT----------SEKFTN  191 (450)
T ss_pred             cccccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE----------HHHHHH
Confidence            444 465443  233333333222234568899999999999999999987666543  33443          112222


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH-------HH----HHhcCCCCCc-------------
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK-------QL----ESLAGKHEWF-------------  244 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------~l----~~l~~~~~~~-------------  244 (445)
                      .+...+...      .    ...+.+.++ +.-+|||||++...       .+    +.+.......             
T Consensus       192 ~~~~~~~~~------~----~~~~~~~~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~  260 (450)
T PRK00149        192 DFVNALRNN------T----MEEFKEKYR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPG  260 (450)
T ss_pred             HHHHHHHcC------c----HHHHHHHHh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHH
Confidence            333333210      1    122334444 34478889996321       11    1111111000             


Q ss_pred             -CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhh------CC--CC
Q 045345          245 -DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFL------YG--KT  315 (445)
Q Consensus       245 -~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L------~~--~~  315 (445)
                       +..+........++++++++.++-.+++.+.+-.....  -.+++...|++.++|..-.|.-+-..|      .+  -+
T Consensus       261 l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~~~~--l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it  338 (450)
T PRK00149        261 LEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEEGID--LPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPIT  338 (450)
T ss_pred             HHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCC
Confidence             11111111223468899999999999998887432211  223567888888888877554332222      12  24


Q ss_pred             HHHHHHHHHHH
Q 045345          316 TKEWESAPKRL  326 (445)
Q Consensus       316 ~~~w~~~l~~l  326 (445)
                      ....+.++..+
T Consensus       339 ~~~~~~~l~~~  349 (450)
T PRK00149        339 LELAKEALKDL  349 (450)
T ss_pred             HHHHHHHHHHh
Confidence            45556666554

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.20  E-value=9.3e-05  Score=71.00  Aligned_cols=166  Identities=17%  Similarity=0.151  Sum_probs=92.3

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC-----ccccceeeehhhhhhccCCHHHHHH
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH-----EFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~-----~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      .+++|-+...+.+...+..+. -.....++|+.|+||||+|..++..+-.     .++....+...  ......+..+ +
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~-~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~--~~~~i~v~~i-r   79 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR-FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPI--NKKSIGVDDI-R   79 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccc--cCCCCCHHHH-H
Confidence            568899888999999887432 2457789999999999999999986422     12222222100  0011111111 1


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCC--CHHHHHHhc---CCCCCcCc---------cccccc-C
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAF--DLKQLESLA---GKHEWFDE---------HLLMTH-G  253 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~--~~~~l~~l~---~~~~~~~~---------~vl~t~-~  253 (445)
                      ++...+..                 .-..+++-++|+|+++  +....+.++   ..++....         .++.|. .
T Consensus        80 ~~~~~~~~-----------------~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~S  142 (313)
T PRK05564         80 NIIEEVNK-----------------KPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKS  142 (313)
T ss_pred             HHHHHHhc-----------------CcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHh
Confidence            11111110                 0112455577777775  333333333   22222111         222221 1


Q ss_pred             CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHH
Q 045345          254 VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKV  306 (445)
Q Consensus       254 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  306 (445)
                      ....+++.+++.++...++.... . .. +   .+.+..++..++|.|.-+..
T Consensus       143 Rc~~~~~~~~~~~~~~~~l~~~~-~-~~-~---~~~~~~l~~~~~g~~~~a~~  189 (313)
T PRK05564        143 RCQIYKLNRLSKEEIEKFISYKY-N-DI-K---EEEKKSAIAFSDGIPGKVEK  189 (313)
T ss_pred             hceeeeCCCcCHHHHHHHHHHHh-c-CC-C---HHHHHHHHHHcCCCHHHHHH
Confidence            23578999999999988886654 1 11 1   23367789999999875543

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.18  E-value=1.2e-05  Score=86.57  Aligned_cols=49  Identities=14%  Similarity=0.139  Sum_probs=40.3

Q ss_pred             cccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+.+|||+.+++.+...|....  ..-+.++|++|+|||+||..+++++..
T Consensus       186 ld~~iGr~~ei~~~i~~l~r~~--~~n~lLvG~pGvGKTal~~~La~~i~~  234 (852)
T TIGR03345       186 IDPVLGRDDEIRQMIDILLRRR--QNNPILTGEAGVGKTAVVEGLALRIAA  234 (852)
T ss_pred             CCcccCCHHHHHHHHHHHhcCC--cCceeEECCCCCCHHHHHHHHHHHHhh
Confidence            3579999999999999887532  335569999999999999999998643

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.16  E-value=5.1e-05  Score=76.45  Aligned_cols=53  Identities=23%  Similarity=0.312  Sum_probs=40.2

Q ss_pred             ccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...++.|.+..+++|...+..           +-...+-+.|+|++|+|||++|+++++.+...
T Consensus       180 ~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~  243 (512)
T TIGR03689       180 TYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQR  243 (512)
T ss_pred             CHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccc
Confidence            346688899999988776531           11224568899999999999999999987554

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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.15  E-value=5.2e-05  Score=66.96  Aligned_cols=39  Identities=23%  Similarity=0.353  Sum_probs=31.3

Q ss_pred             ceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH
Q 045345          256 EVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL  302 (445)
Q Consensus       256 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL  302 (445)
                      ..+++.+++.++..+.+.+.  +  . +   .+.+..|++.++|.|.
T Consensus       148 ~~~~~~~~~~~~~~~~l~~~--g--i-~---~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       148 QVLPFPPLSEEALLQWLIRQ--G--I-S---EEAAELLLALAGGSPG  186 (188)
T ss_pred             EEeeCCCCCHHHHHHHHHHc--C--C-C---HHHHHHHHHHcCCCcc
Confidence            57899999999999988776  1  1 1   3568889999999985

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.15  E-value=0.00013  Score=75.36  Aligned_cols=188  Identities=18%  Similarity=0.151  Sum_probs=100.0

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++||.+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+-......-    ........+.......+
T Consensus        21 ~~f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~----~~~~~~~cg~c~~C~~i   95 (598)
T PRK09111         21 QTFDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARALNYEGPDGD----GGPTIDLCGVGEHCQAI   95 (598)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhhCcCCcccc----CCCccccCcccHHHHHH
Confidence            455789999999999999887432 2346789999999999999999987532221000    00000000000111111


Q ss_pred             HHHH----hCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCC-CC--c------Ccc
Q 045345          191 LSEL----LKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKH-EW--F------DEH  247 (445)
Q Consensus       191 l~~l----~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~-~~--~------~~~  247 (445)
                      ....    ...........++. ..+.+.+     .+++-++|+|+++..  ...+.|+   ... ..  |      ..+
T Consensus        96 ~~g~h~Dv~e~~a~s~~gvd~I-ReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~k  174 (598)
T PRK09111         96 MEGRHVDVLEMDAASHTGVDDI-REIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRK  174 (598)
T ss_pred             hcCCCCceEEecccccCCHHHH-HHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhh
Confidence            1100    00000011112221 1122222     234568999999743  2333333   111 11  1      112


Q ss_pred             ccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHH
Q 045345          248 LLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKV  306 (445)
Q Consensus       248 vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  306 (445)
                      ++.|. .....+++.+++.++....+.+.+-.....  -..+.+..|++.++|.+.-+..
T Consensus       175 ll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~--i~~eAl~lIa~~a~Gdlr~al~  232 (598)
T PRK09111        175 VPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVE--VEDEALALIARAAEGSVRDGLS  232 (598)
T ss_pred             hhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            22221 123568999999999999998876333222  1235678889999999875543

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=0.0002  Score=74.10  Aligned_cols=185  Identities=15%  Similarity=0.112  Sum_probs=96.6

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc--cccceeeehhhhhhccCCHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE--FEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ....++||-+..+..|...+..+. -...+.++|+.|+||||+|+.+++.+-..  .....|....   ....+......
T Consensus        13 ~~f~eivGQe~i~~~L~~~i~~~r-i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~---~~~Cg~C~sC~   88 (620)
T PRK14954         13 SKFADITAQEHITHTIQNSLRMDR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEV---TEPCGECESCR   88 (620)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCcccccccc---CCCCccCHHHH
Confidence            445789999999999999887432 13457899999999999999999875321  1111111100   00011111111


Q ss_pred             HHHHHHh----CCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCc---------C
Q 045345          189 QLLSELL----KLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWF---------D  245 (445)
Q Consensus       189 ~il~~l~----~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~---------~  245 (445)
                      .+.....    ..........++... +.+.+     .+.+-++|+|+++..  ...+.|+   ......         .
T Consensus        89 ~~~~g~~~n~~~~d~~s~~~vd~Ir~-l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~  167 (620)
T PRK14954         89 DFDAGTSLNISEFDAASNNSVDDIRQ-LRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTEL  167 (620)
T ss_pred             HHhccCCCCeEEecccccCCHHHHHH-HHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCCh
Confidence            1110000    000001111222222 22222     345568899999754  2233332   222211         1


Q ss_pred             cccccc-cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH
Q 045345          246 EHLLMT-HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL  302 (445)
Q Consensus       246 ~~vl~t-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL  302 (445)
                      ..++.| ......+++.+++.++....+.+.+-..+..  -..+.+..|++.++|..-
T Consensus       168 ~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~--I~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        168 HKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQ--IDADALQLIARKAQGSMR  223 (620)
T ss_pred             hhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHhCCCHH
Confidence            122211 1224568999999999888887765322211  123567889999999665

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.14  E-value=0.00055  Score=69.25  Aligned_cols=182  Identities=16%  Similarity=0.148  Sum_probs=97.7

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-----cccceeeehhhhhhc--cCCH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-----FEASSFLANVREISE--KGGL  183 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-----f~~~~~~~~~~~~~~--~~~~  183 (445)
                      .....++|-+..+..|...+..+. -...+.++|+.|+||||+|+.++..+...     .++... .+...+..  ..++
T Consensus        13 ~~f~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c-~nc~~i~~g~~~d~   90 (486)
T PRK14953         13 KFFKEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKC-ENCVEIDKGSFPDL   90 (486)
T ss_pred             CcHHHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCcc-HHHHHHhcCCCCcE
Confidence            345779999999999999987532 23567789999999999999998865311     011100 00000000  0000


Q ss_pred             HHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCccccccc-
Q 045345          184 ICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEHLLMTH-  252 (445)
Q Consensus       184 ~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~vl~t~-  252 (445)
                      ..        +   ........++ +..+.+..     .+++-++|+|+++..  ...+.++   ........-++.++ 
T Consensus        91 ~e--------i---daas~~gvd~-ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~  158 (486)
T PRK14953         91 IE--------I---DAASNRGIDD-IRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTE  158 (486)
T ss_pred             EE--------E---eCccCCCHHH-HHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECC
Confidence            00        0   0000011111 12222222     245669999999743  2333332   22211111111111 


Q ss_pred             ---------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          253 ---------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       253 ---------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                               .....+++.+++.++....+...+-..+..  ...+.+..|++.++|.+..+....
T Consensus       159 ~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~--id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        159 YDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIE--YEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             HHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence                     123468999999999998888766332221  223557778999999877554443

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.14  E-value=0.00057  Score=67.13  Aligned_cols=170  Identities=16%  Similarity=0.206  Sum_probs=94.5

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc--------cccceeeehhhhhhccCC
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE--------FEASSFLANVREISEKGG  182 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~--------f~~~~~~~~~~~~~~~~~  182 (445)
                      ....+++|.+..++.+.+.+..+. -.+.+.++|++|+|||++|..+++.+...        |...++-.  . .....+
T Consensus        14 ~~~~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l--~-~~~~~~   89 (367)
T PRK14970         14 QTFDDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFEL--D-AASNNS   89 (367)
T ss_pred             CcHHhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEe--c-cccCCC
Confidence            345778999999999999887432 24578899999999999999998875431        11111100  0 000011


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHhc---CCCCC---c------Cccc
Q 045345          183 LICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESLA---GKHEW---F------DEHL  248 (445)
Q Consensus       183 ~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l~---~~~~~---~------~~~v  248 (445)
                      ... ..+++..+..                 .-..+++-++|+|+++..  ..++.++   .....   +      ...+
T Consensus        90 ~~~-i~~l~~~~~~-----------------~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl  151 (367)
T PRK14970         90 VDD-IRNLIDQVRI-----------------PPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKI  151 (367)
T ss_pred             HHH-HHHHHHHHhh-----------------ccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccC
Confidence            111 1111111100                 001234568999998743  2233332   22111   0      1111


Q ss_pred             ccc-cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          249 LMT-HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       249 l~t-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                      +.+ ......+++++++.++....+...+...+..  -..+.+..+++.++|.+-.+
T Consensus       152 ~~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~--i~~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        152 IPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGIK--FEDDALHIIAQKADGALRDA  206 (367)
T ss_pred             CHHHHhcceeEecCCccHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhCCCCHHHH
Confidence            111 1123468999999999998888766433321  12366788889999877644

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.13  E-value=7.7e-05  Score=74.71  Aligned_cols=149  Identities=14%  Similarity=0.107  Sum_probs=82.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCcccc--ceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEA--SSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGS  214 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~  214 (445)
                      ...+.|+|++|+|||+|+.++++.+...++.  +.|+.          ...+...+...+...      .    ...+.+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~----------~~~f~~~~~~~~~~~------~----~~~f~~  189 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT----------SEKFLNDLVDSMKEG------K----LNEFRE  189 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE----------HHHHHHHHHHHHhcc------c----HHHHHH
Confidence            4458899999999999999999987655432  34443          122333333333211      1    122333


Q ss_pred             HHccCcEEEEEcCCCCH-------HHHHHhcCCCCCcCccccccc------------------CCCceEEcCCCCHHHHH
Q 045345          215 RLRYRKVLLIVDAAFDL-------KQLESLAGKHEWFDEHLLMTH------------------GVDEVHKLKVLHDDEAL  269 (445)
Q Consensus       215 ~l~~~~~LlVlDdv~~~-------~~l~~l~~~~~~~~~~vl~t~------------------~~~~~~~l~~L~~~ea~  269 (445)
                      ..+...-+|+|||++..       +.+-.+.......+..+++++                  ....++++++.+.+.-.
T Consensus       190 ~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~  269 (440)
T PRK14088        190 KYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRK  269 (440)
T ss_pred             HHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHH
Confidence            44445568889998733       111111100000012233322                  12346789999999999


Q ss_pred             HHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          270 QLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       270 ~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                      +++.+.+......  -.++.+..|++.+.|.--.|.-+
T Consensus       270 ~IL~~~~~~~~~~--l~~ev~~~Ia~~~~~~~R~L~g~  305 (440)
T PRK14088        270 KIARKMLEIEHGE--LPEEVLNFVAENVDDNLRRLRGA  305 (440)
T ss_pred             HHHHHHHHhcCCC--CCHHHHHHHHhccccCHHHHHHH
Confidence            9888877332221  12456777888888776655433

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.10  E-value=5.3e-06  Score=79.67  Aligned_cols=95  Identities=13%  Similarity=0.033  Sum_probs=59.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC-ccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChh-----hhHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH-EFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVY-----DGLK  210 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~-----~~~~  210 (445)
                      ....+|+|++|+||||||+.+++.+.. +|+..+|+..+.+.  ...+.++++++...+............     ....
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER--~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie  246 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDER--PEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIE  246 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCc--hhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHH
Confidence            457789999999999999999998654 68888999854432  235667777776433222111111111     1111


Q ss_pred             HHHHH-HccCcEEEEEcCCCCHHH
Q 045345          211 MIGSR-LRYRKVLLIVDAAFDLKQ  233 (445)
Q Consensus       211 ~l~~~-l~~~~~LlVlDdv~~~~~  233 (445)
                      ..... ..++.++|++|++.....
T Consensus       247 ~Ae~~~e~G~dVlL~iDsItR~ar  270 (416)
T PRK09376        247 KAKRLVEHGKDVVILLDSITRLAR  270 (416)
T ss_pred             HHHHHHHcCCCEEEEEEChHHHHH
Confidence            11222 357999999999975543

>PF13173 AAA_14: AAA domain

Probab=98.09  E-value=4.9e-06  Score=68.60  Aligned_cols=34  Identities=26%  Similarity=0.328  Sum_probs=26.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +++.|.|+.|+|||||+++++.... .....+++.
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~   36 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL-PPENILYIN   36 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc-ccccceeec
Confidence            5889999999999999999998765 223445554

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.07  E-value=0.00018  Score=71.73  Aligned_cols=147  Identities=14%  Similarity=0.120  Sum_probs=79.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCcccc--ceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEA--SSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGS  214 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~  214 (445)
                      ...+.|+|++|+|||+|++++++.+....+.  ++++.          ...+...+...+...      .    ...+.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~----------~~~~~~~~~~~~~~~------~----~~~~~~  195 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS----------SEKFTNDFVNALRNN------K----MEEFKE  195 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE----------HHHHHHHHHHHHHcC------C----HHHHHH
Confidence            3568899999999999999999987655432  33443          112223333333211      1    222333


Q ss_pred             HHccCcEEEEEcCCCCHH---H-HHHhcCCCCC---cCccccccc------------------CCCceEEcCCCCHHHHH
Q 045345          215 RLRYRKVLLIVDAAFDLK---Q-LESLAGKHEW---FDEHLLMTH------------------GVDEVHKLKVLHDDEAL  269 (445)
Q Consensus       215 ~l~~~~~LlVlDdv~~~~---~-l~~l~~~~~~---~~~~vl~t~------------------~~~~~~~l~~L~~~ea~  269 (445)
                      .+++ .-+|||||++...   . .+.+......   .++.+++++                  .....+.+++.+.++-.
T Consensus       196 ~~~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~  274 (405)
T TIGR00362       196 KYRS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRL  274 (405)
T ss_pred             HHHh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHH
Confidence            3433 3478899996421   1 1111100000   012222222                  12245788888988888


Q ss_pred             HHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHH
Q 045345          270 QLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKV  306 (445)
Q Consensus       270 ~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  306 (445)
                      +++.+.+......  -.++....|++.+.|.+-.|.-
T Consensus       275 ~il~~~~~~~~~~--l~~e~l~~ia~~~~~~~r~l~~  309 (405)
T TIGR00362       275 AILQKKAEEEGLE--LPDEVLEFIAKNIRSNVRELEG  309 (405)
T ss_pred             HHHHHHHHHcCCC--CCHHHHHHHHHhcCCCHHHHHH
Confidence            8888777432221  1246677777888877765443

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).

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.06  E-value=2.4e-05  Score=84.62  Aligned_cols=47  Identities=15%  Similarity=0.203  Sum_probs=39.4

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++||+.+++.+.+.|....  .+-+.++|++|+|||++|..++.++.
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~--~~n~lL~G~pGvGKTal~~~la~~i~  225 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT--KNNPILIGEPGVGKTAIAEGLAQRIV  225 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc--cCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            468999999999999998543  23456999999999999999998754

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

Probab=98.06  E-value=0.00035  Score=64.27  Aligned_cols=173  Identities=18%  Similarity=0.183  Sum_probs=99.6

Q ss_pred             ccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc--CccccceeeehhhhhhccCCHHHHH
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS--HEFEASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~--~~f~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      |....+++|-+..+..|...+..  ...+....+|++|.|||+-|++++..+-  +-|+..+.-.+   .+...+..-..
T Consensus        32 Pkt~de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~ln---aSderGisvvr  106 (346)
T KOG0989|consen   32 PKTFDELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELN---ASDERGISVVR  106 (346)
T ss_pred             CCcHHhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhc---ccccccccchh
Confidence            45567899999999999998875  3567889999999999999999998742  33554433222   12211111000


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHHH--ccCc-EEEEEcCCCCH--HHHHHhcCCCCCc---CcccccccCC-----
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSRL--RYRK-VLLIVDAAFDL--KQLESLAGKHEWF---DEHLLMTHGV-----  254 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l--~~~~-~LlVlDdv~~~--~~l~~l~~~~~~~---~~~vl~t~~~-----  254 (445)
                      .            ...+............  ..++ -++|||++++.  +.+..+......+   .+-+++++..     
T Consensus       107 ~------------Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~  174 (346)
T KOG0989|consen  107 E------------KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIR  174 (346)
T ss_pred             h------------hhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCCh
Confidence            0            0001111000000000  0123 48899999854  3444443222221   2223333322     


Q ss_pred             -----CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCCh
Q 045345          255 -----DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       255 -----~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlP  301 (445)
                           ...|..++|..++...-+...+-..+..  -..+..+.|++.++|--
T Consensus       175 pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~--~d~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  175 PLVSRCQKFRFKKLKDEDIVDRLEKIASKEGVD--IDDDALKLIAKISDGDL  224 (346)
T ss_pred             HHHhhHHHhcCCCcchHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCcH
Confidence                 2347899999999998888887444432  23466788999988753

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.04  E-value=7.5e-05  Score=80.83  Aligned_cols=48  Identities=15%  Similarity=0.182  Sum_probs=40.2

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +.++||+.+++.+...|....  ...+.++|++|+|||+||..++.++..
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~--~~n~lL~G~pGvGKT~l~~~la~~i~~  225 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIIN  225 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC--cCceEEECCCCCCHHHHHHHHHHHhhc
Confidence            569999999999999998543  335669999999999999999988643

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

Probab=98.04  E-value=3.2e-05  Score=73.00  Aligned_cols=114  Identities=22%  Similarity=0.220  Sum_probs=77.7

Q ss_pred             cccccccchhHHHHHhhhccCCCCe-EEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHH
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGV-RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLL  191 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~-~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il  191 (445)
                      .+.+.+|+.++..+..++...+... ..|.|+|-.|.|||.+.+++.+....   ..+|+.    ..+-.....+.++|+
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~---~~vw~n----~~ecft~~~lle~IL   77 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNL---ENVWLN----CVECFTYAILLEKIL   77 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCC---cceeee----hHHhccHHHHHHHHH
Confidence            3568899999999999998655443 45689999999999999999987622   457887    334466777788888


Q ss_pred             HHHh-CCCCCCC-----cChhhhHHHHHH--HHc--cCcEEEEEcCCCCHHH
Q 045345          192 SELL-KLPDTST-----WNVYDGLKMIGS--RLR--YRKVLLIVDAAFDLKQ  233 (445)
Q Consensus       192 ~~l~-~~~~~~~-----~~~~~~~~~l~~--~l~--~~~~LlVlDdv~~~~~  233 (445)
                      .... ...+...     .+..+.+..+.+  ...  ++.++|||||++...+
T Consensus        78 ~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD  129 (438)
T KOG2543|consen   78 NKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRD  129 (438)
T ss_pred             HHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhc
Confidence            8774 2221111     122223333333  122  3589999999986654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.04  E-value=5.3e-05  Score=82.20  Aligned_cols=48  Identities=15%  Similarity=0.185  Sum_probs=39.9

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +.+|||+.+++.+...|....  ...+.++|++|+|||+||..++.++..
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~--~~n~lL~G~pGvGKT~l~~~la~~i~~  220 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVN  220 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHHHhc
Confidence            569999999999999997543  335568999999999999999988644

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.

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.03  E-value=0.0004  Score=71.43  Aligned_cols=181  Identities=18%  Similarity=0.180  Sum_probs=98.0

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-----cccceeeehhhhhhccCCHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-----FEASSFLANVREISEKGGLIC  185 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-----f~~~~~~~~~~~~~~~~~~~~  185 (445)
                      ....+++|-+..++.|...+..+. -...+.++|+.|+||||+|+.+++.+-..     +++.. ....+.+.....+. 
T Consensus        13 ~~f~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~-C~~C~~i~~~~~~d-   89 (563)
T PRK06647         13 RDFNSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGE-CSSCKSIDNDNSLD-   89 (563)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCcc-chHHHHHHcCCCCC-
Confidence            455789999999999999987532 24578899999999999999999875321     11100 00001111100000 


Q ss_pred             HHHHHHHHHhCCCCCCCcChhhhHHHHHHH-----HccCcEEEEEcCCCCH--HHHHHhcCCCC---Cc---------Cc
Q 045345          186 LQKQLLSELLKLPDTSTWNVYDGLKMIGSR-----LRYRKVLLIVDAAFDL--KQLESLAGKHE---WF---------DE  246 (445)
Q Consensus       186 l~~~il~~l~~~~~~~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~l~~l~~~~~---~~---------~~  246 (445)
                              +...........++... +.+.     ..+++-++|+|+++..  ...+.++....   ..         -.
T Consensus        90 --------v~~idgas~~~vddIr~-l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~  160 (563)
T PRK06647         90 --------VIEIDGASNTSVQDVRQ-IKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVH  160 (563)
T ss_pred             --------eEEecCcccCCHHHHHH-HHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChH
Confidence                    00000000111222111 2111     2356668999999744  33444432211   11         01


Q ss_pred             cccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHH
Q 045345          247 HLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       247 ~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  305 (445)
                      .+..+. .....+++.+++.++..+.+...+...+..  -..+.+..|++.++|.+..+.
T Consensus       161 kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~--id~eAl~lLa~~s~GdlR~al  218 (563)
T PRK06647        161 KLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIK--YEDEALKWIAYKSTGSVRDAY  218 (563)
T ss_pred             HhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            111111 123468999999999988888776433322  224567779999999886443

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

Probab=98.00  E-value=0.00027  Score=63.64  Aligned_cols=55  Identities=16%  Similarity=0.277  Sum_probs=40.9

Q ss_pred             ccccccccccchhHHHHHhhhcc--CCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDK--EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +.....++|.+.+.+.|.+-...  ......-+.+||..|+|||+|++++.+.+..+
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~   79 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQ   79 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhc
Confidence            34557899999998888653321  11234567789999999999999999876554

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.99  E-value=0.00073  Score=70.64  Aligned_cols=182  Identities=17%  Similarity=0.213  Sum_probs=97.1

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      .....++|.+..++.|...+..+. -...+.++|+.|+||||+|+.++..+-..-....+-. ...+          ...
T Consensus        15 ~~f~dIiGQe~~v~~L~~aI~~~r-l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~p-C~~C----------~~~   82 (725)
T PRK07133         15 KTFDDIVGQDHIVQTLKNIIKSNK-ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEP-CQEC----------IEN   82 (725)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCc-hhHH----------HHh
Confidence            455789999999999999887432 2456789999999999999999886422111000000 0000          000


Q ss_pred             HHH---HhCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCc---------Cccc
Q 045345          191 LSE---LLKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWF---------DEHL  248 (445)
Q Consensus       191 l~~---l~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~---------~~~v  248 (445)
                      ...   +...........++ +..+.+.+     .+++-++|+|+++..  .....|+   ..++..         ...+
T Consensus        83 ~~~~~Dvieidaasn~~vd~-IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KL  161 (725)
T PRK07133         83 VNNSLDIIEMDAASNNGVDE-IRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKI  161 (725)
T ss_pred             hcCCCcEEEEeccccCCHHH-HHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhh
Confidence            000   00000000011111 22222222     246669999999733  3344443   111111         1122


Q ss_pred             ccc-cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHHHH
Q 045345          249 LMT-HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALKVL  307 (445)
Q Consensus       249 l~t-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~~~  307 (445)
                      +.| ......+++.+++.++..+.+...+-..+..  ...+.+..|++.++|.+. |+..+
T Consensus       162 l~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~--id~eAl~~LA~lS~GslR~AlslL  220 (725)
T PRK07133        162 PLTILSRVQRFNFRRISEDEIVSRLEFILEKENIS--YEKNALKLIAKLSSGSLRDALSIA  220 (725)
T ss_pred             hHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            222 1123578999999999998887755322211  123457789999999765 44433

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

Probab=97.96  E-value=0.00042  Score=62.28  Aligned_cols=190  Identities=18%  Similarity=0.138  Sum_probs=103.6

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHH
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSEL  194 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l  194 (445)
                      .+++-...-+.|..+-..-.++.+++.++|.-|.|||.++++....+-+.=-.++.++     ....+...+...+...+
T Consensus        29 ~~~~~a~h~e~l~~l~~~i~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~-----~~~~s~~~~~~ai~~~l  103 (269)
T COG3267          29 LDYWAADHNEALLMLHAAIADGQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVID-----KPTLSDATLLEAIVADL  103 (269)
T ss_pred             hhhhhhhhhHHHHHHHHHHhcCCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEec-----CcchhHHHHHHHHHHHh
Confidence            3444444444444433333345679999999999999999965554332211222222     22345556667777776


Q ss_pred             hCCCCCCCc-ChhhhHHHHHHHH-ccCc-EEEEEcCCCCH--HHHHHh---cCCCCCc---Cccccccc-----------
Q 045345          195 LKLPDTSTW-NVYDGLKMIGSRL-RYRK-VLLIVDAAFDL--KQLESL---AGKHEWF---DEHLLMTH-----------  252 (445)
Q Consensus       195 ~~~~~~~~~-~~~~~~~~l~~~l-~~~~-~LlVlDdv~~~--~~l~~l---~~~~~~~---~~~vl~t~-----------  252 (445)
                      ...+..... ........+.... ++++ +.+++|++.+.  +.++.+   .......   -+.+++..           
T Consensus       104 ~~~p~~~~~~~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~  183 (269)
T COG3267         104 ESQPKVNVNAVLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPV  183 (269)
T ss_pred             ccCccchhHHHHHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHH
Confidence            652221111 1112222222222 4566 99999998643  333332   2111100   00111110           


Q ss_pred             ------CCCceEEcCCCCHHHHHHHHHHhhcCCCC-CchHHHHHHHHHHHHhCCChHHHHHHHH
Q 045345          253 ------GVDEVHKLKVLHDDEALQLFCKQAFKTNQ-PWKEYEQLSKYVVKYSGGLPLALKVLGS  309 (445)
Q Consensus       253 ------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~GlPLal~~~~~  309 (445)
                            |..-.|++.|++.++...++..+..+... .+--..+....|.....|.|.+|..++.
T Consensus       184 l~e~~~R~~ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         184 LRELEQRIDIRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHhhhheEEEEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence                  11122899999999988888777644332 2223346677899999999999988764

>TIGR00767 rho transcription termination factor Rho

Probab=97.95  E-value=1.2e-05  Score=77.59  Aligned_cols=95  Identities=13%  Similarity=0.070  Sum_probs=61.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChh-h----hHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVY-D----GLK  210 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~-~----~~~  210 (445)
                      ...++|+|++|+|||||++.+++.+... |+..+|+..+.+  ....+.++++.++..+............ .    ..+
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgE--R~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e  245 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDE--RPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIE  245 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCC--CCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHH
Confidence            4578999999999999999999986555 888888874322  1357788888886554332221111111 1    111


Q ss_pred             HHHHH-HccCcEEEEEcCCCCHHH
Q 045345          211 MIGSR-LRYRKVLLIVDAAFDLKQ  233 (445)
Q Consensus       211 ~l~~~-l~~~~~LlVlDdv~~~~~  233 (445)
                      ..... -.+++++|++|++.....
T Consensus       246 ~Ae~~~~~GkdVVLlIDEitR~ar  269 (415)
T TIGR00767       246 KAKRLVEHKKDVVILLDSITRLAR  269 (415)
T ss_pred             HHHHHHHcCCCeEEEEEChhHHHH
Confidence            11122 357999999999975543

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

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.95  E-value=0.00024  Score=71.26  Aligned_cols=187  Identities=17%  Similarity=0.154  Sum_probs=95.9

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcc---c-cceeee-hhhhhhccCCHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF---E-ASSFLA-NVREISEKGGLIC  185 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f---~-~~~~~~-~~~~~~~~~~~~~  185 (445)
                      ....+++|.+..++.|...+..+. -...+.++|++|+||||+|+.+++.+...-   . ..|-.+ +........... 
T Consensus        14 ~~~~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d-   91 (451)
T PRK06305         14 QTFSEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD-   91 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc-
Confidence            445789999999999999887432 135678999999999999999998753210   0 000000 000010000000 


Q ss_pred             HHHHHHHHHhCCCCCCCcChhhhHHHHHH-HHccCcEEEEEcCCCCH--HHHHHh---cCCCCCcCccccccc-------
Q 045345          186 LQKQLLSELLKLPDTSTWNVYDGLKMIGS-RLRYRKVLLIVDAAFDL--KQLESL---AGKHEWFDEHLLMTH-------  252 (445)
Q Consensus       186 l~~~il~~l~~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~~~~vl~t~-------  252 (445)
                          + ..+.+.......++......+.. ...+.+-++|+|+++..  ...+.|   +........-++++.       
T Consensus        92 ----~-~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~  166 (451)
T PRK06305         92 ----V-LEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPG  166 (451)
T ss_pred             ----e-EEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcch
Confidence                0 00000000000111111111110 11256678999998744  223332   222211111111111       


Q ss_pred             ---CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHHH
Q 045345          253 ---GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALKV  306 (445)
Q Consensus       253 ---~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~~  306 (445)
                         .....+++.+++.++..+.+...+-..+..  -..+.+..|++.++|.+. |+..
T Consensus       167 tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~--i~~~al~~L~~~s~gdlr~a~~~  222 (451)
T PRK06305        167 TILSRCQKMHLKRIPEETIIDKLALIAKQEGIE--TSREALLPIARAAQGSLRDAESL  222 (451)
T ss_pred             HHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence               123568999999999998887765322211  223567889999999775 4333

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.94  E-value=0.0018  Score=67.57  Aligned_cols=180  Identities=16%  Similarity=0.148  Sum_probs=95.6

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcccc----ceeee-hhhhhhc--cCCH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEA----SSFLA-NVREISE--KGGL  183 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~----~~~~~-~~~~~~~--~~~~  183 (445)
                      .....++|.+...+.|...+..+. -...+.++|+.|+||||+|+.++..+......    .|=.+ ..+.+..  ..++
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~   92 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI   92 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce
Confidence            345789999999999999887432 24568899999999999999998865311100    00000 0000000  0000


Q ss_pred             HHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH----HccCcEEEEEcCCCCH--HHHHHh---cCCCCCc---------C
Q 045345          184 ICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR----LRYRKVLLIVDAAFDL--KQLESL---AGKHEWF---------D  245 (445)
Q Consensus       184 ~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~---------~  245 (445)
                      .        .   .........++....+...    ..+++-++|+|+++..  ...+.|   +......         .
T Consensus        93 ~--------~---ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~  161 (614)
T PRK14971         93 H--------E---LDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEK  161 (614)
T ss_pred             E--------E---ecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCc
Confidence            0        0   0000011112211111111    1234558899999743  233333   3322211         1


Q ss_pred             ccccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          246 EHLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       246 ~~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                      ..++.+. ....++++.+++.++....+...+-..+..  ...+.+..|++.+||...-+
T Consensus       162 ~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~--i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        162 HKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGIT--AEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             hhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence            2222221 123568999999999999888766333222  12345788999999977543

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.93  E-value=0.002  Score=65.55  Aligned_cols=185  Identities=16%  Similarity=0.181  Sum_probs=97.6

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc-Ccccc--ceeeeh-hhhhhccCCHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS-HEFEA--SSFLAN-VREISEKGGLICL  186 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~-~~f~~--~~~~~~-~~~~~~~~~~~~l  186 (445)
                      ....++||-+...+.|...+..+. -..+..++|+.|+||||+|+.++..+- .....  .|..+. .+........   
T Consensus        11 ~~fdeiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~---   86 (535)
T PRK08451         11 KHFDELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHI---   86 (535)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCC---
Confidence            445789999999999999887432 245678999999999999999988742 11110  111110 0000000000   


Q ss_pred             HHHHHHHHhCCCCCCCcChhhhHHHHHHH----HccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCccccccc-----
Q 045345          187 QKQLLSELLKLPDTSTWNVYDGLKMIGSR----LRYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEHLLMTH-----  252 (445)
Q Consensus       187 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~----l~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~vl~t~-----  252 (445)
                            .+...........++....+...    ..++.-++|+|+++..  +..+.++   ...+....-++++.     
T Consensus        87 ------dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL  160 (535)
T PRK08451         87 ------DIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKL  160 (535)
T ss_pred             ------eEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhC
Confidence                  00000000001122222222110    1135568999999743  3333332   22111111111111     


Q ss_pred             -----CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          253 -----GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       253 -----~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                           .....+++.+++.++..+.+...+-..+..  -..+.+..|++.++|.+.-+..+
T Consensus       161 ~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~--i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        161 PATILSRTQHFRFKQIPQNSIISHLKTILEKEGVS--YEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             chHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHHH
Confidence                 123568999999999999887766333222  12456788999999998655433

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

Probab=97.93  E-value=0.00016  Score=71.29  Aligned_cols=55  Identities=25%  Similarity=0.301  Sum_probs=40.9

Q ss_pred             cccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ....++.|.+...++|...+..           +-...+-+.|+|++|+|||+||+++++.....|
T Consensus       142 v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~f  207 (398)
T PTZ00454        142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATF  207 (398)
T ss_pred             CCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE
Confidence            3446688999998888775531           112356788999999999999999998765443

>PRK06620 hypothetical protein; Validated

Probab=97.91  E-value=0.00015  Score=65.27  Aligned_cols=24  Identities=33%  Similarity=0.333  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.+.|+|++|+|||+|++.+++..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            568899999999999999987654

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.90  E-value=0.00022  Score=68.60  Aligned_cols=52  Identities=17%  Similarity=0.148  Sum_probs=42.3

Q ss_pred             ccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      |....+++|.+...+.+..++..+. -..++.++|++|+|||++|+.+++...
T Consensus        17 P~~~~~~~~~~~~~~~l~~~~~~~~-~~~~lll~G~~G~GKT~la~~l~~~~~   68 (316)
T PHA02544         17 PSTIDECILPAADKETFKSIVKKGR-IPNMLLHSPSPGTGKTTVAKALCNEVG   68 (316)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            3456789999999999999887432 246777799999999999999988753

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

Probab=97.90  E-value=9.2e-05  Score=68.79  Aligned_cols=112  Identities=16%  Similarity=0.126  Sum_probs=74.8

Q ss_pred             cccccch---hHHHHHhhhccC-CCCeEEEEEEccCCCchhHHHHHHHhhccCccc------cceeeehhhhhhccCCHH
Q 045345          115 DLVGMDS---CWNTLRFLMDKE-PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE------ASSFLANVREISEKGGLI  184 (445)
Q Consensus       115 ~~vGr~~---~l~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~------~~~~~~~~~~~~~~~~~~  184 (445)
                      .+||-..   .++.|..+|... ....+-+.|+|.+|+|||++++.+...+-..++      .++.+.    .....+..
T Consensus        35 rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq----~P~~p~~~  110 (302)
T PF05621_consen   35 RWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQ----MPPEPDER  110 (302)
T ss_pred             CeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEe----cCCCCChH
Confidence            4555443   355666666653 344677899999999999999999986543332      223333    45567888


Q ss_pred             HHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHcc-CcEEEEEcCCCCH
Q 045345          185 CLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRY-RKVLLIVDAAFDL  231 (445)
Q Consensus       185 ~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~~~  231 (445)
                      .+...|+..++.... ...+...........++. +.-+||||++++.
T Consensus       111 ~~Y~~IL~~lgaP~~-~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~l  157 (302)
T PF05621_consen  111 RFYSAILEALGAPYR-PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNL  157 (302)
T ss_pred             HHHHHHHHHhCcccC-CCCCHHHHHHHHHHHHHHcCCcEEEeechHHH
Confidence            999999999985533 334444555555566654 5569999999764

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

>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=97.90  E-value=2e-05  Score=65.02  Aligned_cols=24  Identities=42%  Similarity=0.479  Sum_probs=21.5

Q ss_pred             EEEEccCCCchhHHHHHHHhhccC
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      |.|+|++|+|||++|+.+++.+..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~   24 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGF   24 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhccc
Confidence            579999999999999999998753

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 ....

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.90  E-value=0.0032  Score=64.68  Aligned_cols=146  Identities=11%  Similarity=0.128  Sum_probs=80.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccc--cceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFE--ASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR  215 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~  215 (445)
                      ..+.|+|..|+|||.|+.++++.....+.  .++|+.          ...+...+...+...          ....+++.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit----------aeef~~el~~al~~~----------~~~~f~~~  374 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS----------SEEFTNEFINSIRDG----------KGDSFRRR  374 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee----------HHHHHHHHHHHHHhc----------cHHHHHHH
Confidence            45889999999999999999998654332  234443          222233333332210          11223333


Q ss_pred             HccCcEEEEEcCCCCH---H----HHHHhcCCCCCcCcccccccC------------------CCceEEcCCCCHHHHHH
Q 045345          216 LRYRKVLLIVDAAFDL---K----QLESLAGKHEWFDEHLLMTHG------------------VDEVHKLKVLHDDEALQ  270 (445)
Q Consensus       216 l~~~~~LlVlDdv~~~---~----~l~~l~~~~~~~~~~vl~t~~------------------~~~~~~l~~L~~~ea~~  270 (445)
                      +++ .=+|||||++..   +    .+-.++.....-++.+++++.                  ..-+++|++.+.+.-.+
T Consensus       375 y~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~a  453 (617)
T PRK14086        375 YRE-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIA  453 (617)
T ss_pred             hhc-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHH
Confidence            433 347888998632   1    111111100000233444332                  23457899999999999


Q ss_pred             HHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHH
Q 045345          271 LFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKV  306 (445)
Q Consensus       271 Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  306 (445)
                      ++.+.+......  -..+++.-|++.+.+..-.|.-
T Consensus       454 IL~kka~~r~l~--l~~eVi~yLa~r~~rnvR~Leg  487 (617)
T PRK14086        454 ILRKKAVQEQLN--APPEVLEFIASRISRNIRELEG  487 (617)
T ss_pred             HHHHHHHhcCCC--CCHHHHHHHHHhccCCHHHHHH
Confidence            998877433222  1245666777777766554443

>CHL00176 ftsH cell division protein; Validated

Probab=97.90  E-value=0.00024  Score=74.07  Aligned_cols=162  Identities=15%  Similarity=0.192  Sum_probs=88.8

Q ss_pred             ccccccccchhHHHHHhhhc---cC-------CCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLMD---KE-------PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKG  181 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~---~~-------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~  181 (445)
                      ...+++|.+...+++...+.   ..       ..-.+-|.|+|++|+|||+||++++......     |+.    ++   
T Consensus       181 ~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-----~i~----is---  248 (638)
T CHL00176        181 TFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-----FFS----IS---  248 (638)
T ss_pred             CHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eee----cc---
Confidence            34678898887777666542   11       1113468899999999999999998865322     221    10   


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH----------------HHHHhcCCCCCc-
Q 045345          182 GLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK----------------QLESLAGKHEWF-  244 (445)
Q Consensus       182 ~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~l~~l~~~~~~~-  244 (445)
                       ...+.    ....+      .........+.......+.+|+|||++...                .+..++...+.+ 
T Consensus       249 -~s~f~----~~~~g------~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~  317 (638)
T CHL00176        249 -GSEFV----EMFVG------VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFK  317 (638)
T ss_pred             -HHHHH----HHhhh------hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhcccc
Confidence             00000    00000      011122233444456788999999996431                133333211111 


Q ss_pred             -----------------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCC
Q 045345          245 -----------------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGG  299 (445)
Q Consensus       245 -----------------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~G  299 (445)
                                       +..++...+.+..+.++..+.++-.++++.++......   .......+++.+.|
T Consensus       318 ~~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~---~d~~l~~lA~~t~G  386 (638)
T CHL00176        318 GNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLS---PDVSLELIARRTPG  386 (638)
T ss_pred             CCCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccc---hhHHHHHHHhcCCC
Confidence                             11111112344678899999999999998877432211   12234567777776

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.89  E-value=0.00078  Score=69.84  Aligned_cols=184  Identities=17%  Similarity=0.187  Sum_probs=94.8

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC-ccc--cceeee-hhhhhhccCCHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH-EFE--ASSFLA-NVREISEKGGLICL  186 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~-~f~--~~~~~~-~~~~~~~~~~~~~l  186 (445)
                      ....++||.+...+.|...+..+. -...+.++|+.|+||||+|+.++..+-. +..  ..|-.+ ....+.......  
T Consensus        13 ~~f~~iiGq~~v~~~L~~~i~~~~-~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d--   89 (576)
T PRK14965         13 QTFSDLTGQEHVSRTLQNAIDTGR-VAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVD--   89 (576)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCC--
Confidence            455789999999999999887432 2356789999999999999999887422 110  000000 000000000000  


Q ss_pred             HHHHHHHHhCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCcccccccC---
Q 045345          187 QKQLLSELLKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEHLLMTHG---  253 (445)
Q Consensus       187 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~vl~t~~---  253 (445)
                             +...........++ +..+...+     .++.-++|+|+++..  ...+.|+   ........-++.|+.   
T Consensus        90 -------~~eid~~s~~~v~~-ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~k  161 (576)
T PRK14965         90 -------VFEIDGASNTGVDD-IRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHK  161 (576)
T ss_pred             -------eeeeeccCccCHHH-HHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhh
Confidence                   00000000011111 12222222     234558999999743  2333332   222111111222221   


Q ss_pred             -------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCCh-HHHHHH
Q 045345          254 -------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLP-LALKVL  307 (445)
Q Consensus       254 -------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlP-Lal~~~  307 (445)
                             ....+++.+++.++....+...+-..+..  -..+.+..|++.++|.. .|+..+
T Consensus       162 l~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~--i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        162 VPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGIS--ISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             hhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence                   23457889999999888887655322211  12355777888888866 444444

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.89  E-value=0.0013  Score=68.58  Aligned_cols=185  Identities=18%  Similarity=0.126  Sum_probs=98.1

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcc-ccceeeehhhhhhccCCHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF-EASSFLANVREISEKGGLICLQKQ  189 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~l~~~  189 (445)
                      .....++|.+.....|..++..+. -...+.++|+.|+||||+|+.++..+-... .....        ...+.......
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~--------~~Cg~C~~C~~   83 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTP--------EPCGKCELCRA   83 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCC--------CCCcccHHHHH
Confidence            445679999999999999888532 235678999999999999999998753221 10000        00111111111


Q ss_pred             HHHHHhC----CCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCC-C--c------Cc
Q 045345          190 LLSELLK----LPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHE-W--F------DE  246 (445)
Q Consensus       190 il~~l~~----~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~-~--~------~~  246 (445)
                      +......    .........+.. ..+...+     .+++-++|+|+++..  +..+.|+   .... .  |      ..
T Consensus        84 i~~g~h~D~~ei~~~~~~~vd~I-Reii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~  162 (620)
T PRK14948         84 IAAGNALDVIEIDAASNTGVDNI-RELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQ  162 (620)
T ss_pred             HhcCCCccEEEEeccccCCHHHH-HHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChh
Confidence            1111000    000011111111 1121222     245568999999843  3333333   2211 1  0      11


Q ss_pred             cccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          247 HLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       247 ~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                      .++.|. .....+++..++.++....+.+.+......  -..+.+..|++.++|.+..+..+
T Consensus       163 ~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~--is~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        163 RVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIE--IEPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             hhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            122221 123567888999999888887665332211  11245788999999988655433

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.89  E-value=0.00019  Score=73.41  Aligned_cols=171  Identities=19%  Similarity=0.179  Sum_probs=90.2

Q ss_pred             cccccccccchhHHHHHhhhc---c-------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMD---K-------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEK  180 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~---~-------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~  180 (445)
                      ....+++|.+...+++.+++.   .       +....+-+.++|++|+|||+||++++....-.|     +.    ++  
T Consensus        52 ~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~-----~~----i~--  120 (495)
T TIGR01241        52 VTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPF-----FS----IS--  120 (495)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCe-----ee----cc--
Confidence            345678998887766655443   1       112234588999999999999999998653322     11    00  


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH----------------HHHHhcCCCCCc
Q 045345          181 GGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK----------------QLESLAGKHEWF  244 (445)
Q Consensus       181 ~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~l~~l~~~~~~~  244 (445)
                        ...    +.....+.      ........+.......+.+|+||+++...                .+..++...+.+
T Consensus       121 --~~~----~~~~~~g~------~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~  188 (495)
T TIGR01241       121 --GSD----FVEMFVGV------GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGF  188 (495)
T ss_pred             --HHH----HHHHHhcc------cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccc
Confidence              000    11111100      11122223333445678899999986431                112222111111


Q ss_pred             ------------------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCC-hHHHH
Q 045345          245 ------------------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGL-PLALK  305 (445)
Q Consensus       245 ------------------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~Gl-PLal~  305 (445)
                                        +..++...+.+..+.++..+.++-.++|..+........   ......+++.+.|. +--|.
T Consensus       189 ~~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~---~~~l~~la~~t~G~sgadl~  265 (495)
T TIGR01241       189 GTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAP---DVDLKAVARRTPGFSGADLA  265 (495)
T ss_pred             cCCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCc---chhHHHHHHhCCCCCHHHHH
Confidence                              112221223456788999999998999887763322211   11234677777764 33344


Q ss_pred             HH
Q 045345          306 VL  307 (445)
Q Consensus       306 ~~  307 (445)
                      .+
T Consensus       266 ~l  267 (495)
T TIGR01241       266 NL  267 (495)
T ss_pred             HH
Confidence            33

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.86  E-value=5.2e-05  Score=62.85  Aligned_cols=35  Identities=31%  Similarity=0.302  Sum_probs=27.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+.|+|++|+||||+|+.++..+.......+++.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~   37 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYID   37 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEEC
Confidence            47889999999999999999988765542344443

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.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.86  E-value=0.0013  Score=67.82  Aligned_cols=180  Identities=14%  Similarity=0.142  Sum_probs=95.8

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC-ccccceeeehhhhhhccCCHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH-EFEASSFLANVREISEKGGLICLQKQ  189 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~l~~~  189 (445)
                      ....+++|.+...+.|...+..+. -...+.++|+.|+|||++|+.++..+-. +-...          ...+.......
T Consensus        13 ~~f~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~----------~pC~~C~~C~~   81 (559)
T PRK05563         13 QTFEDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDG----------EPCNECEICKA   81 (559)
T ss_pred             CcHHhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC----------CCCCccHHHHH
Confidence            455789999999999999987543 2456778999999999999999876421 10000          00000001111


Q ss_pred             HHHHHh----CCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCc---------Cc
Q 045345          190 LLSELL----KLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWF---------DE  246 (445)
Q Consensus       190 il~~l~----~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~---------~~  246 (445)
                      +.....    ..........+. +..+....     .++.-++|+|+++..  .....|+   ...+..         ..
T Consensus        82 i~~g~~~dv~eidaas~~~vd~-ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~  160 (559)
T PRK05563         82 ITNGSLMDVIEIDAASNNGVDE-IRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPH  160 (559)
T ss_pred             HhcCCCCCeEEeeccccCCHHH-HHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChh
Confidence            110000    000000011111 11222221     345668899999843  3344443   221110         11


Q ss_pred             cccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          247 HLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       247 ~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                      .+..|. .....+++.+++.++..+.+...+-..+...  ..+.+..|++.++|.+.-+
T Consensus       161 ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i--~~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        161 KIPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEY--EDEALRLIARAAEGGMRDA  217 (559)
T ss_pred             hCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHH
Confidence            111111 1234578999999999888887663332221  2355777888888877643

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

Probab=97.85  E-value=0.00015  Score=76.83  Aligned_cols=46  Identities=17%  Similarity=0.158  Sum_probs=38.5

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.++||+.+++.+.+.|....  ..-+.|+|++|+|||+||+.++..+
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~--~~n~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHHH
Confidence            469999999999999888632  2344689999999999999999864

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

Probab=97.84  E-value=0.00017  Score=66.68  Aligned_cols=84  Identities=21%  Similarity=0.241  Sum_probs=52.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc----cCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS----SHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMI  212 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~----~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l  212 (445)
                      -|+|.++||||.|||+|++++++++    .+.|..+..+.    +    +-..++...+++-+       ..+......+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE----i----nshsLFSKWFsESg-------KlV~kmF~kI  241 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE----I----NSHSLFSKWFSESG-------KLVAKMFQKI  241 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE----E----ehhHHHHHHHhhhh-------hHHHHHHHHH
Confidence            5789999999999999999999974    34455555544    2    22233334433322       2234445556


Q ss_pred             HHHHccCc--EEEEEcCCCCHHHHH
Q 045345          213 GSRLRYRK--VLLIVDAAFDLKQLE  235 (445)
Q Consensus       213 ~~~l~~~~--~LlVlDdv~~~~~l~  235 (445)
                      .+.+..+.  +++.+|.|++...-+
T Consensus       242 ~ELv~d~~~lVfvLIDEVESLa~aR  266 (423)
T KOG0744|consen  242 QELVEDRGNLVFVLIDEVESLAAAR  266 (423)
T ss_pred             HHHHhCCCcEEEEEeHHHHHHHHHH
Confidence            66666544  567789997654433

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.84  E-value=0.00023  Score=65.17  Aligned_cols=50  Identities=14%  Similarity=0.118  Sum_probs=33.3

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +..+.++...-..+...+.++|.+|+|||+||.++++.+......++++.
T Consensus        85 l~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it  134 (244)
T PRK07952         85 LSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT  134 (244)
T ss_pred             HHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            44444444332223457889999999999999999998755444455553

>PRK12377 putative replication protein; Provisional

Probab=97.83  E-value=0.00038  Score=63.91  Aligned_cols=36  Identities=17%  Similarity=0.124  Sum_probs=28.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ...+.|+|.+|+|||+||.++++.+......+.++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~  136 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT  136 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            357889999999999999999998765544456654

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

Probab=97.82  E-value=6.5e-05  Score=74.54  Aligned_cols=53  Identities=23%  Similarity=0.320  Sum_probs=40.5

Q ss_pred             cccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          113 FKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ..++.|.+..+++|...+..           +-...+-+.|+|++|+|||+||+++++.....|
T Consensus       182 ~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~f  245 (438)
T PTZ00361        182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATF  245 (438)
T ss_pred             HHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCE
Confidence            35678999999998886642           112245688999999999999999999876544

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.81  E-value=8.7e-05  Score=69.21  Aligned_cols=47  Identities=28%  Similarity=0.313  Sum_probs=33.0

Q ss_pred             cccccchhHHHHHhhhcc-------------CCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          115 DLVGMDSCWNTLRFLMDK-------------EPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~-------------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++|.+...++|......             ..+....+.++|++|+||||+|+.+++.+
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            478877776665433210             12234567899999999999999998764

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.76  E-value=0.0015  Score=68.31  Aligned_cols=49  Identities=27%  Similarity=0.344  Sum_probs=39.3

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+.++|++..+..+.+.+..  .....+.|+|++|+||||||+.+++..
T Consensus       151 ~~~~~iiGqs~~~~~l~~~ia~--~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       151 RAFSEIVGQERAIKALLAKVAS--PFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             CcHHhceeCcHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            3456799999999988777653  234578999999999999999998754

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.76  E-value=8.8e-05  Score=67.54  Aligned_cols=48  Identities=17%  Similarity=0.109  Sum_probs=35.8

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .|..+|..+-....++.|+|++|+|||+||.+++.........++|+.
T Consensus        11 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~   58 (225)
T PRK09361         11 MLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID   58 (225)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            445555544344679999999999999999999887644455677876

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.76  E-value=0.0021  Score=61.31  Aligned_cols=183  Identities=10%  Similarity=0.030  Sum_probs=98.8

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc-cC--------------ccccceeeehhhhhh
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS-SH--------------EFEASSFLANVREIS  178 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~-~~--------------~f~~~~~~~~~~~~~  178 (445)
                      .+++|.+...+.+...+..+. -.....++|+.|+||+++|.+++..+ ..              .++...|+...... 
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r-l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~-   81 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR-IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH-   81 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc-
Confidence            568999999999999887432 14688999999999999999998864 22              12333444311000 


Q ss_pred             ccCCHHHHHHHHHHHHhCCCC-CCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHH---hcCCCCCcCcc
Q 045345          179 EKGGLICLQKQLLSELLKLPD-TSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLES---LAGKHEWFDEH  247 (445)
Q Consensus       179 ~~~~~~~l~~~il~~l~~~~~-~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~---l~~~~~~~~~~  247 (445)
                      ......   ...+...+.... ...-.+++ +..+.+.+     .+.+-++|+|+++..  .....   .+..++. ..-
T Consensus        82 ~g~~~~---~~~~~~~~~~~~~~~~I~id~-ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~-~~f  156 (314)
T PRK07399         82 QGKLIT---ASEAEEAGLKRKAPPQIRLEQ-IREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGN-GTL  156 (314)
T ss_pred             cccccc---hhhhhhccccccccccCcHHH-HHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCC-CeE
Confidence            000000   000011110000 00111111 22333333     245678999998743  22222   2322222 122


Q ss_pred             cccccC----------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          248 LLMTHG----------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       248 vl~t~~----------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                      ++++..          ....+++.+++.++..+.+........ ..    .....++..++|.|.....+.
T Consensus       157 ILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~-~~----~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        157 ILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI-LN----INFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             EEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc-ch----hHHHHHHHHcCCCHHHHHHHH
Confidence            222221          235689999999999999987642111 11    113578999999997655433

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

Probab=97.69  E-value=9e-05  Score=72.86  Aligned_cols=56  Identities=21%  Similarity=0.198  Sum_probs=42.7

Q ss_pred             cccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC--ccccceeee
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH--EFEASSFLA  172 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~--~f~~~~~~~  172 (445)
                      ..++++.+..++.+...|..    .+.+.++|++|+|||++|+.+++.+..  .+..+.|+.
T Consensus       174 l~d~~i~e~~le~l~~~L~~----~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~Vt  231 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTI----KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQ  231 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEe
Confidence            35678888889999888873    246778999999999999999987643  344555555

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.67  E-value=0.00087  Score=67.12  Aligned_cols=142  Identities=11%  Similarity=0.035  Sum_probs=73.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL  216 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l  216 (445)
                      ..-+.|+|++|+|||+|++++++.+......++++.          ...+...+...+...          ....++..+
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~----------~~~f~~~~~~~l~~~----------~~~~f~~~~  200 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR----------SELFTEHLVSAIRSG----------EMQRFRQFY  200 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee----------HHHHHHHHHHHHhcc----------hHHHHHHHc
Confidence            356789999999999999999998754433344543          112222333332210          112233333


Q ss_pred             ccCcEEEEEcCCCCHH-------HHHHhcCCCCCcCccccccc------------------CCCceEEcCCCCHHHHHHH
Q 045345          217 RYRKVLLIVDAAFDLK-------QLESLAGKHEWFDEHLLMTH------------------GVDEVHKLKVLHDDEALQL  271 (445)
Q Consensus       217 ~~~~~LlVlDdv~~~~-------~l~~l~~~~~~~~~~vl~t~------------------~~~~~~~l~~L~~~ea~~L  271 (445)
                      + ..-+|++||++...       .+-.+......-+..++.++                  ....++++.+++.++-.++
T Consensus       201 ~-~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~i  279 (445)
T PRK12422        201 R-NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSF  279 (445)
T ss_pred             c-cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHH
Confidence            3 34578889986431       11111100000012233222                  1224678888998888888


Q ss_pred             HHHhhcCCCCCchHHHHHHHHHHHHhCCCh
Q 045345          272 FCKQAFKTNQPWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       272 f~~~a~~~~~~~~~~~~~~~~i~~~~~GlP  301 (445)
                      +.+.+-.....  -.++...-|++.+.|.-
T Consensus       280 L~~k~~~~~~~--l~~evl~~la~~~~~di  307 (445)
T PRK12422        280 LERKAEALSIR--IEETALDFLIEALSSNV  307 (445)
T ss_pred             HHHHHHHcCCC--CCHHHHHHHHHhcCCCH
Confidence            88776332211  12344555666555443

>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=97.67  E-value=0.024  Score=55.39  Aligned_cols=58  Identities=14%  Similarity=-0.007  Sum_probs=42.3

Q ss_pred             ceEEcCCCCHHHHHHHHHHhhcCCCCC------------------chHHHHHHHHHHHHhCCChHHHHHHHHhhCC
Q 045345          256 EVHKLKVLHDDEALQLFCKQAFKTNQP------------------WKEYEQLSKYVVKYSGGLPLALKVLGSFLYG  313 (445)
Q Consensus       256 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~------------------~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~  313 (445)
                      ..+.|.-.+++.|.++...+.......                  ......-....++.+||=-.=|..+++.++.
T Consensus       209 ~tI~L~Das~~~Ak~yV~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiks  284 (431)
T PF10443_consen  209 KTISLSDASPESAKQYVLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKS  284 (431)
T ss_pred             eEEeecCCCHHHHHHHHHHHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHc
Confidence            557899999999999998887432110                  0123444667888899999999999888876

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 [].

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

Probab=97.67  E-value=0.001  Score=58.84  Aligned_cols=49  Identities=22%  Similarity=0.266  Sum_probs=40.5

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ....++||-++-++.+.-.-.  +++.+-+.|.||||+||||-+..+++.+
T Consensus        24 ~~l~dIVGNe~tv~rl~via~--~gnmP~liisGpPG~GKTTsi~~LAr~L   72 (333)
T KOG0991|consen   24 SVLQDIVGNEDTVERLSVIAK--EGNMPNLIISGPPGTGKTTSILCLAREL   72 (333)
T ss_pred             hHHHHhhCCHHHHHHHHHHHH--cCCCCceEeeCCCCCchhhHHHHHHHHH
Confidence            445679999999988877665  3457788899999999999999998874

>PHA00729 NTP-binding motif containing protein

Probab=97.64  E-value=0.00069  Score=60.74  Aligned_cols=27  Identities=37%  Similarity=0.222  Sum_probs=23.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +...|.|+|.+|+||||||.++++.+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            455788999999999999999998753

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.58  E-value=0.0024  Score=61.36  Aligned_cols=47  Identities=19%  Similarity=0.239  Sum_probs=32.8

Q ss_pred             CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          255 DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       255 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                      ...+.+.+++.+++.+.+.... . ...    .+.+..++..++|.|+....+
T Consensus       157 c~~~~~~~~~~~~~~~~L~~~~-~-~~~----~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        157 CQQQACPLPSNEESLQWLQQAL-P-ESD----ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             ceeeeCCCcCHHHHHHHHHHhc-c-cCC----hHHHHHHHHHcCCCHHHHHHH
Confidence            3568999999999999997653 1 111    233556788999999755443

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.56  E-value=0.00025  Score=65.01  Aligned_cols=48  Identities=19%  Similarity=0.104  Sum_probs=33.5

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc------cccceeee
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE------FEASSFLA  172 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~------f~~~~~~~  172 (445)
                      .|..+|..+-....++.|+|++|+|||+||.+++......      -..++|+.
T Consensus         7 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~   60 (235)
T cd01123           7 ALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYID   60 (235)
T ss_pred             hhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEe
Confidence            3445555443446799999999999999999997553222      25677776

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 .

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.54  E-value=0.001  Score=71.39  Aligned_cols=53  Identities=21%  Similarity=0.283  Sum_probs=40.1

Q ss_pred             ccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..+++.|.+..++.|.+.+..           +-...+-+.|+|++|+|||+||+++++.....
T Consensus       176 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~  239 (733)
T TIGR01243       176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAY  239 (733)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCe
Confidence            345688999999998776632           11223568899999999999999999876543

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.54  E-value=0.00019  Score=64.47  Aligned_cols=44  Identities=16%  Similarity=0.189  Sum_probs=33.7

Q ss_pred             hhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          129 LMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       129 ~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +|..+-....++.|+|++|+|||+||.+++.........++|++
T Consensus         4 ~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237         4 LLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             hhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            34433344679999999999999999999877655556678887

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

>cd01394 radB RadB

Probab=97.52  E-value=0.00019  Score=64.98  Aligned_cols=49  Identities=16%  Similarity=0.144  Sum_probs=35.8

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..|..+|..+-....++.|.|.+|+||||||.+++.....+-..++|+.
T Consensus         6 ~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~   54 (218)
T cd01394           6 KGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID   54 (218)
T ss_pred             hHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4455666544344679999999999999999999887644444566765

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

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

Probab=97.50  E-value=0.0012  Score=62.16  Aligned_cols=160  Identities=16%  Similarity=0.202  Sum_probs=90.1

Q ss_pred             ccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCC
Q 045345          114 KDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGG  182 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~  182 (445)
                      ...=|-+.++++|.+....           +-...+=|.+||+||.|||-||++++++....|     +..++       
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtF-----Irvvg-------  218 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATF-----IRVVG-------  218 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceE-----EEecc-------
Confidence            4466889999999876542           112345688999999999999999999765544     33111       


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH-ccCcEEEEEcCCCCHH----------------HHHHhcCCCCCc-
Q 045345          183 LICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL-RYRKVLLIVDAAFDLK----------------QLESLAGKHEWF-  244 (445)
Q Consensus       183 ~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~----------------~l~~l~~~~~~~-  244 (445)
                           .++.....+..       ..++..+.+.- .+.|.+|.+|.++...                .+-+|+...+.| 
T Consensus       219 -----SElVqKYiGEG-------aRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD  286 (406)
T COG1222         219 -----SELVQKYIGEG-------ARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFD  286 (406)
T ss_pred             -----HHHHHHHhccc-------hHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCC
Confidence                 12222222111       12233333333 3578999999886321                122222222323 


Q ss_pred             -----------------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCC-CCchHHHHHHHHHHHHhCCCh
Q 045345          245 -----------------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTN-QPWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       245 -----------------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~~i~~~~~GlP  301 (445)
                                       +..++..-+.+..++++.-+.+.-.+.|.-|+.+-. ...-+    .+.+++.+.|.-
T Consensus       287 ~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd----~e~la~~~~g~s  357 (406)
T COG1222         287 PRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVD----LELLARLTEGFS  357 (406)
T ss_pred             CCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcC----HHHHHHhcCCCc
Confidence                             233333334556788886677767778877763322 22223    344666666654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.49  E-value=0.0014  Score=70.36  Aligned_cols=161  Identities=15%  Similarity=0.169  Sum_probs=86.4

Q ss_pred             cccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccC
Q 045345          113 FKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKG  181 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~  181 (445)
                      -.++.|.+...+.|.+.+..           +-...+-+.++|++|+|||+||+++++.....|-   .+. ..      
T Consensus       452 ~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi---~v~-~~------  521 (733)
T TIGR01243       452 WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFI---AVR-GP------  521 (733)
T ss_pred             hhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEE---EEe-hH------
Confidence            35577888887777665431           1112345789999999999999999987654331   111 00      


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCcChhhhHH-HHHHHHccCcEEEEEcCCCCHH--------------HHHHhcCCCCCc--
Q 045345          182 GLICLQKQLLSELLKLPDTSTWNVYDGLK-MIGSRLRYRKVLLIVDAAFDLK--------------QLESLAGKHEWF--  244 (445)
Q Consensus       182 ~~~~l~~~il~~l~~~~~~~~~~~~~~~~-~l~~~l~~~~~LlVlDdv~~~~--------------~l~~l~~~~~~~--  244 (445)
                             .++....+       ..+..+. .+...-...+.+|+||+++...              .+..++...+.+  
T Consensus       522 -------~l~~~~vG-------ese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~  587 (733)
T TIGR01243       522 -------EILSKWVG-------ESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQE  587 (733)
T ss_pred             -------HHhhcccC-------cHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccC
Confidence                   11111110       1111122 2223334578999999986321              122222111100  


Q ss_pred             ----------------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCC-CchHHHHHHHHHHHHhCCCh
Q 045345          245 ----------------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQ-PWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       245 ----------------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~GlP  301 (445)
                                      +..++...+.+..+.++..+.++-.++|..+..+... +..+    ...+++.+.|.-
T Consensus       588 ~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~----l~~la~~t~g~s  657 (733)
T TIGR01243       588 LSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVD----LEELAEMTEGYT  657 (733)
T ss_pred             CCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHcCCCC
Confidence                            2222222345667889999999999998766532221 1112    345666776654

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.

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

Probab=97.48  E-value=0.00063  Score=61.91  Aligned_cols=48  Identities=21%  Similarity=0.097  Sum_probs=34.3

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcc------ccceeee
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF------EASSFLA  172 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f------~~~~~~~  172 (445)
                      .|..+|..+-....++.|+|++|+|||+||.+++.......      ..++|+.
T Consensus         7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~   60 (226)
T cd01393           7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYID   60 (226)
T ss_pred             HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEe
Confidence            44455554334467999999999999999999987644333      4567776

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.48  E-value=0.0011  Score=66.89  Aligned_cols=52  Identities=21%  Similarity=0.199  Sum_probs=35.7

Q ss_pred             ccccccccchhHHHHHhhh---cc-----CCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLM---DK-----EPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L---~~-----~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...++.|.+...+.+....   ..     +-...+-|.++|++|+|||.+|+++++...-
T Consensus       226 ~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~  285 (489)
T CHL00195        226 KISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQL  285 (489)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC
Confidence            3456788876666655421   10     1123456889999999999999999987543

>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=97.48  E-value=0.00026  Score=64.15  Aligned_cols=34  Identities=29%  Similarity=0.433  Sum_probs=29.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .++|.|.+|.|||+|...+.......|..++++.
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t   48 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLIT   48 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEe
Confidence            5679999999999999999998988997666554

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

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

Probab=97.46  E-value=0.0017  Score=63.41  Aligned_cols=122  Identities=16%  Similarity=0.170  Sum_probs=70.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR  215 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~  215 (445)
                      ....+.|||..|.|||.|++++.+......+....+.    .    ........+...+..          .....+++.
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y----~----~se~f~~~~v~a~~~----------~~~~~Fk~~  173 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVY----L----TSEDFTNDFVKALRD----------NEMEKFKEK  173 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEe----c----cHHHHHHHHHHHHHh----------hhHHHHHHh
Confidence            3678899999999999999999998877776544443    1    122222233333221          123334444


Q ss_pred             HccCcEEEEEcCCCCHH----HHHHhcCCCCCc---CcccccccC------------------CCceEEcCCCCHHHHHH
Q 045345          216 LRYRKVLLIVDAAFDLK----QLESLAGKHEWF---DEHLLMTHG------------------VDEVHKLKVLHDDEALQ  270 (445)
Q Consensus       216 l~~~~~LlVlDdv~~~~----~l~~l~~~~~~~---~~~vl~t~~------------------~~~~~~l~~L~~~ea~~  270 (445)
                      .  .-=++++||++-..    .-+.+......+   +++++.|+.                  ..-++++.+++.+....
T Consensus       174 y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~a  251 (408)
T COG0593         174 Y--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLA  251 (408)
T ss_pred             h--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHH
Confidence            4  33378888885321    111111111111   334444442                  23468899999999999


Q ss_pred             HHHHhhc
Q 045345          271 LFCKQAF  277 (445)
Q Consensus       271 Lf~~~a~  277 (445)
                      .+.+.+.
T Consensus       252 iL~kka~  258 (408)
T COG0593         252 ILRKKAE  258 (408)
T ss_pred             HHHHHHH
Confidence            9888663

>CHL00181 cbbX CbbX; Provisional

Probab=97.45  E-value=0.0038  Score=58.86  Aligned_cols=24  Identities=33%  Similarity=0.409  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+.++|++|+|||++|+.++..+
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999998764

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

Probab=97.45  E-value=0.00038  Score=69.62  Aligned_cols=95  Identities=20%  Similarity=0.181  Sum_probs=62.0

Q ss_pred             ccccccccchhHHHHHhhhcc----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKG  181 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~  181 (445)
                      ...++=|.+..+.+|..++..          +-...+=|.++|++|+|||.||++++.++.-.|-     .    ++.  
T Consensus       188 ~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~-----~----isA--  256 (802)
T KOG0733|consen  188 SFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFL-----S----ISA--  256 (802)
T ss_pred             chhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceE-----e----ecc--
Confidence            456788999999999887653          1112456889999999999999999987654432     2    111  


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCC
Q 045345          182 GLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAF  229 (445)
Q Consensus       182 ~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~  229 (445)
                            -++.+.+.      ..+.....+.+.+.-...|++++||+++
T Consensus       257 ------peivSGvS------GESEkkiRelF~~A~~~aPcivFiDeID  292 (802)
T KOG0733|consen  257 ------PEIVSGVS------GESEKKIRELFDQAKSNAPCIVFIDEID  292 (802)
T ss_pred             ------hhhhcccC------cccHHHHHHHHHHHhccCCeEEEeeccc
Confidence                  11222222      1222333444455556789999999987

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.45  E-value=0.0004  Score=66.50  Aligned_cols=49  Identities=16%  Similarity=0.213  Sum_probs=41.0

Q ss_pred             cccccchhHHHHHhhhccC----CCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          115 DLVGMDSCWNTLRFLMDKE----PYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~----~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +++|.++.++++.+++...    ....++++|+|++|+||||||.++++.+..
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            7999999999998888641    234688999999999999999999987533

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK08116 hypothetical protein; Validated

Probab=97.44  E-value=0.00075  Score=62.97  Aligned_cols=35  Identities=23%  Similarity=0.152  Sum_probs=27.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .-+.|+|.+|+|||.||.++++.+..+...++++.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~  149 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN  149 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            35789999999999999999998755433445544

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

Probab=97.44  E-value=0.0025  Score=65.03  Aligned_cols=74  Identities=22%  Similarity=0.282  Sum_probs=46.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccc-cceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFE-ASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR  215 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~  215 (445)
                      .+.|.|.|+.|+|||+||+++++.+..... .+.++. .. ......+..+++.+                  ...+...
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~-Cs-~l~~~~~e~iQk~l------------------~~vfse~  490 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVS-CS-TLDGSSLEKIQKFL------------------NNVFSEA  490 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEe-ch-hccchhHHHHHHHH------------------HHHHHHH
Confidence            467889999999999999999998764322 223333 11 11122233333322                  2234556


Q ss_pred             HccCcEEEEEcCCCC
Q 045345          216 LRYRKVLLIVDAAFD  230 (445)
Q Consensus       216 l~~~~~LlVlDdv~~  230 (445)
                      +...|-+|||||++.
T Consensus       491 ~~~~PSiIvLDdld~  505 (952)
T KOG0735|consen  491 LWYAPSIIVLDDLDC  505 (952)
T ss_pred             HhhCCcEEEEcchhh
Confidence            677889999999863

>PRK08118 topology modulation protein; Reviewed

Probab=97.43  E-value=0.00013  Score=63.09  Aligned_cols=32  Identities=34%  Similarity=0.428  Sum_probs=25.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC---cccccee
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH---EFEASSF  170 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~---~f~~~~~  170 (445)
                      .|.|+|++|+||||||+.+++.+.-   +|+..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            5889999999999999999987533   3555555

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.42  E-value=0.0032  Score=59.33  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=20.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      -+.|+|++|+|||++|+.++..+.
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~   83 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILH   83 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHH
Confidence            578999999999999988887643

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.

>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=97.37  E-value=0.00014  Score=59.01  Aligned_cols=23  Identities=39%  Similarity=0.459  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|+|.|++|+||||+|+.+++.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999875

...

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

Probab=97.36  E-value=0.0026  Score=68.18  Aligned_cols=49  Identities=24%  Similarity=0.369  Sum_probs=38.1

Q ss_pred             ccccccchhHHHHHhhhccC------CCC-eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKE------PYG-VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~------~~~-~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|.+..++.+...+...      ++. ...+.++|++|+|||+||+.++..+.
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~  509 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG  509 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc
Confidence            56889999988887776531      111 34678999999999999999998763

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

Probab=97.34  E-value=0.001  Score=69.66  Aligned_cols=114  Identities=18%  Similarity=0.191  Sum_probs=70.8

Q ss_pred             ccccccchhHHHHHhhhcc-------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHH
Q 045345          114 KDLVGMDSCWNTLRFLMDK-------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICL  186 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~-------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l  186 (445)
                      ...+|-+..+..+.+.+..       .+.........||.|+|||.||++++..+...=...+-++ .++..+.++    
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~D-MSEy~EkHs----  565 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRID-MSEYMEKHS----  565 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeec-hHHHHHHHH----
Confidence            5689999999998877653       2222567888999999999999999987654334444444 222222222    


Q ss_pred             HHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcE-EEEEcCCC--CHHHHHHhc
Q 045345          187 QKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKV-LLIVDAAF--DLKQLESLA  238 (445)
Q Consensus       187 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~--~~~~l~~l~  238 (445)
                          .+.+.+.++.... .++ --.+-+..+++|| +|.||+++  +++.++-++
T Consensus       566 ----VSrLIGaPPGYVG-yee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilL  614 (786)
T COG0542         566 ----VSRLIGAPPGYVG-YEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLL  614 (786)
T ss_pred             ----HHHHhCCCCCCce-ecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHH
Confidence                2333444332221 111 2235566678887 88899997  555555554

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.33  E-value=0.00086  Score=64.58  Aligned_cols=103  Identities=13%  Similarity=0.041  Sum_probs=58.4

Q ss_pred             HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccc--eeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCc
Q 045345          126 LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEAS--SFLANVREISEKGGLICLQKQLLSELLKLPDTSTW  203 (445)
Q Consensus       126 l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~--~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~  203 (445)
                      +.+.+..-. ....++|+|.+|+|||||++.+++.+..+.+.+  +|+. +  ......+.++.+.+...+.........
T Consensus       123 vID~l~PiG-kGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~l-I--gER~~EV~df~~~i~~~Vvast~de~~  198 (380)
T PRK12608        123 VVDLVAPIG-KGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLL-I--DERPEEVTDMRRSVKGEVYASTFDRPP  198 (380)
T ss_pred             hhhheeecC-CCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEE-e--cCCCCCHHHHHHHHhhhEEeecCCCCH
Confidence            444444311 234668999999999999999998876554333  3332 2  123456667777776655432211111


Q ss_pred             Ch----hhhHHHHHHHH--ccCcEEEEEcCCCCHH
Q 045345          204 NV----YDGLKMIGSRL--RYRKVLLIVDAAFDLK  232 (445)
Q Consensus       204 ~~----~~~~~~l~~~l--~~~~~LlVlDdv~~~~  232 (445)
                      ..    ......+.+++  +++.++||+|++....
T Consensus       199 ~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~A  233 (380)
T PRK12608        199 DEHIRVAELVLERAKRLVEQGKDVVILLDSLTRLA  233 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHHH
Confidence            11    11111122222  4799999999986543

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

Probab=97.32  E-value=0.00033  Score=61.13  Aligned_cols=35  Identities=23%  Similarity=0.247  Sum_probs=25.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .-+.|+|++|+|||.||.++++....+-..+.|+.
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~   82 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT   82 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence            46889999999999999999987544333456654

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.

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

Probab=97.31  E-value=0.013  Score=58.09  Aligned_cols=227  Identities=18%  Similarity=0.066  Sum_probs=113.4

Q ss_pred             hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCC
Q 045345          121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDT  200 (445)
Q Consensus       121 ~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~  200 (445)
                      .-+..+.+.+...   ..++.|.|+-++|||||++.+.....+.   .+++...........+    .+.          
T Consensus        24 ~~~~~l~~~~~~~---~~i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~~~l----~d~----------   83 (398)
T COG1373          24 KLLPRLIKKLDLR---PFIILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDRIEL----LDL----------   83 (398)
T ss_pred             hhhHHHHhhcccC---CcEEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcchhhH----HHH----------
Confidence            3344444444422   1299999999999999997777665444   4444311101101111    111          


Q ss_pred             CCcChhhhHHHHHHHHccCcEEEEEcCCCCHHHHHHhcCCC-CCcCccccccc---------------CCCceEEcCCCC
Q 045345          201 STWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKH-EWFDEHLLMTH---------------GVDEVHKLKVLH  264 (445)
Q Consensus       201 ~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~l~~l~~~~-~~~~~~vl~t~---------------~~~~~~~l~~L~  264 (445)
                              ...+...-..++.+++||.|.....|...+... +.....++++.               +....+++-|||
T Consensus        84 --------~~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlS  155 (398)
T COG1373          84 --------LRAYIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNLDVLITGSSSSLLSKEISESLAGRGKDLELYPLS  155 (398)
T ss_pred             --------HHHHHHhhccCCceEEEecccCchhHHHHHHHHHccccceEEEECCchhhhccchhhhcCCCceeEEECCCC
Confidence                    111111111277899999999888766554211 10010222222               123557899999


Q ss_pred             HHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCCCHHHHHHHHHHHhcCCchhHHHHHHHhh-c
Q 045345          265 DDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERESENEILDILKISF-D  343 (445)
Q Consensus       265 ~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~l~~~~~~~i~~~l~~s~-~  343 (445)
                      ..|-..+-....    ... .... .-+-.-..||.|-++..-...-.      ........   .   ..++.+..- .
T Consensus       156 F~Efl~~~~~~~----~~~-~~~~-~f~~Yl~~GGfP~~v~~~~~~~~------~~~~~~~~---~---~~Di~~~~~~~  217 (398)
T COG1373         156 FREFLKLKGEEI----EPS-KLEL-LFEKYLETGGFPESVKADLSEKK------LKEYLDTI---L---KRDIIERGKIE  217 (398)
T ss_pred             HHHHHhhccccc----chh-HHHH-HHHHHHHhCCCcHHHhCcchhhH------HHHHHHHH---H---HHHHHHHcCcc
Confidence            988876543111    000 1111 22233457999988753222110      11111110   0   011111111 1


Q ss_pred             CCcHhHHHHHhhhhcc-CCCCCHHHHHHHHH-hCCCCchhcHHHHhhcCceEE
Q 045345          344 GLRETEKKIFLDIACF-YRGEDRDYVTKIID-YCDFDPVIGIRVLIDKSLIEI  394 (445)
Q Consensus       344 ~L~~~~k~~~~~la~f-~~~~~~~~l~~~~~-~~~~~~~~~l~~L~~~sLi~~  394 (445)
                      .. ...++++..++-. +..++...+...+. .........++.|.+.-++..
T Consensus       218 ~~-~~~k~i~~~l~~~~g~~~s~~~la~~l~~is~~Ti~~Yl~~le~~fll~~  269 (398)
T COG1373         218 NA-DLMKRILRFLASNIGSPISYSSLARELKGISKDTIRKYLSYLEDAFLLFL  269 (398)
T ss_pred             cH-HHHHHHHHHHHhhcCCccCHHHHHHHHhccchHHHHHHHHHHHHhhheEE
Confidence            11 3556666555544 45588888888884 333334556777777777763

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

Probab=97.27  E-value=0.00064  Score=64.61  Aligned_cols=96  Identities=20%  Similarity=0.071  Sum_probs=54.7

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCC----CC
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKL----PD  199 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~----~~  199 (445)
                      .|..+|. .+-...+++-|+|++|+||||||.+++......-..++|++.-..    .+.     ..+..++..    -.
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~----~~~-----~~a~~lGvd~~~l~v  112 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHA----LDP-----VYAKKLGVDLDNLLI  112 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECcccc----HHH-----HHHHHcCCCHHHhee
Confidence            4445555 333456799999999999999999988765444456677762111    111     122222110    01


Q ss_pred             CCCcChhhhHHHHHHHHc-cCcEEEEEcCCC
Q 045345          200 TSTWNVYDGLKMIGSRLR-YRKVLLIVDAAF  229 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  229 (445)
                      ..+.+.++....+....+ +..-+||+|-|.
T Consensus       113 ~~p~~~eq~l~i~~~li~s~~~~lIVIDSva  143 (325)
T cd00983         113 SQPDTGEQALEIADSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             cCCCCHHHHHHHHHHHHhccCCCEEEEcchH
Confidence            122344555555555444 356789999874

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK06921 hypothetical protein; Provisional

Probab=97.27  E-value=0.00049  Score=64.09  Aligned_cols=36  Identities=19%  Similarity=0.183  Sum_probs=28.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc-cccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~  172 (445)
                      ..-+.++|.+|+|||+||.++++.+..+ ...++|+.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            4578899999999999999999987654 34456665

>PRK07261 topology modulation protein; Provisional

Probab=97.23  E-value=0.0015  Score=56.65  Aligned_cols=23  Identities=43%  Similarity=0.549  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|.|+|++|+||||||+.+....
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.23  E-value=0.0028  Score=61.45  Aligned_cols=37  Identities=24%  Similarity=0.274  Sum_probs=27.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +.++|+|+|++|+||||++..++..+..+-..+.++.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~  276 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFIT  276 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEe
Confidence            3579999999999999999999877643322334443

>PRK06762 hypothetical protein; Provisional

Probab=97.23  E-value=0.0019  Score=55.62  Aligned_cols=24  Identities=38%  Similarity=0.462  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+|.|.|++|+||||+|+.+.+.+
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            588999999999999999998876

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.23  E-value=0.012  Score=56.03  Aligned_cols=83  Identities=18%  Similarity=0.079  Sum_probs=49.4

Q ss_pred             cCcEEEEEcCCCCH--HHHHHh---cCCC-CC--c------CcccccccC-CCceEEcCCCCHHHHHHHHHHhhcCCCCC
Q 045345          218 YRKVLLIVDAAFDL--KQLESL---AGKH-EW--F------DEHLLMTHG-VDEVHKLKVLHDDEALQLFCKQAFKTNQP  282 (445)
Q Consensus       218 ~~~~LlVlDdv~~~--~~l~~l---~~~~-~~--~------~~~vl~t~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  282 (445)
                      ++.-++|||+++..  ..-..+   +..+ ..  |      ...++.|.+ ....+.+.+++.+++.+.+....    .+
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~----~~  187 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG----VS  187 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC----CC
Confidence            35569999999843  222222   2222 21  1      233333322 23568899999999999886531    11


Q ss_pred             chHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          283 WKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       283 ~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                          ...+..++..++|.|+....+.
T Consensus       188 ----~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        188 ----ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             ----hHHHHHHHHHcCCCHHHHHHHh
Confidence                1225678999999998664443

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.22  E-value=0.0086  Score=53.48  Aligned_cols=60  Identities=22%  Similarity=0.233  Sum_probs=43.5

Q ss_pred             CCccccccccccchhHHHHHhhhcc--CCCCeEEEEEEccCCCchhHHHHHHHhhccCcccc
Q 045345          108 AKSEIFKDLVGMDSCWNTLRFLMDK--EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEA  167 (445)
Q Consensus       108 ~~~~~~~~~vGr~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~  167 (445)
                      ..+..-..++|.+...+.|.+-...  ..-...-|.+||.-|+|||+|++++.+.+......
T Consensus        54 ~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glr  115 (287)
T COG2607          54 PDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLR  115 (287)
T ss_pred             CCCcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCe
Confidence            3334556799999988887553221  11224567899999999999999999988776655

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.22  E-value=0.0061  Score=60.67  Aligned_cols=29  Identities=28%  Similarity=0.306  Sum_probs=24.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...+|.++|++|+||||+|..++..+...
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~  122 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKK  122 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            46789999999999999999998876544

>TIGR02012 tigrfam_recA protein RecA

Probab=97.21  E-value=0.00064  Score=64.57  Aligned_cols=97  Identities=19%  Similarity=0.099  Sum_probs=55.1

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCC----CC
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKL----PD  199 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~----~~  199 (445)
                      .|..+|. .+-...+++-|+|++|+||||||.+++......-..++|++.-.      .+..   ..+..++..    ..
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~------~~~~---~~a~~lGvd~~~l~v  112 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEH------ALDP---VYARKLGVDIDNLLV  112 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccc------hhHH---HHHHHcCCCHHHeEE
Confidence            4445554 34445679999999999999999998876544444566775211      1111   122222210    01


Q ss_pred             CCCcChhhhHHHHHHHHc-cCcEEEEEcCCCC
Q 045345          200 TSTWNVYDGLKMIGSRLR-YRKVLLIVDAAFD  230 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~  230 (445)
                      ..+.+.++....+....+ +..-+||+|-|..
T Consensus       113 ~~p~~~eq~l~~~~~li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       113 SQPDTGEQALEIAETLVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             ecCCCHHHHHHHHHHHhhccCCcEEEEcchhh
Confidence            122344455555554443 4567999998753

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.

>PRK09354 recA recombinase A; Provisional

Probab=97.21  E-value=0.00073  Score=64.75  Aligned_cols=97  Identities=18%  Similarity=0.082  Sum_probs=56.4

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCC----CC
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKL----PD  199 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~----~~  199 (445)
                      .|..+|. .+-...+++-|+|++|+||||||.+++......-..++|++.-    ...+.     ..+..++..    -.
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E----~s~~~-----~~a~~lGvdld~lli  117 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAE----HALDP-----VYAKKLGVDIDNLLV  117 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCc----cchHH-----HHHHHcCCCHHHeEE
Confidence            4445565 4444567999999999999999999887655444566777622    11111     122222210    01


Q ss_pred             CCCcChhhhHHHHHHHHc-cCcEEEEEcCCCC
Q 045345          200 TSTWNVYDGLKMIGSRLR-YRKVLLIVDAAFD  230 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~  230 (445)
                      ..+.+.++....+...++ +..-+||+|-|-.
T Consensus       118 ~qp~~~Eq~l~i~~~li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        118 SQPDTGEQALEIADTLVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             ecCCCHHHHHHHHHHHhhcCCCCEEEEeChhh
Confidence            122344555555555444 3567899998753

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

Probab=97.21  E-value=0.00068  Score=64.74  Aligned_cols=29  Identities=28%  Similarity=0.367  Sum_probs=25.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      -.+.++|||++|+|||.+|++++......
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            36789999999999999999999987554

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

Probab=97.20  E-value=0.0014  Score=68.70  Aligned_cols=47  Identities=15%  Similarity=0.239  Sum_probs=39.2

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +..+||+.+++.+.+.|.....+.++  ++|.+|+|||+++.-++.++.
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPv--LiGEpGVGKTAIvEGLA~rIv  216 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPV--LVGEPGVGKTAIVEGLAQRIV  216 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCe--EecCCCCCHHHHHHHHHHHHh
Confidence            56899999999999999875444333  689999999999999998853

>PRK06696 uridine kinase; Validated

Probab=97.18  E-value=0.00047  Score=62.65  Aligned_cols=45  Identities=18%  Similarity=0.070  Sum_probs=35.2

Q ss_pred             cchhHHHHHhhhcc-CCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          119 MDSCWNTLRFLMDK-EPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       119 r~~~l~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      |.+.+++|.+.+.. ...+..+|+|.|.+|+||||||+.++..+..
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            55667777666643 3446789999999999999999999987643

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.17  E-value=0.002  Score=53.81  Aligned_cols=24  Identities=38%  Similarity=0.571  Sum_probs=20.9

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +|.+.|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            578999999999999999986543

...

>PRK10536 hypothetical protein; Provisional

Probab=97.15  E-value=0.0031  Score=57.59  Aligned_cols=55  Identities=11%  Similarity=0.067  Sum_probs=40.5

Q ss_pred             ccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh-c-cCcccccee
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL-S-SHEFEASSF  170 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~-~-~~~f~~~~~  170 (445)
                      ....+.++......+..++..    ..++.+.|++|.|||+||.+++.+ + ...|...+.
T Consensus        53 ~~~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI  109 (262)
T PRK10536         53 DTSPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIV  109 (262)
T ss_pred             CCccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEE
Confidence            335567788888888887763    249999999999999999998874 3 444554443

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=97.15  E-value=0.00058  Score=63.14  Aligned_cols=93  Identities=19%  Similarity=0.134  Sum_probs=54.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCC------CCCCCcChhh---
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKL------PDTSTWNVYD---  207 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~------~~~~~~~~~~---  207 (445)
                      .+.++|.|.+|+|||+|+..+++....+|...+++.-+.+-  ...+..+.+.+...-...      ...+.....+   
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer--~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~  146 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGER--TREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARV  146 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccC--cHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            45789999999999999999999988777777766543221  233344444443321000      0011111111   


Q ss_pred             --hHHHHHHHH--c-cCcEEEEEcCCCCH
Q 045345          208 --GLKMIGSRL--R-YRKVLLIVDAAFDL  231 (445)
Q Consensus       208 --~~~~l~~~l--~-~~~~LlVlDdv~~~  231 (445)
                        ..-.+.+++  + ++.+||++||+...
T Consensus       147 ~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         147 ALTGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence              111233444  3 88999999998643

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.

>PRK07667 uridine kinase; Provisional

Probab=97.15  E-value=0.00065  Score=60.19  Aligned_cols=41  Identities=27%  Similarity=0.285  Sum_probs=31.9

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ++.|.+.+........+|+|.|.+|.||||+|..+...+..
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~   43 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQ   43 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            44555666554455689999999999999999999987654

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.15  E-value=0.00064  Score=70.46  Aligned_cols=53  Identities=17%  Similarity=0.188  Sum_probs=43.1

Q ss_pred             ccccccccccchhHHHHHhhhccCC---CCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDKEP---YGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~~~---~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      |....+++|-+..++++..++....   ...++++|+|++|+||||+++.++..+.
T Consensus        80 P~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        80 PETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3456789999999999999887522   2346799999999999999999998654

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

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.14  E-value=0.0013  Score=67.30  Aligned_cols=74  Identities=20%  Similarity=0.318  Sum_probs=48.1

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR  215 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~  215 (445)
                      ..++..++|++|+||||||.-++++..  |. ++=+.    .|...+...+.+.|...+......+.             
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaG--Ys-VvEIN----ASDeRt~~~v~~kI~~avq~~s~l~a-------------  384 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAG--YS-VVEIN----ASDERTAPMVKEKIENAVQNHSVLDA-------------  384 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcC--ce-EEEec----ccccccHHHHHHHHHHHHhhcccccc-------------
Confidence            467999999999999999999987531  21 22233    45555555555555555443221111             


Q ss_pred             HccCcEEEEEcCCCC
Q 045345          216 LRYRKVLLIVDAAFD  230 (445)
Q Consensus       216 l~~~~~LlVlDdv~~  230 (445)
                       .++|..||+|.++-
T Consensus       385 -dsrP~CLViDEIDG  398 (877)
T KOG1969|consen  385 -DSRPVCLVIDEIDG  398 (877)
T ss_pred             -CCCcceEEEecccC
Confidence             26889999999984

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.14  E-value=0.0011  Score=61.42  Aligned_cols=37  Identities=22%  Similarity=0.169  Sum_probs=28.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +..-+.++|.+|+|||.||.++.+.+...--.+.|+.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~  140 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT  140 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEE
Confidence            4457789999999999999999999774334455554

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.13  E-value=0.013  Score=56.64  Aligned_cols=46  Identities=17%  Similarity=0.052  Sum_probs=34.7

Q ss_pred             cccc-cchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          115 DLVG-MDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       115 ~~vG-r~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++| -+..++.+...+..+. -.....++|+.|+|||++|..+++.+
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~-l~ha~Lf~G~~G~gk~~~a~~la~~l   52 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNR-LSHAYLFEGAKGTGKKATALWLAKSL   52 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHH
Confidence            4566 5666777777776332 24577899999999999999998864

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.12  E-value=0.00068  Score=64.96  Aligned_cols=35  Identities=17%  Similarity=0.144  Sum_probs=28.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .-+.|+|.+|+|||+||.++++.+......++|+.
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t  218 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT  218 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            56889999999999999999998655444556655

>PRK08181 transposase; Validated

Probab=97.12  E-value=0.0017  Score=60.44  Aligned_cols=35  Identities=20%  Similarity=0.025  Sum_probs=27.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .-+.|+|++|+|||.||.++++....+.-.+.|+.
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~  141 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR  141 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence            35889999999999999999987655443455554

>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=97.10  E-value=0.00067  Score=60.13  Aligned_cols=35  Identities=20%  Similarity=0.295  Sum_probs=25.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +++.++|+.|+||||.+..++.++..+-..+..+.
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis   36 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALIS   36 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhccccceeec
Confidence            68999999999999998888877554433444444

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

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

Probab=97.08  E-value=0.0048  Score=62.63  Aligned_cols=53  Identities=21%  Similarity=0.247  Sum_probs=36.8

Q ss_pred             ccccccchhHHHHHhhhc-----------cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccc
Q 045345          114 KDLVGMDSCWNTLRFLMD-----------KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE  166 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~-----------~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~  166 (445)
                      +++=|.++...+|.+...           -+.+..+-|.++|+||+|||++|+++++.....|-
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFl  497 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFL  497 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCee
Confidence            334456666666654332           12244677889999999999999999997666553

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.07  E-value=0.0055  Score=57.29  Aligned_cols=37  Identities=22%  Similarity=0.232  Sum_probs=28.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..++++++|++|+||||++..++..+...-..+.++.
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~  107 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAA  107 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEe
Confidence            4679999999999999999999877654433344443

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.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.07  E-value=0.016  Score=55.77  Aligned_cols=166  Identities=15%  Similarity=0.076  Sum_probs=82.7

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC-c-cc-cceeeeh-hhh--hhccCCHHHHHHHHHHHHh
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH-E-FE-ASSFLAN-VRE--ISEKGGLICLQKQLLSELL  195 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~-~-f~-~~~~~~~-~~~--~~~~~~~~~l~~~il~~l~  195 (445)
                      ..+.+.+.+..+. -...+.++|+.|+||+++|.+++..+-. + -. ..|=.+. .+.  ....+++..+        .
T Consensus        10 ~~~~l~~~~~~~r-l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i--------~   80 (334)
T PRK07993         10 DYEQLVGSYQAGR-GHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTL--------T   80 (334)
T ss_pred             HHHHHHHHHHcCC-cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEE--------e
Confidence            3445555555322 2457889999999999999999886421 1 00 0000000 000  0001111100        0


Q ss_pred             CCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc---CCCCCc---------CcccccccC-CC
Q 045345          196 KLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA---GKHEWF---------DEHLLMTHG-VD  255 (445)
Q Consensus       196 ~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~---------~~~vl~t~~-~~  255 (445)
                      .......-.+++ +..+.+.+     .++.-++|+|+++..  +.-..++   ..++..         ...++.|.+ ..
T Consensus        81 p~~~~~~I~idq-iR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRC  159 (334)
T PRK07993         81 PEKGKSSLGVDA-VREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRC  159 (334)
T ss_pred             cccccccCCHHH-HHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcc
Confidence            000000111222 22233333     246669999999843  3333332   222211         233444422 23


Q ss_pred             ceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          256 EVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       256 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                      ..+.+.+++.+++.+.+....   ..+    .+.+..++..++|.|...
T Consensus       160 q~~~~~~~~~~~~~~~L~~~~---~~~----~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        160 RLHYLAPPPEQYALTWLSREV---TMS----QDALLAALRLSAGAPGAA  201 (334)
T ss_pred             ccccCCCCCHHHHHHHHHHcc---CCC----HHHHHHHHHHcCCCHHHH
Confidence            568999999999999886542   111    123667899999999643

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

Probab=97.07  E-value=0.0037  Score=62.78  Aligned_cols=117  Identities=18%  Similarity=0.242  Sum_probs=69.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH-
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR-  215 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~-  215 (445)
                      ..=|.+||++|+|||-||+++++.-..+|-.+            .+.     +++....+.       .+..+..+..+ 
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~NFisV------------KGP-----ELlNkYVGE-------SErAVR~vFqRA  600 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGANFISV------------KGP-----ELLNKYVGE-------SERAVRQVFQRA  600 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCceEee------------cCH-----HHHHHHhhh-------HHHHHHHHHHHh
Confidence            34577999999999999999999876665221            011     122222211       12333333333 


Q ss_pred             HccCcEEEEEcCCCCH-------------HHHHHhcCCCCCc------------------CcccccccCCCceEEcCCCC
Q 045345          216 LRYRKVLLIVDAAFDL-------------KQLESLAGKHEWF------------------DEHLLMTHGVDEVHKLKVLH  264 (445)
Q Consensus       216 l~~~~~LlVlDdv~~~-------------~~l~~l~~~~~~~------------------~~~vl~t~~~~~~~~l~~L~  264 (445)
                      -...|++|.||.++..             ..+.+|+-..+.+                  +..++.--+.+..+-|+.-+
T Consensus       601 R~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn  680 (802)
T KOG0733|consen  601 RASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPN  680 (802)
T ss_pred             hcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCC
Confidence            3468999999998632             1233333211111                  33333334455677888889


Q ss_pred             HHHHHHHHHHhhc
Q 045345          265 DDEALQLFCKQAF  277 (445)
Q Consensus       265 ~~ea~~Lf~~~a~  277 (445)
                      .+|-..+++...-
T Consensus       681 ~~eR~~ILK~~tk  693 (802)
T KOG0733|consen  681 AEERVAILKTITK  693 (802)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988774

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.06  E-value=0.0019  Score=63.11  Aligned_cols=49  Identities=22%  Similarity=0.148  Sum_probs=35.4

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+.+.|..+-....++.|.|.+|+|||||+.+++......-..++|+.
T Consensus        69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4555566543334569999999999999999999987655444566664

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.

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.06  E-value=0.026  Score=53.96  Aligned_cols=164  Identities=13%  Similarity=0.073  Sum_probs=82.1

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC-c-cc-cceeee-hhhh--hhccCCHHHHHHHHHHHHhC
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH-E-FE-ASSFLA-NVRE--ISEKGGLICLQKQLLSELLK  196 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~-~-f~-~~~~~~-~~~~--~~~~~~~~~l~~~il~~l~~  196 (445)
                      .+.|.+.+..+. -.....++|+.|+||+++|..++..+-. . .. ..|=.+ ..+.  ....+++..+        . 
T Consensus        11 ~~~l~~~~~~~r-l~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i--------~-   80 (325)
T PRK06871         11 YQQITQAFQQGL-GHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHIL--------E-   80 (325)
T ss_pred             HHHHHHHHHcCC-cceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEE--------c-
Confidence            345555555322 2457789999999999999999986421 1 10 000000 0000  0001111100        0 


Q ss_pred             CCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc----CCCCCc--------CcccccccC-CCc
Q 045345          197 LPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA----GKHEWF--------DEHLLMTHG-VDE  256 (445)
Q Consensus       197 ~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~----~~~~~~--------~~~vl~t~~-~~~  256 (445)
                      ......-.+++ +..+.+.+     .++.-++|+|+++..  .....++    .++...        ...++.|.+ ...
T Consensus        81 p~~~~~I~id~-iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~  159 (325)
T PRK06871         81 PIDNKDIGVDQ-VREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQ  159 (325)
T ss_pred             cccCCCCCHHH-HHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhce
Confidence            00000111222 22222232     245568889999843  3333332    222211        234444422 246


Q ss_pred             eEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          257 VHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       257 ~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                      .+.+.+++.+++.+.+.....   ...    ..+..++..++|.|+..
T Consensus       160 ~~~~~~~~~~~~~~~L~~~~~---~~~----~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        160 TWLIHPPEEQQALDWLQAQSS---AEI----SEILTALRINYGRPLLA  200 (325)
T ss_pred             EEeCCCCCHHHHHHHHHHHhc---cCh----HHHHHHHHHcCCCHHHH
Confidence            789999999999998877541   111    12556788999999633

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.06  E-value=0.00048  Score=57.41  Aligned_cols=35  Identities=26%  Similarity=0.306  Sum_probs=27.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc-cccc-eeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE-FEAS-SFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~-~~~~  172 (445)
                      -.|+|+||+|+|||||++.+++.++.. |... +|..
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~   42 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITP   42 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEee
Confidence            368899999999999999999987665 5533 4433

>PRK06526 transposase; Provisional

Probab=97.05  E-value=0.0013  Score=60.84  Aligned_cols=27  Identities=26%  Similarity=0.142  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..-+.|+|++|+|||+||.++......
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~  124 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQ  124 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHH
Confidence            346889999999999999999887543

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

Probab=97.05  E-value=0.019  Score=60.10  Aligned_cols=168  Identities=18%  Similarity=0.204  Sum_probs=94.5

Q ss_pred             ccccccccchhHHHHHh---hhccCC-------CCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccC
Q 045345          112 IFKDLVGMDSCWNTLRF---LMDKEP-------YGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKG  181 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~---~L~~~~-------~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~  181 (445)
                      ...++.|-++..++|.+   .|..+.       .-++=+.|+|++|.|||-||++++-.-.     +-|+.    ++.  
T Consensus       309 ~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAg-----VPF~s----vSG--  377 (774)
T KOG0731|consen  309 KFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAG-----VPFFS----VSG--  377 (774)
T ss_pred             ccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccC-----Cceee----ech--
Confidence            45678898876666555   444211       1145578999999999999999987532     22232    110  


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH-----------------HHHHhcCCCCCc
Q 045345          182 GLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK-----------------QLESLAGKHEWF  244 (445)
Q Consensus       182 ~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-----------------~l~~l~~~~~~~  244 (445)
                            .++...+.+..      .......+...-.+.|.++.+|+++...                 .+.+++...+.+
T Consensus       378 ------SEFvE~~~g~~------asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf  445 (774)
T KOG0731|consen  378 ------SEFVEMFVGVG------ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGF  445 (774)
T ss_pred             ------HHHHHHhcccc------hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCC
Confidence                  01111111110      0111122222334577888888775321                 234443332222


Q ss_pred             ------------------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          245 ------------------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       245 ------------------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                                        +..++..-+.+..+.++.-+.....++|.-|+-..... .+..++++ |+..+-|++=|.
T Consensus       446 ~~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~-~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  446 ETSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD-DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             cCCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC-cchhhHHH-HHhcCCCCcHHH
Confidence                              22222222345667888888889999999888444332 34456666 888998888664

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.04  E-value=0.0019  Score=61.44  Aligned_cols=55  Identities=16%  Similarity=0.129  Sum_probs=35.1

Q ss_pred             ccchhHHHHHhhhccCC--CCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          118 GMDSCWNTLRFLMDKEP--YGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       118 Gr~~~l~~l~~~L~~~~--~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ++...+.....++..-.  ...+-+.|+|..|+|||.||.++++.+...-..+.|+.
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~  191 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH  191 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence            34334444444444211  12456889999999999999999998765434455554

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=97.04  E-value=0.0014  Score=60.65  Aligned_cols=36  Identities=25%  Similarity=0.166  Sum_probs=26.5

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|..+|..+-....+.=|+|++|+|||+||.+++-.
T Consensus        26 ~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~   61 (256)
T PF08423_consen   26 SLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVN   61 (256)
T ss_dssp             HHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHH
Confidence            555666533223458899999999999999888754

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 ....

>PRK09183 transposase/IS protein; Provisional

Probab=97.02  E-value=0.0022  Score=59.61  Aligned_cols=25  Identities=32%  Similarity=0.307  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+.|+|++|+|||+||.+++....
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~  127 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAV  127 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4677999999999999999987643

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.02  E-value=0.0028  Score=59.69  Aligned_cols=28  Identities=25%  Similarity=0.214  Sum_probs=23.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++++|+|++|+||||++..++..+..
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~  220 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVL  220 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3569999999999999999999876543

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.00  E-value=0.0015  Score=57.92  Aligned_cols=30  Identities=40%  Similarity=0.488  Sum_probs=26.5

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..+.+|||.|.+|.||||+|+.++..+...
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            346799999999999999999999987755

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=96.99  E-value=0.0043  Score=57.67  Aligned_cols=99  Identities=21%  Similarity=0.080  Sum_probs=58.6

Q ss_pred             HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHH-HhCCCCCCCcC
Q 045345          126 LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSE-LLKLPDTSTWN  204 (445)
Q Consensus       126 l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~-l~~~~~~~~~~  204 (445)
                      |..+|..+-...+++=|+|+.|.||||||.+++-.....-..++|++.-+    ..+.. ...++... +.........+
T Consensus        49 LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~----~l~p~-r~~~l~~~~~d~l~v~~~~~  123 (279)
T COG0468          49 LDEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEH----ALDPE-RAKQLGVDLLDNLLVSQPDT  123 (279)
T ss_pred             HHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeCCC----CCCHH-HHHHHHHhhhcceeEecCCC
Confidence            34445444455789999999999999999998876655555788887322    22222 23344444 22222233444


Q ss_pred             hhhhHHHHHHHH---ccCcEEEEEcCCC
Q 045345          205 VYDGLKMIGSRL---RYRKVLLIVDAAF  229 (445)
Q Consensus       205 ~~~~~~~l~~~l---~~~~~LlVlDdv~  229 (445)
                      .++....+....   ..+--|+|+|.+-
T Consensus       124 ~e~q~~i~~~~~~~~~~~i~LvVVDSva  151 (279)
T COG0468         124 GEQQLEIAEKLARSGAEKIDLLVVDSVA  151 (279)
T ss_pred             HHHHHHHHHHHHHhccCCCCEEEEecCc
Confidence            444444433333   2335699999874

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

Probab=96.99  E-value=0.008  Score=59.50  Aligned_cols=36  Identities=25%  Similarity=0.257  Sum_probs=27.8

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+...+.+.|++|+|||+||..++.  ...|+.+-.+.
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~--~S~FPFvKiiS  571 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIAL--SSDFPFVKIIS  571 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHh--hcCCCeEEEeC
Confidence            3466788999999999999999885  45677655543

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.99  E-value=0.0014  Score=58.31  Aligned_cols=91  Identities=14%  Similarity=0.177  Sum_probs=51.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceee-ehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL-ANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL  216 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~-~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l  216 (445)
                      .+|.|.|++|.||||++..+...+.......++. .+..+.... ..    ..+..    ... ...+.......++..+
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~~~-~~----~~~i~----q~~-vg~~~~~~~~~i~~aL   71 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVHE-SK----RSLIN----QRE-VGLDTLSFENALKAAL   71 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCcccccc-Cc----cceee----ecc-cCCCccCHHHHHHHHh
Confidence            4789999999999999999887765443333332 211010000 00    00000    000 0111223455677778


Q ss_pred             ccCcEEEEEcCCCCHHHHHHhc
Q 045345          217 RYRKVLLIVDAAFDLKQLESLA  238 (445)
Q Consensus       217 ~~~~~LlVlDdv~~~~~l~~l~  238 (445)
                      +..+=++++|++.+.+.+...+
T Consensus        72 r~~pd~ii~gEird~e~~~~~l   93 (198)
T cd01131          72 RQDPDVILVGEMRDLETIRLAL   93 (198)
T ss_pred             cCCcCEEEEcCCCCHHHHHHHH
Confidence            8888899999998877655543

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.

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

Probab=96.99  E-value=0.0033  Score=60.46  Aligned_cols=49  Identities=22%  Similarity=0.142  Sum_probs=38.0

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +.++.+.|..+--...++.|-|-||||||||..+++.++..+. .+.++.
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVs  127 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVS  127 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEe
Confidence            5566677764333457999999999999999999999987666 666665

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=96.97  E-value=0.0019  Score=66.03  Aligned_cols=53  Identities=19%  Similarity=0.320  Sum_probs=43.6

Q ss_pred             ccccccchhHHHHHhhhcc----CCCCeEEEEEEccCCCchhHHHHHHHhhccCccc
Q 045345          114 KDLVGMDSCWNTLRFLMDK----EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE  166 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~  166 (445)
                      .+-+|+++-.+.|.+++.-    ++.+.++++.+|++|+|||.+|+.++.-+-..|.
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFf  467 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFF  467 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceE
Confidence            4568999999999888763    4456789999999999999999999988766553

>PRK08233 hypothetical protein; Provisional

Probab=96.97  E-value=0.003  Score=55.18  Aligned_cols=26  Identities=31%  Similarity=0.401  Sum_probs=23.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|+|.|.+|+||||||..++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            36899999999999999999998753

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.97  E-value=0.0026  Score=54.22  Aligned_cols=34  Identities=26%  Similarity=0.209  Sum_probs=26.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ++.|+|++|+|||+++..++......-..++|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence            3679999999999999999887654434455554

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.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.94  E-value=0.0039  Score=55.27  Aligned_cols=25  Identities=44%  Similarity=0.688  Sum_probs=22.8

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +|+|.|++|+||||||+.+...+..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCc
Confidence            6999999999999999999988754

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 ....

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.94  E-value=0.022  Score=57.52  Aligned_cols=177  Identities=20%  Similarity=0.216  Sum_probs=95.3

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc-cCc---cc--cceeeehhhhhhccCCHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS-SHE---FE--ASSFLANVREISEKGGLI  184 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~-~~~---f~--~~~~~~~~~~~~~~~~~~  184 (445)
                      ....++||-+.....|...+..+.- .......|+-|+||||+|+-++..+ +.+   ..  ..|..+  .++... ...
T Consensus        13 ~~F~evvGQe~v~~~L~nal~~~ri-~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~C--k~I~~g-~~~   88 (515)
T COG2812          13 KTFDDVVGQEHVVKTLSNALENGRI-AHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISC--KEINEG-SLI   88 (515)
T ss_pred             ccHHHhcccHHHHHHHHHHHHhCcc-hhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhh--HhhhcC-Ccc
Confidence            4456789999999999998875321 3456689999999999999998753 111   11  111111  111111 000


Q ss_pred             HHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCC--CHHHHHHhcC----CCCCc--------C
Q 045345          185 CLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAF--DLKQLESLAG----KHEWF--------D  245 (445)
Q Consensus       185 ~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~--~~~~l~~l~~----~~~~~--------~  245 (445)
                      ++.        .....+...+++ ++.+.+..     .++.-+.|+|.|+  +...+..++.    ++..+        -
T Consensus        89 Dvi--------EiDaASn~gVdd-iR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~  159 (515)
T COG2812          89 DVI--------EIDAASNTGVDD-IREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEP  159 (515)
T ss_pred             cch--------hhhhhhccChHH-HHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCc
Confidence            000        000001111221 22233322     3455689999997  4455666652    22221        1


Q ss_pred             ccccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH
Q 045345          246 EHLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL  302 (445)
Q Consensus       246 ~~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL  302 (445)
                      .++..|- .....|.++.|+.++-...+...+......  ...+...-|++..+|-..
T Consensus       160 ~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~--~e~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         160 QKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGIN--IEEDALSLIARAAEGSLR  215 (515)
T ss_pred             CcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCc--cCHHHHHHHHHHcCCChh
Confidence            1111111 123568999999998888887776433322  223556667777776443

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.93  E-value=0.0027  Score=55.24  Aligned_cols=28  Identities=32%  Similarity=0.407  Sum_probs=23.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      +.|.+.|.||+||||+|++++..+++.-
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i   29 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEI   29 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence            4688999999999999999998766543

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.92  E-value=0.00095  Score=67.41  Aligned_cols=50  Identities=18%  Similarity=0.241  Sum_probs=41.0

Q ss_pred             ccccccchhHHHHHhhhc----cCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          114 KDLVGMDSCWNTLRFLMD----KEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~----~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+++|.+..++.|...|.    .-....+++.++||+|+|||+||+.++.-+..
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence            468999999999998882    23345679999999999999999999885443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.92  E-value=0.0052  Score=66.65  Aligned_cols=50  Identities=18%  Similarity=0.260  Sum_probs=39.2

Q ss_pred             ccccccchhHHHHHhhhcc-------CCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          114 KDLVGMDSCWNTLRFLMDK-------EPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~-------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++|.+..++.+.+.+..       ......++.++|++|+|||.||++++..+..
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~  622 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYG  622 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhC
Confidence            5689999999999887642       1112457899999999999999999887643

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.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.91  E-value=0.0043  Score=59.69  Aligned_cols=48  Identities=21%  Similarity=0.090  Sum_probs=36.5

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .++|-+.....+..+..........+.++|++|+||||+|.++++.+.
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~   49 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELL   49 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHh
Confidence            356777777777777664333344689999999999999999998764

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.90  E-value=0.0027  Score=60.57  Aligned_cols=49  Identities=12%  Similarity=0.129  Sum_probs=33.3

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc--c----Cccccceeee
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS--S----HEFEASSFLA  172 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~--~----~~f~~~~~~~  172 (445)
                      ..|..+|..+-....++-|+|++|+|||+||.+++-..  .    ..-..++|++
T Consensus        83 ~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYId  137 (313)
T TIGR02238        83 QALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYID  137 (313)
T ss_pred             HHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEE
Confidence            34555666444456789999999999999998877432  1    1123567776

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.

>TIGR00763 lon ATP-dependent protease La

Probab=96.89  E-value=0.011  Score=63.83  Aligned_cols=52  Identities=17%  Similarity=0.302  Sum_probs=40.3

Q ss_pred             ccccccchhHHHHHhhhcc----CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          114 KDLVGMDSCWNTLRFLMDK----EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ...+|.+...+.|..++..    +....+++.++|++|+|||++|+.+++.+...|
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~  375 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKF  375 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence            4588999888888776542    222345889999999999999999999875544

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.88  E-value=0.011  Score=64.27  Aligned_cols=50  Identities=16%  Similarity=0.327  Sum_probs=38.7

Q ss_pred             cccccccchhHHHHHhhhccC------CCC-eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKE------PYG-VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~------~~~-~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...++|.+..++.|...+...      ++. ...+.++|++|+|||+||+.+++.+.
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~  623 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMF  623 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhh
Confidence            356899999999988877531      111 24788999999999999999998654

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

Probab=96.88  E-value=0.0067  Score=60.06  Aligned_cols=48  Identities=27%  Similarity=0.363  Sum_probs=33.8

Q ss_pred             cccccccchh---HHHHHhhhccCC-----C-C-eEEEEEEccCCCchhHHHHHHHhh
Q 045345          113 FKDLVGMDSC---WNTLRFLMDKEP-----Y-G-VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       113 ~~~~vGr~~~---l~~l~~~L~~~~-----~-~-~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+.-|-|+.   +++|.++|....     + . .+=|.++|++|.|||-||++++-.
T Consensus       303 F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGE  360 (752)
T KOG0734|consen  303 FEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGE  360 (752)
T ss_pred             cccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcc
Confidence            3556777764   556666666422     1 1 456889999999999999999753

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

Probab=96.88  E-value=0.005  Score=63.10  Aligned_cols=141  Identities=19%  Similarity=0.184  Sum_probs=78.1

Q ss_pred             cccccccchhHHHHHhhhc---c--------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccC
Q 045345          113 FKDLVGMDSCWNTLRFLMD---K--------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKG  181 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~---~--------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~  181 (445)
                      -....|.+...+.+.+...   .        +-...+.+.++|++|.|||.||++++......|-.+..-.         
T Consensus       241 ~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~---------  311 (494)
T COG0464         241 LDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSE---------  311 (494)
T ss_pred             eehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHH---------
Confidence            3445566655555544332   1        1123457889999999999999999996655554322211         


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCcChhhh-HHHHHHHHccCcEEEEEcCCCCHH-------------HHHHhcCCCC---Cc
Q 045345          182 GLICLQKQLLSELLKLPDTSTWNVYDG-LKMIGSRLRYRKVLLIVDAAFDLK-------------QLESLAGKHE---WF  244 (445)
Q Consensus       182 ~~~~l~~~il~~l~~~~~~~~~~~~~~-~~~l~~~l~~~~~LlVlDdv~~~~-------------~l~~l~~~~~---~~  244 (445)
                              ++...       ....+.. ...+....+..+..|.+|+++...             .+..++...+   ..
T Consensus       312 --------l~sk~-------vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~  376 (494)
T COG0464         312 --------LLSKW-------VGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKA  376 (494)
T ss_pred             --------Hhccc-------cchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCcc
Confidence                    11110       1111122 222333345788999999886321             2222221111   10


Q ss_pred             ---------------CcccccccCCCceEEcCCCCHHHHHHHHHHhhc
Q 045345          245 ---------------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAF  277 (445)
Q Consensus       245 ---------------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~  277 (445)
                                     +...+.+.+.+..+.++.-+.++..+.|..+..
T Consensus       377 ~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~  424 (494)
T COG0464         377 EGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLR  424 (494)
T ss_pred             CceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhc
Confidence                           222222224456788999999999999998874

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.86  E-value=0.0079  Score=65.58  Aligned_cols=51  Identities=22%  Similarity=0.347  Sum_probs=40.1

Q ss_pred             cccccccchhHHHHHhhhccC------CCC-eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          113 FKDLVGMDSCWNTLRFLMDKE------PYG-VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~------~~~-~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...++|.+..++.+...+...      ++. ...+.+.|++|+|||++|+.++..+..
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~  621 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFD  621 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            356899999999998877641      111 356889999999999999999987543

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.86  E-value=0.0099  Score=56.84  Aligned_cols=29  Identities=24%  Similarity=0.272  Sum_probs=25.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...+++++|++|+||||++..++..+...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            46799999999999999999998876544

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.85  E-value=0.005  Score=53.61  Aligned_cols=23  Identities=39%  Similarity=0.377  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|.|.|++|.||||+|+.+++++
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999874

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.84  E-value=0.003  Score=60.77  Aligned_cols=49  Identities=18%  Similarity=0.114  Sum_probs=33.1

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc--Cc----cccceeee
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS--HE----FEASSFLA  172 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~--~~----f~~~~~~~  172 (445)
                      ..|..+|..+-....+.-|+|++|+|||+|+.+++-...  ..    -..++|++
T Consensus       113 ~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyId  167 (344)
T PLN03187        113 QALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYID  167 (344)
T ss_pred             HhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEE
Confidence            345556664444467888999999999999998864321  11    13567776

>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=0.0011  Score=55.90  Aligned_cols=35  Identities=31%  Similarity=0.260  Sum_probs=29.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+|.|+|.+|.||||||+++..++...-..+.+++
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            58899999999999999999998876665666664

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 ....

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.81  E-value=0.1  Score=49.75  Aligned_cols=165  Identities=13%  Similarity=0.116  Sum_probs=82.0

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc-cCccc-cceeee-hhhh--hhccCCHHHHHHHHHHHHhCC
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS-SHEFE-ASSFLA-NVRE--ISEKGGLICLQKQLLSELLKL  197 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~-~~~f~-~~~~~~-~~~~--~~~~~~~~~l~~~il~~l~~~  197 (445)
                      .+.+...+..+. -...+.++|+.|+||+++|..++..+ ..+-. ..|=.+ ..+.  ....+++..+        ...
T Consensus        12 ~~~l~~~~~~~r-l~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i--------~p~   82 (319)
T PRK06090         12 WQNWKAGLDAGR-IPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVI--------KPE   82 (319)
T ss_pred             HHHHHHHHHcCC-cceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEE--------ecC
Confidence            344555554321 24578899999999999999998863 22111 000000 0000  0001111000        000


Q ss_pred             CCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHhc----CCCCCc--------CcccccccC-CCce
Q 045345          198 PDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESLA----GKHEWF--------DEHLLMTHG-VDEV  257 (445)
Q Consensus       198 ~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l~----~~~~~~--------~~~vl~t~~-~~~~  257 (445)
                      .....-.+++ +..+.+.+     .++.-++|+|+++..  .....++    .++...        ...++.|.+ ....
T Consensus        83 ~~~~~I~vdq-iR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~  161 (319)
T PRK06090         83 KEGKSITVEQ-IRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQ  161 (319)
T ss_pred             cCCCcCCHHH-HHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccee
Confidence            0001111222 22223333     234568999999843  3333332    222211        223333332 2356


Q ss_pred             EEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          258 HKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       258 ~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                      +.+.+++.+++.+.+....    . .     ....++..++|.|+....+
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            8999999999999886542    1 1     1345788999999866544

>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=96.81  E-value=0.00096  Score=54.55  Aligned_cols=22  Identities=45%  Similarity=0.694  Sum_probs=20.4

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |+|.|++|+||||||+.+..++
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999875

...

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.81  E-value=0.0015  Score=65.04  Aligned_cols=45  Identities=18%  Similarity=0.062  Sum_probs=37.7

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++||+..++.+...+..+    .-|.|.|++|+|||+||+.+.....
T Consensus        20 ~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~~~~   64 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQ   64 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHHHhc
Confidence            45899999999998877633    3677999999999999999998653

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.80  E-value=0.0012  Score=57.66  Aligned_cols=36  Identities=31%  Similarity=0.518  Sum_probs=30.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+|.|.|++|+||||+|+.++..+...+...+++.
T Consensus         7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~   42 (176)
T PRK05541          7 GYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLD   42 (176)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            458999999999999999999998876666666664

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.80  E-value=0.0045  Score=59.43  Aligned_cols=49  Identities=14%  Similarity=0.077  Sum_probs=33.6

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcc------ccceeee
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF------EASSFLA  172 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f------~~~~~~~  172 (445)
                      ..+..+|..+-....++-|+|++|+|||+||.+++.......      ..++|++
T Consensus        89 ~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~  143 (317)
T PRK04301         89 KELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYID  143 (317)
T ss_pred             HHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEe
Confidence            344455554334467889999999999999999986532211      2567776

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.80  E-value=0.0044  Score=56.83  Aligned_cols=49  Identities=12%  Similarity=0.091  Sum_probs=34.6

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..|.++|..+=....++.|.|++|+|||+||.++.......-..++|+.
T Consensus         8 ~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs   56 (237)
T TIGR03877         8 PGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA   56 (237)
T ss_pred             HhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            3455556554445679999999999999999988765333345566665

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.

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.79  E-value=0.005  Score=56.26  Aligned_cols=91  Identities=19%  Similarity=0.196  Sum_probs=53.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeeh--hhhhhccCCHHHHHHHHHHHHhCCC------CCCCcChhhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLAN--VREISEKGGLICLQKQLLSELLKLP------DTSTWNVYDG  208 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~--~~~~~~~~~~~~l~~~il~~l~~~~------~~~~~~~~~~  208 (445)
                      ..+++|+|.+|+|||||++.+..-..... +.+++..  +...+ .........+++...+...      +.+...-...
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~L~~pt~-G~i~f~g~~i~~~~-~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQ  116 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILGLEEPTS-GEILFEGKDITKLS-KEERRERVLELLEKVGLPEEFLYRYPHELSGGQRQ  116 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHcCcCCCC-ceEEEcCcchhhcc-hhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhhh
Confidence            45899999999999999999988655443 3333331  11111 1223333445555544221      1122233333


Q ss_pred             HHHHHHHHccCcEEEEEcCCC
Q 045345          209 LKMIGSRLRYRKVLLIVDAAF  229 (445)
Q Consensus       209 ~~~l~~~l~~~~~LlVlDdv~  229 (445)
                      .-.+.+.|.-++-|+|.|..-
T Consensus       117 Ri~IARALal~P~liV~DEpv  137 (268)
T COG4608         117 RIGIARALALNPKLIVADEPV  137 (268)
T ss_pred             hHHHHHHHhhCCcEEEecCch
Confidence            445677888899999999764

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.76  E-value=0.005  Score=56.35  Aligned_cols=49  Identities=16%  Similarity=0.034  Sum_probs=34.2

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..|..+|..+-....++.|+|.+|+|||+||.++......+-..++|+.
T Consensus        12 ~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         12 EELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             HHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            3445555544445679999999999999999999765333334566665

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

Probab=96.75  E-value=0.0016  Score=66.64  Aligned_cols=53  Identities=19%  Similarity=0.322  Sum_probs=43.5

Q ss_pred             ccccccchhHHHHHhhhcc----CCCCeEEEEEEccCCCchhHHHHHHHhhccCccc
Q 045345          114 KDLVGMDSCWNTLRFLMDK----EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE  166 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~  166 (445)
                      .+-+|.+.-.+.|.++|.-    ..-..++++++||||+|||+|++.++.-+...|-
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rkfv  379 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFV  379 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEE
Confidence            4568999999999888763    2233579999999999999999999998877664

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.75  E-value=0.012  Score=64.10  Aligned_cols=49  Identities=20%  Similarity=0.337  Sum_probs=38.2

Q ss_pred             ccccccchhHHHHHhhhcc------CCCC-eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDK------EPYG-VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~------~~~~-~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|-+..++.|...+..      ..+. ...+.++|++|+|||+||+.+++.+.
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~  564 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFF  564 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            5689999999999877652      1111 34577999999999999999998764

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.74  E-value=0.0066  Score=58.13  Aligned_cols=49  Identities=14%  Similarity=0.078  Sum_probs=33.9

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc------cccceeee
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE------FEASSFLA  172 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~------f~~~~~~~  172 (445)
                      ..+..+|..+-....++-|+|++|+|||+||.+++......      -..++|++
T Consensus        82 ~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~  136 (310)
T TIGR02236        82 KELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYID  136 (310)
T ss_pred             HHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEE
Confidence            34455565443346788999999999999999998764311      12567776

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.

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

Probab=96.68  E-value=0.014  Score=52.80  Aligned_cols=161  Identities=15%  Similarity=0.248  Sum_probs=86.8

Q ss_pred             cccccccchhHHH---HHhhhcc----CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHH
Q 045345          113 FKDLVGMDSCWNT---LRFLMDK----EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLIC  185 (445)
Q Consensus       113 ~~~~vGr~~~l~~---l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~  185 (445)
                      .++.||.+.....   |...|..    +....+-|..+|++|.|||.+|+++++...-.|-   -+.             
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l---~vk-------------  183 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLL---LVK-------------  183 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceE---Eec-------------
Confidence            3568888776543   4555553    3344788999999999999999999987544321   111             


Q ss_pred             HHHHHHHHHhCCCCCCCcChhhhH-HHHHHHHccCcEEEEEcCCCCH--------------HHHHHhcCCCCCc--Cccc
Q 045345          186 LQKQLLSELLKLPDTSTWNVYDGL-KMIGSRLRYRKVLLIVDAAFDL--------------KQLESLAGKHEWF--DEHL  248 (445)
Q Consensus       186 l~~~il~~l~~~~~~~~~~~~~~~-~~l~~~l~~~~~LlVlDdv~~~--------------~~l~~l~~~~~~~--~~~v  248 (445)
                       ..+++....+       +....+ +...+.-+..|+++.||.++-.              +.+.+|+...+.+  +..|
T Consensus       184 -at~liGehVG-------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGV  255 (368)
T COG1223         184 -ATELIGEHVG-------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGV  255 (368)
T ss_pred             -hHHHHHHHhh-------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCce
Confidence             0122222221       111122 2223333458999999988643              1233333222222  1111


Q ss_pred             ---ccc-----------cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCC
Q 045345          249 ---LMT-----------HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGL  300 (445)
Q Consensus       249 ---l~t-----------~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~Gl  300 (445)
                         ..|           ++.+..++...-+.+|-.+++...+-.-..+..   .-.+.++.+++|+
T Consensus       256 vtIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~---~~~~~~~~~t~g~  318 (368)
T COG1223         256 VTIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVD---ADLRYLAAKTKGM  318 (368)
T ss_pred             EEEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccc---cCHHHHHHHhCCC
Confidence               111           223345677777888888888877722221111   1144566666664

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.67  E-value=0.016  Score=61.19  Aligned_cols=52  Identities=23%  Similarity=0.248  Sum_probs=35.2

Q ss_pred             cccccccchhHHHHHhhhccC----------CCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKE----------PYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~----------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..++.|.+...+.+.+.+...          ..-.+-|.|+|++|+|||++|+.++......
T Consensus       151 ~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~  212 (644)
T PRK10733        151 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP  212 (644)
T ss_pred             HHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            345678777666665544310          0112348899999999999999998876543

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.66  E-value=0.0054  Score=61.60  Aligned_cols=50  Identities=20%  Similarity=0.112  Sum_probs=35.7

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +..+.+.|..+-....++.|.|.+|+|||||+.+++.....+-..++|+.
T Consensus        66 i~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs  115 (446)
T PRK11823         66 IGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS  115 (446)
T ss_pred             cHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            44566666644334569999999999999999999887653333456665

>TIGR00416 sms DNA repair protein RadA

Probab=96.66  E-value=0.0053  Score=61.72  Aligned_cols=50  Identities=22%  Similarity=0.169  Sum_probs=36.4

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +..|..+|..+-....++.|.|.+|+|||||+.+++......-..++|+.
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs  129 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS  129 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            45666666644444679999999999999999999877644433456665

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)).

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=96.64  E-value=0.054  Score=50.15  Aligned_cols=122  Identities=17%  Similarity=0.160  Sum_probs=73.0

Q ss_pred             hcccCCCCCCCCCccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhh
Q 045345           97 KDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVRE  176 (445)
Q Consensus        97 ~~v~~~p~~~~~~~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~  176 (445)
                      .....+++....+....+.|+|-..-.+.+ ..+.......+.+.++|+.|+|||+-++.+++..    +..+.+.    
T Consensus        55 a~~le~~~~q~~~~~~~~~~l~tkt~r~~~-~~~~~A~k~g~l~~vyg~~g~gKt~a~~~y~~s~----p~~~l~~----  125 (297)
T COG2842          55 AAFLEKKGVQAALEKLAPDFLETKTVRRIF-FRTRPASKTGSLVVVYGYAGLGKTQAAKNYAPSN----PNALLIE----  125 (297)
T ss_pred             HHHHcCCCcccccccccccccccchhHhHh-hhhhhhhhcCceEEEeccccchhHHHHHhhcccC----ccceeec----
Confidence            333344334445555677888876543222 2222222233488999999999999999988743    3333332    


Q ss_pred             hhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCC
Q 045345          177 ISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFD  230 (445)
Q Consensus       177 ~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~  230 (445)
                      .++......+...+....+..   ......+....+...+++..-+++.|+.+.
T Consensus       126 ~~p~~~a~~~i~~i~~~~~~~---~~~~~~d~~~~~~~~l~~~~~~iivDEA~~  176 (297)
T COG2842         126 ADPSYTALVLILIICAAAFGA---TDGTINDLTERLMIRLRDTVRLIIVDEADR  176 (297)
T ss_pred             CChhhHHHHHHHHHHHHHhcc---cchhHHHHHHHHHHHHccCcceeeeehhhc
Confidence            344444444555555554432   233445566667777788889999999874

>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=96.63  E-value=0.0012  Score=53.42  Aligned_cols=30  Identities=30%  Similarity=0.430  Sum_probs=21.4

Q ss_pred             EEEEccCCCchhHHHHHHHhhccCccccce
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSHEFEASS  169 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~~f~~~~  169 (445)
                      |.|+|.+|+|||++|+.++..+...|..+-
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~RIq   31 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKRIQ   31 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEEEE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeEEE
Confidence            679999999999999999998887776543

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.63  E-value=0.011  Score=58.05  Aligned_cols=27  Identities=26%  Similarity=0.330  Sum_probs=23.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|.++|+.|+||||.+..++..+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~  199 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYG  199 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357999999999999999998887654

>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=96.61  E-value=0.004  Score=58.03  Aligned_cols=26  Identities=31%  Similarity=0.440  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +.|.|+|.||+||||+|+.+...+..
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~   27 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEE   27 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHh
Confidence            57899999999999999999886554

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>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=96.59  E-value=0.0069  Score=52.55  Aligned_cols=26  Identities=31%  Similarity=0.400  Sum_probs=22.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ++.+.|++|+||||++..++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            67899999999999999998876544

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.

>PRK03839 putative kinase; Provisional

Probab=96.59  E-value=0.0018  Score=56.63  Aligned_cols=24  Identities=33%  Similarity=0.630  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .|.|.|++|+||||+|+.+++.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998764

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=96.58  E-value=0.026  Score=60.67  Aligned_cols=52  Identities=15%  Similarity=0.323  Sum_probs=41.2

Q ss_pred             ccccccchhHHHHHhhhcc----CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          114 KDLVGMDSCWNTLRFLMDK----EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      .+.+|.+...+.|..+|..    ......++.++|++|+||||+|+.++..+...|
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~  377 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKY  377 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            5689999999999877763    122356899999999999999999998765444

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.57  E-value=0.0021  Score=57.76  Aligned_cols=26  Identities=42%  Similarity=0.617  Sum_probs=23.7

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +..+|+|.|.+|+||||||+.++..+
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999999876

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.57  E-value=0.058  Score=55.44  Aligned_cols=111  Identities=13%  Similarity=0.044  Sum_probs=74.5

Q ss_pred             ccccccccchhHHHHHhhhcc--CC-CCeEEEEEEccCCCchhHHHHHHHhhcc-----Ccccc--ceeeehhhhhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK--EP-YGVRMIGICGMGGIGKTTLARVVYDLSS-----HEFEA--SSFLANVREISEKG  181 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~--~~-~~~~vv~I~G~gGiGKTtLA~~~~~~~~-----~~f~~--~~~~~~~~~~~~~~  181 (445)
                      .+..+-+|+.+..+|...+..  .. .....+=|.|.+|.|||..+..|.+.+.     ..-+.  .+.++    .-.-.
T Consensus       394 vp~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveIN----gm~l~  469 (767)
T KOG1514|consen  394 VPESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEIN----GLRLA  469 (767)
T ss_pred             ccccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEc----ceeec
Confidence            456788999999999988764  22 2345788999999999999999988642     11222  23333    23345


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHc-----cCcEEEEEcCCCC
Q 045345          182 GLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLR-----YRKVLLIVDAAFD  230 (445)
Q Consensus       182 ~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~  230 (445)
                      +..++...|...+.+....    .......+..+..     .++++|++|+++.
T Consensus       470 ~~~~~Y~~I~~~lsg~~~~----~~~al~~L~~~f~~~k~~~~~~VvLiDElD~  519 (767)
T KOG1514|consen  470 SPREIYEKIWEALSGERVT----WDAALEALNFRFTVPKPKRSTTVVLIDELDI  519 (767)
T ss_pred             CHHHHHHHHHHhcccCccc----HHHHHHHHHHhhccCCCCCCCEEEEeccHHH
Confidence            6777888888887655433    3334444555543     3678999999863

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.57  E-value=0.0083  Score=57.36  Aligned_cols=37  Identities=22%  Similarity=0.102  Sum_probs=28.4

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..|..+|..+-....++.|+|.+|+|||+|+..++..
T Consensus        83 ~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~  119 (316)
T TIGR02239        83 KELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVT  119 (316)
T ss_pred             HHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHH
Confidence            4555656544445679999999999999999988753

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).

>TIGR00959 ffh signal recognition particle protein

Probab=96.57  E-value=0.038  Score=54.94  Aligned_cols=26  Identities=27%  Similarity=0.271  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++.++|++|+||||+|..++..+.
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            57899999999999999988887753

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.

>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=96.56  E-value=0.0018  Score=46.73  Aligned_cols=23  Identities=35%  Similarity=0.528  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|+|.|.+|+||||+|+.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999875

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.54  E-value=0.0091  Score=57.69  Aligned_cols=37  Identities=24%  Similarity=0.284  Sum_probs=27.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +.++++|+|+.|+||||++..++..+..+-..+.++.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIt  241 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFIT  241 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            3679999999999999999998876533323455554

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.52  E-value=0.0015  Score=56.48  Aligned_cols=36  Identities=22%  Similarity=0.223  Sum_probs=27.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc-Cccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS-HEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~-~~f~~~~~~~  172 (445)
                      ...+.+.|+.|+|||.||+.+++.+. ......+-++
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d   39 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRID   39 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHh
Confidence            35788999999999999999999876 4444444444

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PTZ00035 Rad51 protein; Provisional

Probab=96.51  E-value=0.011  Score=56.99  Aligned_cols=37  Identities=19%  Similarity=0.105  Sum_probs=28.7

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..|..+|..+-....++.|+|++|+|||||+..++-.
T Consensus       105 ~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~  141 (337)
T PTZ00035        105 TQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVT  141 (337)
T ss_pred             HHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHH
Confidence            4556666654445679999999999999999988754

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

Probab=96.49  E-value=0.013  Score=62.50  Aligned_cols=49  Identities=18%  Similarity=0.164  Sum_probs=38.3

Q ss_pred             ccccccchhHHHHHhhhccC------CC-CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKE------PY-GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~------~~-~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|-+..++.|...+...      .+ ....+.++|++|+|||.||+.++..+.
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999888876621      11 135688999999999999999988763

>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=96.48  E-value=0.0024  Score=53.25  Aligned_cols=22  Identities=45%  Similarity=0.536  Sum_probs=20.5

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |.|+|++|+|||+||+.+++.+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999999877

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.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=96.48  E-value=0.0014  Score=52.03  Aligned_cols=25  Identities=40%  Similarity=0.409  Sum_probs=21.0

Q ss_pred             EEEEccCCCchhHHHHHHHhhccCc
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      |-|+|++|+|||+||..++..+.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~   25 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKH   25 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHH
Confidence            4689999999999999988876543

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

>PRK04328 hypothetical protein; Provisional

Probab=96.46  E-value=0.01  Score=54.82  Aligned_cols=48  Identities=13%  Similarity=0.082  Sum_probs=33.3

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .|.++|..+-....++.|.|.+|.|||+||.++.......-..++|+.
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            444555543334578999999999999999998766333345566665

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.46  E-value=0.03  Score=55.40  Aligned_cols=28  Identities=25%  Similarity=0.288  Sum_probs=23.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..+|.++|++|+||||+|..++..++.+
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            5799999999999999999988765443

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.

>PTZ00301 uridine kinase; Provisional

Probab=96.45  E-value=0.0025  Score=57.10  Aligned_cols=27  Identities=30%  Similarity=0.471  Sum_probs=23.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+|+|.|.+|.||||||+.+.+++..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~   29 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMA   29 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHh
Confidence            468999999999999999999877643

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.45  E-value=0.012  Score=49.65  Aligned_cols=24  Identities=33%  Similarity=0.516  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +|.|.|.+|+||||||+.+...+.
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999988754

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.44  E-value=0.013  Score=58.47  Aligned_cols=36  Identities=17%  Similarity=0.213  Sum_probs=26.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc--Cccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS--HEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~--~~f~~~~~~~  172 (445)
                      .++++++|++|+||||++..++..+.  .....+.++.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~  258 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALIT  258 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            46899999999999999988877654  2223445554

>PRK04132 replication factor C small subunit; Provisional

Probab=96.44  E-value=0.091  Score=56.49  Aligned_cols=141  Identities=13%  Similarity=0.069  Sum_probs=76.8

Q ss_pred             Ec--cCCCchhHHHHHHHhhcc-Cccc-cceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHcc
Q 045345          143 CG--MGGIGKTTLARVVYDLSS-HEFE-ASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRY  218 (445)
Q Consensus       143 ~G--~gGiGKTtLA~~~~~~~~-~~f~-~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~  218 (445)
                      .|  |.++||||+|.++++++- +.+. ..+-++    .+...+...+. +++.......+.               -..
T Consensus       570 ~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElN----ASd~rgid~IR-~iIk~~a~~~~~---------------~~~  629 (846)
T PRK04132        570 GGNLPTVLHNTTAALALARELFGENWRHNFLELN----ASDERGINVIR-EKVKEFARTKPI---------------GGA  629 (846)
T ss_pred             cCCCCCcccHHHHHHHHHHhhhcccccCeEEEEe----CCCcccHHHHH-HHHHHHHhcCCc---------------CCC
Confidence            37  889999999999999852 2222 223333    33323343322 333222211110               012


Q ss_pred             CcEEEEEcCCCCH--HHHHHh---cCCCCC---c------Cccccccc-CCCceEEcCCCCHHHHHHHHHHhhcCCCCCc
Q 045345          219 RKVLLIVDAAFDL--KQLESL---AGKHEW---F------DEHLLMTH-GVDEVHKLKVLHDDEALQLFCKQAFKTNQPW  283 (445)
Q Consensus       219 ~~~LlVlDdv~~~--~~l~~l---~~~~~~---~------~~~vl~t~-~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~  283 (445)
                      +.-++|||+++..  .....|   +..+..   |      ...++.+. .....+++.+++.++-.+.+...+-..+...
T Consensus       630 ~~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i  709 (846)
T PRK04132        630 SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLEL  709 (846)
T ss_pred             CCEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCC
Confidence            4579999999854  333333   322111   1      11222221 1245789999999998888876653222211


Q ss_pred             hHHHHHHHHHHHHhCCChHHHH
Q 045345          284 KEYEQLSKYVVKYSGGLPLALK  305 (445)
Q Consensus       284 ~~~~~~~~~i~~~~~GlPLal~  305 (445)
                        ..+....|++.++|.+....
T Consensus       710 --~~e~L~~Ia~~s~GDlR~AI  729 (846)
T PRK04132        710 --TEEGLQAILYIAEGDMRRAI  729 (846)
T ss_pred             --CHHHHHHHHHHcCCCHHHHH
Confidence              13567889999999885443

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.44  E-value=0.0083  Score=55.47  Aligned_cols=25  Identities=28%  Similarity=0.511  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +|.|.|++|+||||+|+.+...+..
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3789999999999999999987643

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.

>PRK04296 thymidine kinase; Provisional

Probab=96.43  E-value=0.0042  Score=54.87  Aligned_cols=34  Identities=15%  Similarity=-0.108  Sum_probs=25.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      .++.|+|+.|.||||+|..++.+...+...++++
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~   36 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVF   36 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEE
Confidence            4788999999999999999988765443333433

>PRK04040 adenylate kinase; Provisional

Probab=96.43  E-value=0.0029  Score=55.71  Aligned_cols=25  Identities=24%  Similarity=0.477  Sum_probs=22.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|+|+|++|+||||+++.+.+.+.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5899999999999999999998774

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.43  E-value=0.0082  Score=61.15  Aligned_cols=50  Identities=20%  Similarity=0.157  Sum_probs=37.4

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +..|..+|..+-....++.|.|++|+|||||+.+++.....+-..++++.
T Consensus       249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s  298 (484)
T TIGR02655       249 VVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFA  298 (484)
T ss_pred             hHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            55677777655455679999999999999999999887544444555554

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.

>TIGR00235 udk uridine kinase

Probab=96.42  E-value=0.0033  Score=56.41  Aligned_cols=27  Identities=44%  Similarity=0.604  Sum_probs=23.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...+|+|.|++|+||||||+.++..+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            457999999999999999999987654

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.41  E-value=0.0079  Score=57.97  Aligned_cols=38  Identities=18%  Similarity=0.096  Sum_probs=28.3

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|..+|..+-....++-|+|.+|+|||+||..++-.
T Consensus       109 ~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~  146 (342)
T PLN03186        109 SRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVT  146 (342)
T ss_pred             CHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHH
Confidence            34555666544344678899999999999999888753

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.41  E-value=0.0099  Score=57.77  Aligned_cols=27  Identities=22%  Similarity=0.251  Sum_probs=23.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+++++|++|+||||++..++.....
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~  163 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVM  163 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            569999999999999999999987543

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.40  E-value=0.0029  Score=54.83  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...|.|+|++|+||||+|+.++..+.
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            35889999999999999999998763

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.40  E-value=0.0055  Score=63.82  Aligned_cols=74  Identities=15%  Similarity=0.250  Sum_probs=53.7

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC-ccccceeeehhhhhhccCCHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH-EFEASSFLANVREISEKGGLICLQKQ  189 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~l~~~  189 (445)
                      .....++|.+..++.|...+..+    +.+.|+|++|+||||+|+.+++.+.. .++..+|+.+     .......+.+.
T Consensus        28 ~~~~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n-----p~~~~~~~~~~   98 (637)
T PRK13765         28 RLIDQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN-----PEDPNNPKIRT   98 (637)
T ss_pred             ccHHHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC-----CCcchHHHHHH
Confidence            45577999999999888877643    36889999999999999999987643 3577788774     23344444444


Q ss_pred             HHHH
Q 045345          190 LLSE  193 (445)
Q Consensus       190 il~~  193 (445)
                      ++..
T Consensus        99 v~~~  102 (637)
T PRK13765         99 VPAG  102 (637)
T ss_pred             HHHh
Confidence            4443

>PRK00625 shikimate kinase; Provisional

Probab=96.40  E-value=0.0027  Score=55.05  Aligned_cols=24  Identities=29%  Similarity=0.600  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .|.|+||+|+||||+++.+++++.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999988764

>PRK06547 hypothetical protein; Provisional

Probab=96.40  E-value=0.0048  Score=53.47  Aligned_cols=27  Identities=37%  Similarity=0.368  Sum_probs=23.7

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ....+|+|.|++|+||||+|..+.+..
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999998763

>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=96.39  E-value=0.012  Score=53.35  Aligned_cols=24  Identities=50%  Similarity=0.695  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +|+|.|.+|+||||||+.+...+.
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999998764

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.38  E-value=0.0044  Score=56.51  Aligned_cols=31  Identities=35%  Similarity=0.574  Sum_probs=26.3

Q ss_pred             CCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          134 PYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       134 ~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .....+++|.|++|.|||||++.+...+...
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            3457899999999999999999999876554

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=96.38  E-value=0.037  Score=53.29  Aligned_cols=52  Identities=23%  Similarity=0.133  Sum_probs=34.6

Q ss_pred             eEEcCCCCHHHHHHHHHHhhcCC----CCCchHHHHHHHHHHHHhCCChHHHHHHHHhh
Q 045345          257 VHKLKVLHDDEALQLFCKQAFKT----NQPWKEYEQLSKYVVKYSGGLPLALKVLGSFL  311 (445)
Q Consensus       257 ~~~l~~L~~~ea~~Lf~~~a~~~----~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  311 (445)
                      +++++..+.+|+..+.....-..    ..+.   ++.-+++.-..+|+|--++-++.++
T Consensus       405 pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~---Ee~~kql~fLSngNP~l~~~lca~~  460 (461)
T KOG3928|consen  405 PIEVENYTLDEFEALIDYYLQSNWLLKKVPG---EENIKQLYFLSNGNPSLMERLCAFL  460 (461)
T ss_pred             ccccCCCCHHHHHHHHHHHHHhhHHHhhcCc---ccchhhhhhhcCCCHHHHHHHHHhc
Confidence            46788999999988876554211    1121   3445677788899997777666654

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.36  E-value=0.25  Score=47.68  Aligned_cols=80  Identities=18%  Similarity=0.080  Sum_probs=45.8

Q ss_pred             cCcEEEEEcCCCC--HHHHHHhc----CCCCCc--------CcccccccC-CCceEEcCCCCHHHHHHHHHHhhcCCCCC
Q 045345          218 YRKVLLIVDAAFD--LKQLESLA----GKHEWF--------DEHLLMTHG-VDEVHKLKVLHDDEALQLFCKQAFKTNQP  282 (445)
Q Consensus       218 ~~~~LlVlDdv~~--~~~l~~l~----~~~~~~--------~~~vl~t~~-~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  282 (445)
                      ++.-++|+|+++.  .+....++    .+....        -..++.|.+ ....+.+.+++.++..+.+....    .+
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~----~~  206 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG----VA  206 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC----CC
Confidence            3455888999974  33333332    222211        223333321 23578999999999999987642    11


Q ss_pred             chHHHHHHHHHHHHhCCChHHHHHH
Q 045345          283 WKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       283 ~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                      .      ...++..++|.|+....+
T Consensus       207 ~------~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        207 D------ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             h------HHHHHHHcCCCHHHHHHH
Confidence            1      123577889999754433

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.35  E-value=0.0029  Score=55.59  Aligned_cols=26  Identities=27%  Similarity=0.293  Sum_probs=22.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.++|+|.|++|+||||+|+.++..+
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999998764

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.35  E-value=0.0049  Score=50.62  Aligned_cols=40  Identities=20%  Similarity=0.062  Sum_probs=28.1

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +..++.+.|...-....+|.+.|.-|.|||||++.++..+
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3444444443321234589999999999999999999865

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.

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=96.32  E-value=0.02  Score=48.44  Aligned_cols=89  Identities=25%  Similarity=0.120  Sum_probs=43.9

Q ss_pred             EEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHcc--C
Q 045345          142 ICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRY--R  219 (445)
Q Consensus       142 I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~--~  219 (445)
                      |.|+||+||||+|+.++.++  .|..+..-..++......+.  +-.++-..+...   ..-+.+-....+...+..  .
T Consensus         1 i~G~PgsGK~t~~~~la~~~--~~~~is~~~llr~~~~~~s~--~g~~i~~~l~~g---~~vp~~~v~~ll~~~l~~~~~   73 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY--GLVHISVGDLLREEIKSDSE--LGKQIQEYLDNG---ELVPDELVIELLKERLEQPPC   73 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH--TSEEEEHHHHHHHHHHTTSH--HHHHHHHHHHTT---SS--HHHHHHHHHHHHHSGGT
T ss_pred             CcCCCCCChHHHHHHHHHhc--CcceechHHHHHHHHhhhhH--HHHHHHHHHHhh---ccchHHHHHHHHHHHHhhhcc
Confidence            68999999999999999865  22222221112221111111  112222222211   122233345556665543  2


Q ss_pred             cEEEEEcCCC-CHHHHHHh
Q 045345          220 KVLLIVDAAF-DLKQLESL  237 (445)
Q Consensus       220 ~~LlVlDdv~-~~~~l~~l  237 (445)
                      ..-+|||+.- +.+|.+.+
T Consensus        74 ~~g~ildGfPrt~~Qa~~l   92 (151)
T PF00406_consen   74 NRGFILDGFPRTLEQAEAL   92 (151)
T ss_dssp             TTEEEEESB-SSHHHHHHH
T ss_pred             cceeeeeeccccHHHHHHH
Confidence            4567899984 55665555

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>PRK08356 hypothetical protein; Provisional

Probab=96.32  E-value=0.014  Score=51.69  Aligned_cols=21  Identities=33%  Similarity=0.528  Sum_probs=19.2

Q ss_pred             EEEEEEccCCCchhHHHHHHH
Q 045345          138 RMIGICGMGGIGKTTLARVVY  158 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~  158 (445)
                      .+|+|.|++|+||||+|+.+.
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            578999999999999999994

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.31  E-value=0.038  Score=51.09  Aligned_cols=42  Identities=19%  Similarity=0.255  Sum_probs=31.1

Q ss_pred             chhHHHHHhhhccC-CCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          120 DSCWNTLRFLMDKE-PYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       120 ~~~l~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +..+..|...+..+ +.+.-+++++|.+|+||.-.++.+++.+
T Consensus        92 ~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~  134 (344)
T KOG2170|consen   92 QLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENL  134 (344)
T ss_pred             HHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHH
Confidence            34455566666553 3446789999999999999999988764

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.31  E-value=0.0033  Score=54.70  Aligned_cols=25  Identities=28%  Similarity=0.468  Sum_probs=22.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ++|.+.|++|+||||+|+.+.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            5899999999999999999988653

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK06851 hypothetical protein; Provisional

Probab=96.30  E-value=0.011  Score=57.24  Aligned_cols=36  Identities=17%  Similarity=0.286  Sum_probs=28.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc-cCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS-SHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~-~~~f~~~~~~~  172 (445)
                      .+++.|.|++|+|||||++.++... ...+...++.+
T Consensus       214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC  250 (367)
T PRK06851        214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHC  250 (367)
T ss_pred             ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeC
Confidence            4789999999999999999999875 44455555544

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.30  E-value=0.016  Score=58.46  Aligned_cols=27  Identities=26%  Similarity=0.245  Sum_probs=23.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+++|+|++|+||||++..++..+..
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~  376 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAA  376 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            579999999999999999998876543

>PRK15453 phosphoribulokinase; Provisional

Probab=96.26  E-value=0.021  Score=53.00  Aligned_cols=28  Identities=25%  Similarity=0.397  Sum_probs=24.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...+|+|.|.+|+||||+|+.+.+.+..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~~   31 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFRR   31 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4679999999999999999999876543

>PRK13947 shikimate kinase; Provisional

Probab=96.25  E-value=0.0036  Score=54.21  Aligned_cols=26  Identities=35%  Similarity=0.358  Sum_probs=22.4

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .|.|+|++|+||||+|+.+++.+.-.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~   28 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFG   28 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            47899999999999999999876443

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.24  E-value=0.035  Score=50.98  Aligned_cols=52  Identities=19%  Similarity=0.146  Sum_probs=34.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeehhhhhhccCCHHHHHHHHHHH
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLANVREISEKGGLICLQKQLLSE  193 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~l~~~il~~  193 (445)
                      ...++.|.|.+|+|||++|.+++.....+ -..++|+.      -......+...++..
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s------~E~~~~~~~~r~~~~   64 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS------LEMSKEQLLQRLLAS   64 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe------CCCCHHHHHHHHHHH
Confidence            34689999999999999999988765433 33556654      223444555555443

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=96.22  E-value=0.017  Score=57.40  Aligned_cols=29  Identities=28%  Similarity=0.327  Sum_probs=24.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...+|.++|++|+||||+|..++..+...
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            36799999999999999988888766544

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.21  E-value=0.0047  Score=53.72  Aligned_cols=27  Identities=30%  Similarity=0.401  Sum_probs=23.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+|+|.|++|+||||+|+.++..+..
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~~   30 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLRE   30 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            459999999999999999999987643

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=96.21  E-value=0.0067  Score=55.17  Aligned_cols=41  Identities=24%  Similarity=0.209  Sum_probs=28.3

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++.+.+.....+..+|+|+|+||.|||||..++...+..
T Consensus        15 ~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~   55 (266)
T PF03308_consen   15 ARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRE   55 (266)
T ss_dssp             HHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhh
Confidence            33444444433445789999999999999999998877544

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.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.20  E-value=0.004  Score=52.06  Aligned_cols=26  Identities=38%  Similarity=0.526  Sum_probs=22.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +|+|.|++|+||||+|+.+++.+.-.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~   27 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK   27 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc
Confidence            68999999999999999999876433

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.20  E-value=0.011  Score=57.26  Aligned_cols=90  Identities=16%  Similarity=0.197  Sum_probs=53.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee-hhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA-NVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL  216 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~-~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l  216 (445)
                      ..+.|.|+.|.||||+...+...+.......++.. +..+.... ..    ..+    ...... ..+.......++..|
T Consensus       123 g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~-~~----~~~----i~q~ev-g~~~~~~~~~l~~~l  192 (343)
T TIGR01420       123 GLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHR-NK----RSL----INQREV-GLDTLSFANALRAAL  192 (343)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhcc-Cc----cce----EEcccc-CCCCcCHHHHHHHhh
Confidence            58999999999999999998887654444444432 11111000 00    000    000000 111223456677888


Q ss_pred             ccCcEEEEEcCCCCHHHHHHh
Q 045345          217 RYRKVLLIVDAAFDLKQLESL  237 (445)
Q Consensus       217 ~~~~~LlVlDdv~~~~~l~~l  237 (445)
                      +..+=.|++|.+.+.+.....
T Consensus       193 r~~pd~i~vgEird~~~~~~~  213 (343)
T TIGR01420       193 REDPDVILIGEMRDLETVELA  213 (343)
T ss_pred             ccCCCEEEEeCCCCHHHHHHH
Confidence            899999999999887766543

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.19  E-value=0.021  Score=53.23  Aligned_cols=101  Identities=17%  Similarity=0.110  Sum_probs=58.4

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCC
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTS  201 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~  201 (445)
                      .++.+..++..   ...+|.|.|+.|.||||++.++...+...-..++.+.+..+.... +.        .++.    ..
T Consensus        68 ~~~~l~~~~~~---~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~-~~--------~q~~----v~  131 (264)
T cd01129          68 NLEIFRKLLEK---PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIP-GI--------NQVQ----VN  131 (264)
T ss_pred             HHHHHHHHHhc---CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCC-Cc--------eEEE----eC
Confidence            44455555542   235899999999999999999887664322233444322221110 00        0000    00


Q ss_pred             CcChhhhHHHHHHHHccCcEEEEEcCCCCHHHHHHhc
Q 045345          202 TWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLA  238 (445)
Q Consensus       202 ~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~l~~l~  238 (445)
                      ...-......++..|+..+=.|+++++.+.+....++
T Consensus       132 ~~~~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~~~~  168 (264)
T cd01129         132 EKAGLTFARGLRAILRQDPDIIMVGEIRDAETAEIAV  168 (264)
T ss_pred             CcCCcCHHHHHHHHhccCCCEEEeccCCCHHHHHHHH
Confidence            0001134566777888899999999999887655443

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.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.18  E-value=0.005  Score=54.21  Aligned_cols=91  Identities=21%  Similarity=0.206  Sum_probs=48.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHh-CCCCCCCcChhhhHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELL-KLPDTSTWNVYDGLKMIGSR  215 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~-~~~~~~~~~~~~~~~~l~~~  215 (445)
                      ...++|.|+.|.|||||++.+...+... ...+.+.+..+.....      .... .+. ................+...
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~~~-~~~i~ied~~E~~~~~------~~~~-~~~~~~~~~~~~~~~~~~~~l~~~   96 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIPPD-ERIITIEDTAELQLPH------PNWV-RLVTRPGNVEGSGEVTMADLLRSA   96 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCCC-CCEEEECCccccCCCC------CCEE-EEEEecCCCCCCCccCHHHHHHHH
Confidence            3589999999999999999998765432 2333333211111000      0000 000 00000011112234555666


Q ss_pred             HccCcEEEEEcCCCCHHHHH
Q 045345          216 LRYRKVLLIVDAAFDLKQLE  235 (445)
Q Consensus       216 l~~~~~LlVlDdv~~~~~l~  235 (445)
                      ++..+=.++++.+.+.+.+.
T Consensus        97 lR~~pd~i~igEir~~ea~~  116 (186)
T cd01130          97 LRMRPDRIIVGEVRGGEALD  116 (186)
T ss_pred             hccCCCEEEEEccCcHHHHH
Confidence            77778888888887776544

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PF13479 AAA_24: AAA domain

Probab=96.18  E-value=0.011  Score=53.17  Aligned_cols=20  Identities=50%  Similarity=0.469  Sum_probs=17.7

Q ss_pred             EEEEEEccCCCchhHHHHHH
Q 045345          138 RMIGICGMGGIGKTTLARVV  157 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~  157 (445)
                      -.+.|+|.+|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            36789999999999999876

>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=96.18  E-value=0.0074  Score=57.65  Aligned_cols=58  Identities=26%  Similarity=0.265  Sum_probs=39.9

Q ss_pred             ccccccccchhHHHH---HhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccce
Q 045345          112 IFKDLVGMDSCWNTL---RFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASS  169 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l---~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~  169 (445)
                      ....+||.....+..   .++...+.-..+.+.|.|++|.|||+||..+++.+....|.+.
T Consensus        22 ~~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~   82 (398)
T PF06068_consen   22 IADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVS   82 (398)
T ss_dssp             EETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEE
T ss_pred             ccccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeE
Confidence            456899988766544   4555544434688999999999999999999999987655443

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.17  E-value=0.0034  Score=55.00  Aligned_cols=23  Identities=22%  Similarity=0.206  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|.|.|++|+||||+|+.++..+
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999998865

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.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.17  E-value=0.019  Score=55.06  Aligned_cols=23  Identities=35%  Similarity=0.541  Sum_probs=20.6

Q ss_pred             EEEEccCCCchhHHHHHHHhhcc
Q 045345          140 IGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +++.|++|.||||+++.+...+.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~   24 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLR   24 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHH
Confidence            67999999999999999998764

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.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.16  E-value=0.0063  Score=59.48  Aligned_cols=52  Identities=25%  Similarity=0.406  Sum_probs=37.6

Q ss_pred             ccccccchhHHHHHhhhccC------------CCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKE------------PYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~------------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ..+||.+...+.+.-.+...            ....+-|.++|++|+|||+||+.++..+...|
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~f   75 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   75 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeE
Confidence            45788888887775444321            11235788999999999999999998765443

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.

>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=96.15  E-value=0.0083  Score=56.95  Aligned_cols=98  Identities=20%  Similarity=0.164  Sum_probs=54.8

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC----
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD----  199 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~----  199 (445)
                      .|...|. .+-+..+++-|+|+.|+||||||..+.......-..++|++.    ..  .+   -...+..++...+    
T Consensus        40 ~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~----e~--~l---d~~~a~~lGvdl~rllv  110 (322)
T PF00154_consen   40 ALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDA----EH--AL---DPEYAESLGVDLDRLLV  110 (322)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEES----SS--------HHHHHHTT--GGGEEE
T ss_pred             ccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEecC----cc--cc---hhhHHHhcCccccceEE
Confidence            4555554 222335799999999999999999988776555556778762    11  11   1223333332111    


Q ss_pred             CCCcChhhhHHHHHHHHccC-cEEEEEcCCCCH
Q 045345          200 TSTWNVYDGLKMIGSRLRYR-KVLLIVDAAFDL  231 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~~~-~~LlVlDdv~~~  231 (445)
                      ..+...++....+...++.. --++|+|-|-..
T Consensus       111 ~~P~~~E~al~~~e~lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  111 VQPDTGEQALWIAEQLIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             EE-SSHHHHHHHHHHHHHTTSESEEEEE-CTT-
T ss_pred             ecCCcHHHHHHHHHHHhhcccccEEEEecCccc
Confidence            12234455566666666544 358889987543

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 ....

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.14  E-value=0.017  Score=52.49  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|.|.|++|+||||+|+.+++.+
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999998865

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.13  E-value=0.21  Score=45.77  Aligned_cols=197  Identities=16%  Similarity=0.161  Sum_probs=103.2

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC------ccccceeeehhhh------hhcc-
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH------EFEASSFLANVRE------ISEK-  180 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~------~f~~~~~~~~~~~------~~~~-  180 (445)
                      ..+.++++.-..+.++..  .++.+-..++|++|.||-|.+..+.+++-.      +-+..-|......      ++.. 
T Consensus        13 ~~l~~~~e~~~~Lksl~~--~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~y   90 (351)
T KOG2035|consen   13 DELIYHEELANLLKSLSS--TGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNY   90 (351)
T ss_pred             hhcccHHHHHHHHHHhcc--cCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccc
Confidence            447777777777777665  345778889999999999999888876422      1222333321111      0000 


Q ss_pred             ----------CCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcE-EEEEcCCCCHH--H---HHHhcCCCCCc
Q 045345          181 ----------GGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKV-LLIVDAAFDLK--Q---LESLAGKHEWF  244 (445)
Q Consensus       181 ----------~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~~~~--~---l~~l~~~~~~~  244 (445)
                                ..-..+..+++.++......+.             -..+++ ++|+-.+++..  .   ++.-...... 
T Consensus        91 HlEitPSDaG~~DRvViQellKevAQt~qie~-------------~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~-  156 (351)
T KOG2035|consen   91 HLEITPSDAGNYDRVVIQELLKEVAQTQQIET-------------QGQRPFKVVVINEADELTRDAQHALRRTMEKYSS-  156 (351)
T ss_pred             eEEeChhhcCcccHHHHHHHHHHHHhhcchhh-------------ccccceEEEEEechHhhhHHHHHHHHHHHHHHhc-
Confidence                      0001122333333321111000             011233 56666665431  1   1111111111 


Q ss_pred             CcccccccC-----------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhC-
Q 045345          245 DEHLLMTHG-----------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLY-  312 (445)
Q Consensus       245 ~~~vl~t~~-----------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~-  312 (445)
                      +.+++....           ..-.++++..+++|....+++.+-+.+...+  .+++.+|+++++|+-.-.-.+-...+ 
T Consensus       157 ~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~~~  234 (351)
T KOG2035|consen  157 NCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLMLEAVRV  234 (351)
T ss_pred             CceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence            222222111           1234789999999999999888744443322  57899999999998543322222221 


Q ss_pred             -C---------CCHHHHHHHHHHHhc
Q 045345          313 -G---------KTTKEWESAPKRLER  328 (445)
Q Consensus       313 -~---------~~~~~w~~~l~~l~~  328 (445)
                       +         -+..+|+-++.++..
T Consensus       235 ~n~~~~a~~~~i~~~dWe~~i~e~a~  260 (351)
T KOG2035|consen  235 NNEPFTANSQVIPKPDWEIYIQEIAR  260 (351)
T ss_pred             ccccccccCCCCCCccHHHHHHHHHH
Confidence             1         134679888877543

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.12  E-value=0.027  Score=55.38  Aligned_cols=25  Identities=24%  Similarity=0.189  Sum_probs=21.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998653

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.10  E-value=0.0069  Score=56.30  Aligned_cols=37  Identities=16%  Similarity=0.237  Sum_probs=28.4

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ...++.|.|++|+|||+||.+++.....+-..++|+.
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis   71 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT   71 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            3578999999999999999998775433344566665

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

>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=0.0048  Score=53.90  Aligned_cols=25  Identities=36%  Similarity=0.555  Sum_probs=22.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +|+|.|.+|+||||||..+...+..
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~   25 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRV   25 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999999999987643

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

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

Probab=96.08  E-value=0.12  Score=46.50  Aligned_cols=45  Identities=24%  Similarity=0.340  Sum_probs=33.2

Q ss_pred             cc-ccchhHHHHHhhhccC-----------CCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          116 LV-GMDSCWNTLRFLMDKE-----------PYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       116 ~v-Gr~~~l~~l~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .| |.+.++++|.+.+...           -.+.+=+.++|++|.|||-||+++++.
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahh  204 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHH  204 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhh
Confidence            45 4677788887765421           123556789999999999999999863

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.05  E-value=0.007  Score=53.84  Aligned_cols=36  Identities=19%  Similarity=0.203  Sum_probs=27.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ...+|+|+|++|+||||||+.+...+...-...+++
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l   58 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL   58 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence            456999999999999999999998764432334444

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.04  E-value=0.0048  Score=51.30  Aligned_cols=26  Identities=27%  Similarity=0.478  Sum_probs=21.8

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +++|+|++|+|||||++.+...+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCcc
Confidence            36899999999999999998865443

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=96.04  E-value=0.006  Score=52.60  Aligned_cols=45  Identities=27%  Similarity=0.306  Sum_probs=32.6

Q ss_pred             ccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          116 LVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       116 ~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +||.+..+.++.+.+..-.....-|.|+|..|+||+.+|+.+++.
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            478888888888877652222245669999999999999999884

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 ....

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.04  E-value=0.0053  Score=53.59  Aligned_cols=25  Identities=32%  Similarity=0.394  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+++|.|++|+|||||++.++..+.
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3789999999999999999987653

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.03  E-value=0.0042  Score=55.23  Aligned_cols=23  Identities=43%  Similarity=0.650  Sum_probs=20.9

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|+|.|++|+||||||+.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998765

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.

>PRK06217 hypothetical protein; Validated

Probab=96.03  E-value=0.0053  Score=53.85  Aligned_cols=23  Identities=35%  Similarity=0.424  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|.|.|++|.||||||+++...+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999999875

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.01  E-value=0.015  Score=61.61  Aligned_cols=97  Identities=15%  Similarity=0.061  Sum_probs=56.5

Q ss_pred             HHHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCC----
Q 045345          124 NTLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLP----  198 (445)
Q Consensus       124 ~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~----  198 (445)
                      ..|..+|. .+-...+++-|+|++|+||||||..++......-..++|++.    ......     ..+..++...    
T Consensus        46 ~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~----E~t~~~-----~~A~~lGvDl~~ll  116 (790)
T PRK09519         46 IALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDA----EHALDP-----DYAKKLGVDTDSLL  116 (790)
T ss_pred             HHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECC----ccchhH-----HHHHHcCCChhHeE
Confidence            45555665 344456799999999999999998877654333455677762    111111     2333333211    


Q ss_pred             CCCCcChhhhHHHHHHHHc-cCcEEEEEcCCC
Q 045345          199 DTSTWNVYDGLKMIGSRLR-YRKVLLIVDAAF  229 (445)
Q Consensus       199 ~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  229 (445)
                      .....+.+.....+...++ ++.-|||+|-+.
T Consensus       117 v~~~~~~E~~l~~i~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        117 VSQPDTGEQALEIADMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             EecCCCHHHHHHHHHHHhhcCCCeEEEEcchh
Confidence            1122334445555555554 467799999874

>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=96.01  E-value=0.0051  Score=51.56  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=20.9

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|.|.|++|+||||+|+.+...+
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999865

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

Probab=96.01  E-value=0.047  Score=55.80  Aligned_cols=24  Identities=33%  Similarity=0.440  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|+.|+|||||.+.+...
T Consensus       348 g~riaiiG~NG~GKSTLlk~l~g~  371 (530)
T COG0488         348 GDRIAIVGPNGAGKSTLLKLLAGE  371 (530)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhh
Confidence            347999999999999999999654

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=96.00  E-value=0.0047  Score=54.17  Aligned_cols=23  Identities=39%  Similarity=0.699  Sum_probs=21.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|+|.|.+|+||||||+.++..+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999875

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.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.00  E-value=0.0056  Score=53.73  Aligned_cols=26  Identities=38%  Similarity=0.442  Sum_probs=23.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|+|-||=|+||||||+.+++++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            35899999999999999999998765

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=95.98  E-value=0.0087  Score=55.74  Aligned_cols=44  Identities=20%  Similarity=0.172  Sum_probs=35.1

Q ss_pred             hhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          129 LMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       129 ~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +|..+-...+++.|+|.+|+|||++|.++..........++|+.
T Consensus        15 ~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs   58 (260)
T COG0467          15 ILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS   58 (260)
T ss_pred             HhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence            33333345679999999999999999999988766677788876

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=95.97  E-value=0.0077  Score=52.82  Aligned_cols=36  Identities=28%  Similarity=0.298  Sum_probs=29.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++.|+|+.|+|||||+..+.......|..++...
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccccccceeec
Confidence            368899999999999999999998888785444443

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 ....

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.97  E-value=0.0054  Score=51.81  Aligned_cols=23  Identities=26%  Similarity=0.518  Sum_probs=20.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ++.|.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            46799999999999999998763

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK14974 cell division protein FtsY; Provisional

Probab=95.96  E-value=0.035  Score=53.34  Aligned_cols=29  Identities=24%  Similarity=0.228  Sum_probs=24.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +..+++++|++|+||||++..++..+...
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            36799999999999999888888765443

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

Probab=95.96  E-value=0.057  Score=50.56  Aligned_cols=52  Identities=17%  Similarity=0.146  Sum_probs=34.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeehhhhhhccCCHHHHHHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLANVREISEKGGLICLQKQLLSEL  194 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~l~~~il~~l  194 (445)
                      ..++.|.|.+|+|||+++.+++.....+ -..++|+.    .  ......+...+...+
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS----~--E~~~~~~~~r~~~~~   82 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS----L--EEPVVRTARRLLGQY   82 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE----c--ccCHHHHHHHHHHHH
Confidence            4588899999999999999998775443 34566665    2  123444555555443

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

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.96  E-value=0.04  Score=48.57  Aligned_cols=25  Identities=36%  Similarity=0.331  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .++.|.|++|+|||+++..++..+.
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~   57 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALA   57 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            3888999999999999999987653

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

Probab=95.95  E-value=0.088  Score=48.67  Aligned_cols=93  Identities=19%  Similarity=0.238  Sum_probs=56.4

Q ss_pred             ccccccchhHHHHHhhhc----------cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCH
Q 045345          114 KDLVGMDSCWNTLRFLMD----------KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGL  183 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~----------~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  183 (445)
                      .+.-|.+...+.|.+..-          .....-+-|.++|++|.|||-||++|+-..-..|     +.    ++.    
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTF-----FS----vSS----  199 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTF-----FS----VSS----  199 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCce-----EE----eeh----
Confidence            567788888888876432          1112256788999999999999999997643322     22    111    


Q ss_pred             HHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH-ccCcEEEEEcCCCC
Q 045345          184 ICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL-RYRKVLLIVDAAFD  230 (445)
Q Consensus       184 ~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~  230 (445)
                      .    .+.+.-.+       ..+.++..+.+.. .+++-+|.+|.++.
T Consensus       200 S----DLvSKWmG-------ESEkLVknLFemARe~kPSIIFiDEiDs  236 (439)
T KOG0739|consen  200 S----DLVSKWMG-------ESEKLVKNLFEMARENKPSIIFIDEIDS  236 (439)
T ss_pred             H----HHHHHHhc-------cHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence            1    12222111       1223344444433 46899999999863

>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=95.95  E-value=0.016  Score=48.59  Aligned_cols=35  Identities=26%  Similarity=0.286  Sum_probs=26.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+++|.|+.|.|||||++.++..... ..+.+++.
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~   60 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELEP-DEGIVTWG   60 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCCC-CceEEEEC
Confidence            358999999999999999999875432 34445543

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.

>PRK14528 adenylate kinase; Provisional

Probab=95.93  E-value=0.059  Score=47.37  Aligned_cols=24  Identities=29%  Similarity=0.362  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.|.|.|++|+||||+|+.++..+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999998765

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=95.93  E-value=0.0095  Score=61.27  Aligned_cols=48  Identities=25%  Similarity=0.417  Sum_probs=38.1

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....+++|.+..++.+...+...  ...-+.|+|++|+|||++|+.+++.
T Consensus        62 ~~f~~iiGqs~~i~~l~~al~~~--~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        62 KSFDEIIGQEEGIKALKAALCGP--NPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             CCHHHeeCcHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHH
Confidence            34467999999999998776533  2345679999999999999999764

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.

>PRK13949 shikimate kinase; Provisional

Probab=95.93  E-value=0.0069  Score=52.37  Aligned_cols=24  Identities=33%  Similarity=0.355  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .|.|+|++|.||||+++.++..+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999998764

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=95.92  E-value=0.0097  Score=58.25  Aligned_cols=51  Identities=25%  Similarity=0.378  Sum_probs=38.0

Q ss_pred             ccccccchhHHHHHhhhcc---------C---CCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          114 KDLVGMDSCWNTLRFLMDK---------E---PYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~---------~---~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..++|.+...+.+...+..         +   ......+.++|++|+|||+||+.++..+...
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~   77 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAP   77 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCCh
Confidence            4588999888888766632         0   0113578899999999999999999876443

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=95.92  E-value=0.0057  Score=51.87  Aligned_cols=20  Identities=40%  Similarity=0.775  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchhHHHHHHH
Q 045345          139 MIGICGMGGIGKTTLARVVY  158 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~  158 (445)
                      .|+|+|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58899999999999999987

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.91  E-value=0.0034  Score=52.32  Aligned_cols=45  Identities=29%  Similarity=0.352  Sum_probs=32.1

Q ss_pred             cccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          117 VGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       117 vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ||....++.+.+.+..-......|.|+|.+|+||+++|+.++..-
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            577788888877766422233467899999999999999888753

>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=95.88  E-value=0.0069  Score=51.28  Aligned_cols=22  Identities=41%  Similarity=0.546  Sum_probs=20.2

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |.|+|++|.||||+|+.++..+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6799999999999999998865

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.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=95.88  E-value=0.0088  Score=50.88  Aligned_cols=36  Identities=22%  Similarity=0.194  Sum_probs=28.7

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ...+|-++|++|.||||||.++...+....-.+..+
T Consensus        22 ~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~L   57 (197)
T COG0529          22 KGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLL   57 (197)
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEe
Confidence            456899999999999999999999876654444443

>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=95.84  E-value=0.0067  Score=52.32  Aligned_cols=23  Identities=43%  Similarity=0.491  Sum_probs=19.8

Q ss_pred             EEEEccCCCchhHHHHHHHhhcc
Q 045345          140 IGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      |.|+|.+|+|||||++.+++.++
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~   24 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELK   24 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhh
Confidence            67999999999999999998764

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.

>TIGR01351 adk adenylate kinases

Probab=95.83  E-value=0.054  Score=48.62  Aligned_cols=22  Identities=27%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |.|.|++|+||||+|+.++..+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6799999999999999998754

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.83  E-value=0.013  Score=53.39  Aligned_cols=48  Identities=15%  Similarity=0.124  Sum_probs=33.0

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .|.++|..+-....++.|.|.+|+|||+||.+++......-..++|+.
T Consensus         8 ~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881         8 GLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             hHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            444555433334579999999999999999988765333344566765

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.

>PRK13948 shikimate kinase; Provisional

Probab=95.83  E-value=0.0078  Score=52.60  Aligned_cols=28  Identities=18%  Similarity=0.265  Sum_probs=24.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+.|.++|+.|+||||+++.++..+..
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg~   36 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALML   36 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3468889999999999999999987643

>PRK05439 pantothenate kinase; Provisional

Probab=95.81  E-value=0.011  Score=56.04  Aligned_cols=29  Identities=38%  Similarity=0.445  Sum_probs=24.6

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...-+|+|.|.+|+||||+|+.+...+..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~~  112 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLSR  112 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            44679999999999999999998876543

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=95.78  E-value=0.0096  Score=60.64  Aligned_cols=50  Identities=20%  Similarity=0.249  Sum_probs=39.1

Q ss_pred             ccccccccchhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+++--..-++++..||..   +....+++.++|++|+||||.++.+++.+
T Consensus        17 ~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el   69 (519)
T PF03215_consen   17 TLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL   69 (519)
T ss_pred             CHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            344566666778888888875   33346799999999999999999999875

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=95.77  E-value=0.012  Score=60.79  Aligned_cols=50  Identities=16%  Similarity=0.143  Sum_probs=38.0

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +..+.|.+..+.|.++.........+|.|+|++|+||||+|+.++..+..
T Consensus       369 P~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        369 PEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             ChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            34566666666667666655555668999999999999999999988754

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

Probab=95.76  E-value=0.034  Score=50.39  Aligned_cols=54  Identities=24%  Similarity=0.259  Sum_probs=37.4

Q ss_pred             cccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeeh
Q 045345          115 DLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLAN  173 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~  173 (445)
                      +.=|-.++++.|.+....           +-+..+-|.++|++|.|||-+|++++++.     ..||+..
T Consensus       178 dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt-----dacfirv  242 (435)
T KOG0729|consen  178 DVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT-----DACFIRV  242 (435)
T ss_pred             cccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc-----CceEEee
Confidence            455667777777664331           11335568899999999999999999865     3455553

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=95.76  E-value=0.012  Score=54.49  Aligned_cols=41  Identities=24%  Similarity=0.273  Sum_probs=30.8

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .+|...+....++..+|||+|.||+|||||.-.+...+..+
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~   78 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRER   78 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHC
Confidence            34444444445567899999999999999999988876444

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.76  E-value=0.12  Score=49.23  Aligned_cols=48  Identities=21%  Similarity=0.049  Sum_probs=33.8

Q ss_pred             eEEcCCCCHHHHHHHHHHhhcCCCCCc-hHHHHHHHHHHHHhCCChHHH
Q 045345          257 VHKLKVLHDDEALQLFCKQAFKTNQPW-KEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       257 ~~~l~~L~~~ea~~Lf~~~a~~~~~~~-~~~~~~~~~i~~~~~GlPLal  304 (445)
                      .++|++++.+|+..++....-.+-... ...+...+++.-..+|+|.-+
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            679999999999999987763332221 233455666777779999654

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).

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.76  E-value=0.02  Score=59.84  Aligned_cols=59  Identities=20%  Similarity=0.398  Sum_probs=44.5

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeeh
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLAN  173 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~  173 (445)
                      ...+.++|.+..++.+...+..+    +.+.++|++|+|||++|+.+++.+... |...+++.+
T Consensus        15 ~~~~~viG~~~a~~~l~~a~~~~----~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n   74 (608)
T TIGR00764        15 RLIDQVIGQEEAVEIIKKAAKQK----RNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPN   74 (608)
T ss_pred             hhHhhccCHHHHHHHHHHHHHcC----CCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeC
Confidence            34567899999998888877743    255699999999999999999887554 344455543

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=95.75  E-value=0.014  Score=53.02  Aligned_cols=37  Identities=22%  Similarity=0.183  Sum_probs=24.9

Q ss_pred             hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       121 ~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+.+...+...    .+..|+|++|.|||+++..+...+
T Consensus         5 ~Q~~Ai~~~~~~~----~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    5 SQREAIQSALSSN----GITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHHHCTSS----E-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCC----CCEEEECCCCCChHHHHHHHHHHh
Confidence            3456666666522    278899999999998777776655

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

Probab=95.74  E-value=0.042  Score=58.80  Aligned_cols=103  Identities=17%  Similarity=0.199  Sum_probs=64.5

Q ss_pred             ccccccchhHHHHHhhhccC---CC---CeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHH
Q 045345          114 KDLVGMDSCWNTLRFLMDKE---PY---GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~---~~---~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ...+|-+..+..|...+...   ..   ..-.+.+.|+.|+|||.||++++..+.+..+..+-++    .+.      ..
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriD----mse------~~  631 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLD----MSE------FQ  631 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEec----hhh------hh
Confidence            45788888888887776531   11   2456778999999999999999998866665555554    222      11


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcE-EEEEcCCCC
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKV-LLIVDAAFD  230 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~~  230 (445)
                      +  .+.+.+.++.-.  -......+.+.++.+|+ +|+||||+.
T Consensus       632 e--vskligsp~gyv--G~e~gg~LteavrrrP~sVVLfdeIEk  671 (898)
T KOG1051|consen  632 E--VSKLIGSPPGYV--GKEEGGQLTEAVKRRPYSVVLFEEIEK  671 (898)
T ss_pred             h--hhhccCCCcccc--cchhHHHHHHHHhcCCceEEEEechhh
Confidence            1  223322222111  11223457777888886 666899983

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=95.74  E-value=0.012  Score=54.72  Aligned_cols=24  Identities=38%  Similarity=0.379  Sum_probs=20.9

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .|.|.|++|+|||+||+.++....
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~~lg   46 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVARKRD   46 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            566999999999999999998553

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).

>PRK14530 adenylate kinase; Provisional

Probab=95.74  E-value=0.0084  Score=54.09  Aligned_cols=24  Identities=25%  Similarity=0.188  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.|.|.|++|+||||+|+.++..+
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            368899999999999999998865

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

Probab=95.74  E-value=0.048  Score=52.22  Aligned_cols=73  Identities=21%  Similarity=0.287  Sum_probs=47.0

Q ss_pred             hhhhHhhhhhcccCCCCCCCCCccccccccccchhHHHHHhhhcc----------CCCCeEEEEEEccCCCchhHHHHHH
Q 045345           88 ESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDK----------EPYGVRMIGICGMGGIGKTTLARVV  157 (445)
Q Consensus        88 e~~~i~~iv~~v~~~p~~~~~~~~~~~~~vGr~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~~  157 (445)
                      +..+++..-.+|...     +|...=+++.|..+..+-|++..-.          ....=+-|.++|++|.|||-||++|
T Consensus       191 d~~Lve~lerdIl~~-----np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAv  265 (491)
T KOG0738|consen  191 DADLVEALERDILQR-----NPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAV  265 (491)
T ss_pred             hHHHHHHHHHHHhcc-----CCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHH
Confidence            555555555566554     2223345678888877777664321          1111346789999999999999999


Q ss_pred             HhhccCcc
Q 045345          158 YDLSSHEF  165 (445)
Q Consensus       158 ~~~~~~~f  165 (445)
                      +......|
T Consensus       266 ATEc~tTF  273 (491)
T KOG0738|consen  266 ATECGTTF  273 (491)
T ss_pred             HHhhcCeE
Confidence            98765443

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.74  E-value=0.007  Score=51.92  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.7

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |+|.|++|+||||+|+.+...+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998875

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.

>PRK13946 shikimate kinase; Provisional

Probab=95.73  E-value=0.0086  Score=52.59  Aligned_cols=25  Identities=28%  Similarity=0.506  Sum_probs=22.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +.|.+.|++|+||||+++.+++++.
T Consensus        11 ~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         11 RTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            5789999999999999999998763

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.73  E-value=0.01  Score=53.17  Aligned_cols=27  Identities=22%  Similarity=0.372  Sum_probs=22.9

Q ss_pred             CCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          134 PYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       134 ~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....+.+.|+|++|+|||||+..+...
T Consensus        10 ~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         10 PAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            345678999999999999999998754

>PTZ00494 tuzin-like protein; Provisional

Probab=95.72  E-value=0.11  Score=51.03  Aligned_cols=78  Identities=15%  Similarity=0.122  Sum_probs=55.8

Q ss_pred             ccccccccccchhHHHHHhhhcc-CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDK-EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      +..+..+|.|+.+-..+.+.|.+ +....+++++.|.-|.|||+|.+....+-   --..+|++    +   .+.++.+.
T Consensus       367 ~a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE---~~paV~VD----V---Rg~EDtLr  436 (664)
T PTZ00494        367 AAAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVE---GVALVHVD----V---GGTEDTLR  436 (664)
T ss_pred             ccccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHc---CCCeEEEE----e---cCCcchHH
Confidence            45667899999999999888876 34457999999999999999998876542   22456665    2   22334455


Q ss_pred             HHHHHHhCC
Q 045345          189 QLLSELLKL  197 (445)
Q Consensus       189 ~il~~l~~~  197 (445)
                      .+.+.++..
T Consensus       437 sVVKALgV~  445 (664)
T PTZ00494        437 SVVRALGVS  445 (664)
T ss_pred             HHHHHhCCC
Confidence            666666643

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.72  E-value=0.0096  Score=52.76  Aligned_cols=25  Identities=24%  Similarity=0.364  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|.|.|++|+||||+|..++.++
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3589999999999999999999864

>PHA02244 ATPase-like protein

Probab=95.71  E-value=0.0093  Score=57.43  Aligned_cols=47  Identities=11%  Similarity=0.109  Sum_probs=32.0

Q ss_pred             cccccccchhHHHH----HhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          113 FKDLVGMDSCWNTL----RFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       113 ~~~~vGr~~~l~~l----~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...++|....+...    ..++..   + .-|.|+|++|+|||+||++++.....
T Consensus        95 d~~~ig~sp~~~~~~~ri~r~l~~---~-~PVLL~GppGtGKTtLA~aLA~~lg~  145 (383)
T PHA02244         95 DTTKIASNPTFHYETADIAKIVNA---N-IPVFLKGGAGSGKNHIAEQIAEALDL  145 (383)
T ss_pred             CCcccCCCHHHHHHHHHHHHHHhc---C-CCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34577766655433    333332   2 24678999999999999999987543

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=95.69  E-value=0.21  Score=48.00  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=22.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+.++|+.|+|||++|..++..+
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~l   45 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQAL   45 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHH
Confidence            4578899999999999999998864

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.68  E-value=0.0081  Score=52.43  Aligned_cols=24  Identities=33%  Similarity=0.592  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ++++|+|++|+||||||+.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            478999999999999999998854

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.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.68  E-value=0.017  Score=53.98  Aligned_cols=32  Identities=19%  Similarity=0.124  Sum_probs=27.6

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccCccc
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSHEFE  166 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~  166 (445)
                      .+..++.|.|.+|.|||||...+...+.....
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~  133 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRLKDSVP  133 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHhccCCC
Confidence            45789999999999999999999998766543

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.67  E-value=0.011  Score=51.00  Aligned_cols=28  Identities=25%  Similarity=0.361  Sum_probs=24.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++++|+|..|+|||||+..+...+..
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhh
Confidence            4579999999999999999999987654

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.67  E-value=0.0095  Score=49.69  Aligned_cols=35  Identities=20%  Similarity=0.294  Sum_probs=26.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc-Cccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS-HEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~-~~f~~~~~~~  172 (445)
                      ++|.|+|..|+|||||++.+.+.+. ..+...++..
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~   36 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKH   36 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEE
Confidence            4799999999999999999999865 4454444444

>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=95.67  E-value=0.0088  Score=52.47  Aligned_cols=33  Identities=24%  Similarity=0.198  Sum_probs=25.3

Q ss_pred             EEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +.|.|++|+|||+||.+++......-..++|+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            679999999999999998876443334566664

A related protein is found in archaea.

>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=95.67  E-value=0.015  Score=51.41  Aligned_cols=43  Identities=30%  Similarity=0.375  Sum_probs=31.9

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++|-+.....+.-....    ..-+.|.|++|+|||+||+.+..-
T Consensus         3 ~dI~GQe~aKrAL~iAAaG----~h~lLl~GppGtGKTmlA~~l~~l   45 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG----GHHLLLIGPPGTGKTMLARRLPSL   45 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC----C--EEEES-CCCTHHHHHHHHHHC
T ss_pred             hhhcCcHHHHHHHHHHHcC----CCCeEEECCCCCCHHHHHHHHHHh
Confidence            4678888887777665552    347789999999999999999863

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.

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=95.66  E-value=0.019  Score=54.32  Aligned_cols=56  Identities=25%  Similarity=0.232  Sum_probs=42.3

Q ss_pred             cccccccccchhHHH---HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccc
Q 045345          111 EIFKDLVGMDSCWNT---LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE  166 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~---l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~  166 (445)
                      .....|||.....+.   +.++...+.-..+.|.|.|++|.|||+||..+++.+...-+
T Consensus        36 ~~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvP   94 (450)
T COG1224          36 FIGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVP   94 (450)
T ss_pred             EcCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCC
Confidence            345789997765443   45566655445789999999999999999999998876533

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=95.65  E-value=0.011  Score=53.01  Aligned_cols=25  Identities=44%  Similarity=0.671  Sum_probs=21.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|+|.+|+|||||++.++--.
T Consensus        33 Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          33 GETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhccc
Confidence            3489999999999999999998643

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=95.64  E-value=0.014  Score=56.40  Aligned_cols=52  Identities=21%  Similarity=0.184  Sum_probs=39.7

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcccccee
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSF  170 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~  170 (445)
                      .++|.+..+..+...+..+    +.+.+.|++|+|||+||+.++..+...|..+.+
T Consensus        25 ~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~   76 (329)
T COG0714          25 VVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARALARALGLPFVRIQC   76 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHHHHHhCCCeEEEec
Confidence            4888888887776666532    367799999999999999999988755544433

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.61  E-value=0.01  Score=52.26  Aligned_cols=25  Identities=24%  Similarity=0.394  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+++|+|++|+|||||++.++....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~~   27 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQREQ   27 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCC
Confidence            3788999999999999999977543

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

Probab=95.61  E-value=0.015  Score=57.65  Aligned_cols=50  Identities=20%  Similarity=0.213  Sum_probs=35.7

Q ss_pred             ccccccchhHHHHHhhhc-------cC-C------CCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          114 KDLVGMDSCWNTLRFLMD-------KE-P------YGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~-------~~-~------~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+||.+..++.+...+.       .. .      .....+.++|++|+|||+||+.++..+..
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~  134 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDV  134 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            458999998887754431       00 0      01246889999999999999999876543

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=95.60  E-value=0.012  Score=56.05  Aligned_cols=51  Identities=20%  Similarity=0.221  Sum_probs=42.4

Q ss_pred             ccccccchhHHHHHhhhccC----CCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          114 KDLVGMDSCWNTLRFLMDKE----PYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~----~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..|+|.++.++++.+.+...    ...-+++.+.||.|.||||||..+.+-+...
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y  115 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEY  115 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheE
Confidence            57999999999999988752    2346899999999999999999988766543

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.60  E-value=0.061  Score=52.24  Aligned_cols=86  Identities=19%  Similarity=0.206  Sum_probs=42.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc--CccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS--HEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGS  214 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~--~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~  214 (445)
                      .++|.++|+.|+||||-...++.++.  ..-..+.++.    .....--..-|-+....+.+.+-....+..++...+..
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiIT----tDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~  278 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT----TDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEA  278 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEE----eccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHH
Confidence            68999999999999954444444332  3333455554    22211111122334445554443333444443333322


Q ss_pred             HHccCcEEEEEcCC
Q 045345          215 RLRYRKVLLIVDAA  228 (445)
Q Consensus       215 ~l~~~~~LlVlDdv  228 (445)
                       +++. =+|.+|-+
T Consensus       279 -l~~~-d~ILVDTa  290 (407)
T COG1419         279 -LRDC-DVILVDTA  290 (407)
T ss_pred             -hhcC-CEEEEeCC
Confidence             3333 35556654

>PLN02165 adenylate isopentenyltransferase

Probab=95.60  E-value=0.012  Score=56.05  Aligned_cols=26  Identities=23%  Similarity=0.261  Sum_probs=23.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+++|+|+.|+|||+||..++..+.
T Consensus        43 g~iivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         43 DKVVVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHcC
Confidence            45899999999999999999988754

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.59  E-value=0.012  Score=51.12  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..|.|+|+.|.||||||+.++..+.
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHHcC
Confidence            4688999999999999999998653

>PF13245 AAA_19: Part of AAA domain

Probab=95.58  E-value=0.011  Score=43.44  Aligned_cols=24  Identities=25%  Similarity=0.195  Sum_probs=17.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++.|.|++|.|||+++......
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            357888999999999655554443

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=95.57  E-value=0.016  Score=55.28  Aligned_cols=48  Identities=21%  Similarity=0.213  Sum_probs=32.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      .+++.+.|-||+||||+|.+.+-........+..+.    ....+++.+.+.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g~kvLlvS----tDPAhsL~d~f~   49 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESGKKVLLVS----TDPAHSLGDVFD   49 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcCCcEEEEE----eCCCCchHhhhc
Confidence            478999999999999999998776555444444443    333444444433

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=95.55  E-value=0.032  Score=51.19  Aligned_cols=24  Identities=38%  Similarity=0.563  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        28 G~i~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          28 GEITGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcc
Confidence            459999999999999999999873

>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=95.55  E-value=0.12  Score=44.23  Aligned_cols=43  Identities=23%  Similarity=0.207  Sum_probs=31.2

Q ss_pred             ccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          118 GMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       118 Gr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |-+...+.|...+..+. -...+.++|+.|+||+++|..+++.+
T Consensus         1 gq~~~~~~L~~~~~~~~-l~ha~L~~G~~g~gk~~~a~~~a~~l   43 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGR-LPHALLFHGPSGSGKKTLALAFARAL   43 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC---SEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCC-cceeEEEECCCCCCHHHHHHHHHHHH
Confidence            44566777777776432 24567899999999999999999864

...

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.54  E-value=0.071  Score=52.76  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=21.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...+++++|+.|+||||++..++..
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~  214 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAAR  214 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3579999999999999999888765

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

Probab=95.54  E-value=0.024  Score=52.59  Aligned_cols=29  Identities=34%  Similarity=0.385  Sum_probs=25.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ...++|||++|.|||-||+.++..+.-.|
T Consensus       166 Pkg~ll~GppGtGKTlla~~Vaa~mg~nf  194 (388)
T KOG0651|consen  166 PKGLLLYGPPGTGKTLLARAVAATMGVNF  194 (388)
T ss_pred             CceeEEeCCCCCchhHHHHHHHHhcCCce
Confidence            56799999999999999999998775554

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

Probab=95.54  E-value=0.098  Score=53.94  Aligned_cols=93  Identities=20%  Similarity=0.234  Sum_probs=52.1

Q ss_pred             cccccchhHHHHHhhhccCC--------CC---eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCH
Q 045345          115 DLVGMDSCWNTLRFLMDKEP--------YG---VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGL  183 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~--------~~---~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  183 (445)
                      ++-|..+..+.+.+.+.-.+        ..   ..=|.++|++|+|||-||.+++....-+     |+..       .+.
T Consensus       668 digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~-----fisv-------KGP  735 (952)
T KOG0735|consen  668 DIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLR-----FISV-------KGP  735 (952)
T ss_pred             ecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCee-----EEEe-------cCH
Confidence            34455555555555554222        11   2347899999999999999998754322     2321       111


Q ss_pred             HHHHHHHHHHHhCCCCCCCcChhhhHHHH-HHHHccCcEEEEEcCCCCH
Q 045345          184 ICLQKQLLSELLKLPDTSTWNVYDGLKMI-GSRLRYRKVLLIVDAAFDL  231 (445)
Q Consensus       184 ~~l~~~il~~l~~~~~~~~~~~~~~~~~l-~~~l~~~~~LlVlDdv~~~  231 (445)
                           +++....+..       ++.+..+ .+.-.-+|++|.||..++.
T Consensus       736 -----ElL~KyIGaS-------Eq~vR~lF~rA~~a~PCiLFFDEfdSi  772 (952)
T KOG0735|consen  736 -----ELLSKYIGAS-------EQNVRDLFERAQSAKPCILFFDEFDSI  772 (952)
T ss_pred             -----HHHHHHhccc-------HHHHHHHHHHhhccCCeEEEecccccc
Confidence                 2333333221       2223333 3333469999999998753

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=95.54  E-value=0.011  Score=48.70  Aligned_cols=23  Identities=35%  Similarity=0.411  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +-|.|.|.||+||||||.+++..
T Consensus         8 PNILvtGTPG~GKstl~~~lae~   30 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEK   30 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHH
Confidence            46789999999999999999864

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.54  E-value=0.02  Score=54.85  Aligned_cols=39  Identities=23%  Similarity=0.195  Sum_probs=28.6

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+.+.+........+|+|.|.+|+|||||+..+...+..
T Consensus        44 ~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~   82 (332)
T PRK09435         44 ELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIE   82 (332)
T ss_pred             HHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            343333322345689999999999999999998877654

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.53  E-value=0.013  Score=51.53  Aligned_cols=26  Identities=19%  Similarity=0.363  Sum_probs=22.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +..+|.|+|++|+|||||++.+..+.
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            35789999999999999999998764

>PRK04182 cytidylate kinase; Provisional

Probab=95.53  E-value=0.012  Score=51.19  Aligned_cols=24  Identities=42%  Similarity=0.569  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +|+|.|++|+||||+|+.++..+.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999998753

>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=95.53  E-value=0.0069  Score=56.62  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +-+.++|++|+|||++++.+...+.
T Consensus        34 ~pvLl~G~~GtGKT~li~~~l~~l~   58 (272)
T PF12775_consen   34 RPVLLVGPSGTGKTSLIQNFLSSLD   58 (272)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHCST
T ss_pred             CcEEEECCCCCchhHHHHhhhccCC
Confidence            4668999999999999999887643

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.52  E-value=0.01  Score=52.96  Aligned_cols=25  Identities=28%  Similarity=0.465  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|+|++|+||||||+.++...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998864

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=95.51  E-value=0.013  Score=53.21  Aligned_cols=32  Identities=25%  Similarity=0.275  Sum_probs=26.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCcccc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEA  167 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~  167 (445)
                      ...+|.++||+|.||||..+.+...+..++..
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~p   49 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTP   49 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCC
Confidence            35678889999999999999999887776654

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=95.51  E-value=0.012  Score=50.32  Aligned_cols=28  Identities=29%  Similarity=0.396  Sum_probs=23.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      +-|.++||.|.||||+.+.+++.+.-.|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F   30 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPF   30 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCc
Confidence            3578999999999999999998775555

>PRK13975 thymidylate kinase; Provisional

Probab=95.51  E-value=0.013  Score=51.98  Aligned_cols=26  Identities=31%  Similarity=0.454  Sum_probs=23.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..|+|.|+.|+||||+|+.+++.+..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            47899999999999999999998754

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=95.50  E-value=0.022  Score=54.16  Aligned_cols=47  Identities=13%  Similarity=0.016  Sum_probs=33.6

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      .++=.......+...+..    .+.|.|.|++|+|||++|+.++..+...|
T Consensus        46 ~y~f~~~~~~~vl~~l~~----~~~ilL~G~pGtGKTtla~~lA~~l~~~~   92 (327)
T TIGR01650        46 AYLFDKATTKAICAGFAY----DRRVMVQGYHGTGKSTHIEQIAARLNWPC   92 (327)
T ss_pred             CccCCHHHHHHHHHHHhc----CCcEEEEeCCCChHHHHHHHHHHHHCCCe
Confidence            444444455556666642    23688999999999999999999876544

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.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.50  E-value=0.015  Score=55.94  Aligned_cols=48  Identities=25%  Similarity=0.374  Sum_probs=36.6

Q ss_pred             cccccccccchhHHHHHh-hhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          111 EIFKDLVGMDSCWNTLRF-LMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~-~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .....++|.+..++.+.- .+..   +..-+.|.|.+|+||||+|+.+..-+
T Consensus         5 ~~f~~i~Gq~~~~~~l~~~~~~~---~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          5 FPFSAIVGQEEMKQAMVLTAIDP---GIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCHHHhCCHHHHHHHHHHHHhcc---CCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            345678999999887764 3332   22357899999999999999998754

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.48  E-value=0.023  Score=45.90  Aligned_cols=47  Identities=19%  Similarity=0.375  Sum_probs=33.4

Q ss_pred             ccccccchh----HHHHHhhhcc-CCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          114 KDLVGMDSC----WNTLRFLMDK-EPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       114 ~~~vGr~~~----l~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..++|-.-.    ++.|...+.. .+...-|+..+|.+|+|||.+++.+++.
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            346665544    4455555554 3345678899999999999999888876

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

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.47  E-value=0.047  Score=54.54  Aligned_cols=42  Identities=19%  Similarity=0.304  Sum_probs=33.8

Q ss_pred             chhHHHHHhhhc-----cCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          120 DSCWNTLRFLMD-----KEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       120 ~~~l~~l~~~L~-----~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..-+.++..||.     ...-+.+++.|+|++|+||||-.+.++..+
T Consensus        88 kkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel  134 (634)
T KOG1970|consen   88 KKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL  134 (634)
T ss_pred             HHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh
Confidence            345778888887     445567899999999999999998888754

>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []

Probab=95.47  E-value=0.12  Score=47.97  Aligned_cols=91  Identities=13%  Similarity=0.168  Sum_probs=51.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh--ccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCC-----------------
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL--SSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLP-----------------  198 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~--~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~-----------------  198 (445)
                      -+.+|+|+.|.|||+|.+.+...  +..--+.++|+.--.+.-..........|+...-....                 
T Consensus        88 ~I~~VYGPTG~GKSqLlRNLis~~lI~P~PETVfFItP~~~mIpp~E~~aW~~Ql~EgNY~~~~~gTi~P~t~t~~P~Fv  167 (369)
T PF02456_consen   88 FIGVVYGPTGSGKSQLLRNLISCQLIQPPPETVFFITPQKDMIPPQEITAWETQLCEGNYDCGPDGTIVPQTGTFRPKFV  167 (369)
T ss_pred             eEEEEECCCCCCHHHHHHHhhhcCcccCCCCceEEECCCCCCCCHHHHHHHHHHHHhcCCCCCCCCeeccccccccccce
Confidence            45678999999999999998753  44444456666422211112223333334443321111                 


Q ss_pred             --------CCCCcChhhhHHHHHHHHccCcEEEEEcCC
Q 045345          199 --------DTSTWNVYDGLKMIGSRLRYRKVLLIVDAA  228 (445)
Q Consensus       199 --------~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv  228 (445)
                              ....-+++.-.....+.-+..++-||+|..
T Consensus       168 ~msy~e~t~~~NldI~~p~NiF~~Aa~~GPiaIImDEC  205 (369)
T PF02456_consen  168 EMSYDEATSPENLDITNPNNIFAQAAKKGPIAIIMDEC  205 (369)
T ss_pred             eecHhhhCCccccCCCCchHHHHHHHhcCCEEEEhHHH
Confidence                    011123333455566777889999999975

During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.46  E-value=0.015  Score=50.13  Aligned_cols=25  Identities=28%  Similarity=0.493  Sum_probs=22.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|++|+|||||++.+..+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3588999999999999999999865

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

Probab=95.44  E-value=0.096  Score=51.28  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |=-.++||||.|||++..++++.+
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L  259 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYL  259 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhc
Confidence            456799999999999999999865

>PRK14527 adenylate kinase; Provisional

Probab=95.44  E-value=0.013  Score=51.77  Aligned_cols=25  Identities=24%  Similarity=0.197  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|.|.|++|.||||+|+.++..+
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998765

>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=95.43  E-value=0.042  Score=50.58  Aligned_cols=25  Identities=28%  Similarity=0.501  Sum_probs=22.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +|+|.|.+|.||||+|+++...+..
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~   25 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAR   25 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5899999999999999999887654

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.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.41  E-value=0.072  Score=47.08  Aligned_cols=26  Identities=38%  Similarity=0.475  Sum_probs=23.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..|+|.|..|+||||+|+.+++.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57999999999999999999987644

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.

>TIGR00665 DnaB replicative DNA helicase

Probab=95.41  E-value=0.23  Score=49.97  Aligned_cols=71  Identities=18%  Similarity=0.163  Sum_probs=42.3

Q ss_pred             ccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC-ccccceeeehhhhhhccCCHHHHHHHHHHHHh
Q 045345          118 GMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH-EFEASSFLANVREISEKGGLICLQKQLLSELL  195 (445)
Q Consensus       118 Gr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~  195 (445)
                      |...-+..|..++. +-....++.|.|.+|+|||++|..++..... +-..++|+.      -.-+...+...++....
T Consensus       177 gi~tG~~~LD~~~~-G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~S------lEm~~~~i~~R~~~~~~  248 (434)
T TIGR00665       177 GVPTGFTDLDKLTS-GLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFS------LEMSAEQLAMRMLSSES  248 (434)
T ss_pred             cccCCchhhHhhcC-CCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEe------CcCCHHHHHHHHHHHhc
Confidence            33344444444443 2223468999999999999999999876432 222345543      23455556666665543

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.

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

Probab=95.39  E-value=0.027  Score=58.34  Aligned_cols=52  Identities=25%  Similarity=0.224  Sum_probs=34.3

Q ss_pred             ccccccchhHHHHHhhhcc----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          114 KDLVGMDSCWNTLRFLMDK----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ++.=|.+.-..+|.+-+..          +-....=|.++|++|.|||-||++|+-..+-.|
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~F  733 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNF  733 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeE
Confidence            3455666666666554432          111133577999999999999999998655443

>COG4240 Predicted kinase [General function prediction only]

Probab=95.38  E-value=0.061  Score=47.72  Aligned_cols=83  Identities=20%  Similarity=0.183  Sum_probs=47.6

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccCcc-ccceeeehhhhhhccCCHHHHHHHHHHHH---h-CCCCCCCcChhhhH
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSHEF-EASSFLANVREISEKGGLICLQKQLLSEL---L-KLPDTSTWNVYDGL  209 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~l~~~il~~l---~-~~~~~~~~~~~~~~  209 (445)
                      ++.-+++|.|+-|.||||++..++..+...+ ..+..+.    ...-.-...-+..++++.   + ....+...+..-+.
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L~~kg~ert~~lS----LDDlYlthadrl~La~q~npllq~RGlpGTHD~tlgl  123 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLLAAKGLERTATLS----LDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGL  123 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHHHHhcccceEEee----hhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHH
Confidence            3467999999999999999999998876555 3444433    222122222233333331   1 11123445555566


Q ss_pred             HHHHHHHccCcE
Q 045345          210 KMIGSRLRYRKV  221 (445)
Q Consensus       210 ~~l~~~l~~~~~  221 (445)
                      +.+....++++-
T Consensus       124 nVLnai~~g~~~  135 (300)
T COG4240         124 NVLNAIARGGPT  135 (300)
T ss_pred             HHHHHHhcCCCC
Confidence            666666666644

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=95.38  E-value=0.023  Score=53.25  Aligned_cols=110  Identities=22%  Similarity=0.190  Sum_probs=60.8

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHH
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSE  193 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~  193 (445)
                      ..+.-.....+.+.++|...-...+.|.|.|..|.||||++.++...+...-..++-+.+..+..-.. .        ..
T Consensus       104 e~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~-~--------~~  174 (270)
T PF00437_consen  104 EDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPG-P--------NQ  174 (270)
T ss_dssp             CCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SC-S--------SE
T ss_pred             hhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhccccccceEEeccccceeecc-c--------ce
Confidence            44444444455666666533223578999999999999999999887655412223333221111000 0        00


Q ss_pred             HhCCCCCCC-cChhhhHHHHHHHHccCcEEEEEcCCCCHHHHHH
Q 045345          194 LLKLPDTST-WNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLES  236 (445)
Q Consensus       194 l~~~~~~~~-~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~l~~  236 (445)
                      +    .... .+.......+...|+..+=.++++.+.+.+....
T Consensus       175 ~----~~~~~~~~~~~~~~l~~~LR~~pD~iiigEiR~~e~~~~  214 (270)
T PF00437_consen  175 I----QIQTRRDEISYEDLLKSALRQDPDVIIIGEIRDPEAAEA  214 (270)
T ss_dssp             E----EEEEETTTBSHHHHHHHHTTS--SEEEESCE-SCHHHHH
T ss_pred             E----EEEeecCcccHHHHHHHHhcCCCCcccccccCCHhHHHH
Confidence            0    0000 1233445667788888888999999988776655

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=95.38  E-value=0.024  Score=53.81  Aligned_cols=85  Identities=21%  Similarity=0.284  Sum_probs=47.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCcc--ccceeeehhhhhhcc-CCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHH
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEF--EASSFLANVREISEK-GGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGS  214 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f--~~~~~~~~~~~~~~~-~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~  214 (445)
                      ..+.|.|.+|.||||++.++...+....  ..++-+.+..+.... ....        .+.  ...   ........++.
T Consensus       133 ~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v--------~~~--~~~---~~~~~~~~l~~  199 (299)
T TIGR02782       133 KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVV--------QLR--TSD---DAISMTRLLKA  199 (299)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEE--------EEE--ecC---CCCCHHHHHHH
Confidence            4677999999999999999998765432  223333332222110 0000        000  000   11134455667


Q ss_pred             HHccCcEEEEEcCCCCHHHHH
Q 045345          215 RLRYRKVLLIVDAAFDLKQLE  235 (445)
Q Consensus       215 ~l~~~~~LlVlDdv~~~~~l~  235 (445)
                      .|+..+=.||+..+.+.+.+.
T Consensus       200 aLR~~pD~iivGEiR~~ea~~  220 (299)
T TIGR02782       200 TLRLRPDRIIVGEVRGGEALD  220 (299)
T ss_pred             HhcCCCCEEEEeccCCHHHHH
Confidence            777777777788777665443

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>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=95.37  E-value=0.032  Score=48.05  Aligned_cols=25  Identities=32%  Similarity=0.360  Sum_probs=22.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|+.|.|||||++.++..+
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999998754

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

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

Probab=95.35  E-value=0.031  Score=50.27  Aligned_cols=52  Identities=27%  Similarity=0.316  Sum_probs=37.3

Q ss_pred             ccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          114 KDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      .+.=|.+-..+++.+....           +-+..+-|.++|++|.|||-||+++++.....|
T Consensus       155 ~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~f  217 (408)
T KOG0727|consen  155 ADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAF  217 (408)
T ss_pred             cccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchhe
Confidence            3456777777777664431           223466788999999999999999998765544

>PLN02200 adenylate kinase family protein

Probab=95.35  E-value=0.015  Score=53.12  Aligned_cols=25  Identities=20%  Similarity=0.122  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|.|.|++|+||||+|+.++..+
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4688999999999999999998754

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.34  E-value=0.014  Score=50.41  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .|.|+|++|+||||+|+.+++.+.
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg   27 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALG   27 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            578899999999999999998763

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.34  E-value=0.012  Score=50.51  Aligned_cols=21  Identities=38%  Similarity=0.336  Sum_probs=17.7

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |+|+|.+|+|||||+..+...
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            789999999999999999976

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.33  E-value=0.016  Score=50.01  Aligned_cols=23  Identities=39%  Similarity=0.577  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|+|.|++|+||||+|+.+.+.+
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998864

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.

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

Probab=95.33  E-value=0.61  Score=42.43  Aligned_cols=52  Identities=23%  Similarity=0.225  Sum_probs=36.8

Q ss_pred             ccccccchhHHHHHhhhccC-----------CCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKE-----------PYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      +++=|.+..+++|.+.+-..           -...+-|..+|++|.|||-+|++.+.+....|
T Consensus       171 sDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTF  233 (424)
T KOG0652|consen  171 SDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATF  233 (424)
T ss_pred             cccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchH
Confidence            45677888888887654311           11245678999999999999999887654444

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.32  E-value=0.081  Score=54.42  Aligned_cols=50  Identities=22%  Similarity=0.217  Sum_probs=36.3

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +..|..+|..+-....++.|.|.+|+|||+||.+++......-..++|+.
T Consensus       259 i~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis  308 (509)
T PRK09302        259 VPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFA  308 (509)
T ss_pred             cHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            45566666544344568899999999999999999876544445677765

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.31  E-value=0.13  Score=54.54  Aligned_cols=25  Identities=24%  Similarity=0.337  Sum_probs=22.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++++++|+.|+||||++..++..+
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH
Confidence            4799999999999999998888765

>PRK13768 GTPase; Provisional

Probab=95.30  E-value=0.017  Score=53.42  Aligned_cols=27  Identities=30%  Similarity=0.442  Sum_probs=22.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .+++|.|+||+||||++..+...+...
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~   29 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLEEQ   29 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHHhc
Confidence            478899999999999999888766443

>smart00072 GuKc Guanylate kinase homologues

Probab=95.30  E-value=0.016  Score=50.90  Aligned_cols=28  Identities=32%  Similarity=0.440  Sum_probs=23.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      +.+.|+|++|+|||||+..+.......|
T Consensus         3 r~ivl~Gpsg~GK~tl~~~L~~~~~~~~   30 (184)
T smart00072        3 RPIVLSGPSGVGKGTLLAELIQEIPDAF   30 (184)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhcCCcce
Confidence            5889999999999999999988654334

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.30  E-value=0.013  Score=53.36  Aligned_cols=37  Identities=19%  Similarity=0.095  Sum_probs=26.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ...++.|.|++|+||||||.+++.....+-..++++.
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            3459999999999999999777665422223445554

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.29  E-value=0.074  Score=49.56  Aligned_cols=28  Identities=32%  Similarity=0.139  Sum_probs=24.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...-++|.|++|.|||||.+.++..+..
T Consensus       110 ~~~~~~i~g~~g~GKttl~~~l~~~~~~  137 (270)
T TIGR02858       110 RVLNTLIISPPQCGKTTLLRDLARILST  137 (270)
T ss_pred             CeeEEEEEcCCCCCHHHHHHHHhCccCC
Confidence            3568899999999999999999987654

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.

>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=95.29  E-value=0.014  Score=53.32  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=19.4

Q ss_pred             EEccCCCchhHHHHHHHhhccCc
Q 045345          142 ICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       142 I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      |.||+|+||||+++.+.+.+...
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~   23 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESN   23 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhc
Confidence            68999999999999999876554

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>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=95.29  E-value=0.015  Score=55.25  Aligned_cols=35  Identities=26%  Similarity=0.362  Sum_probs=25.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +++.+.|-||+||||+|.+.+-.....-..++.+.
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS   36 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLVS   36 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEee
Confidence            57889999999999999888776544333344443

...

>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=95.28  E-value=0.017  Score=45.48  Aligned_cols=22  Identities=41%  Similarity=0.383  Sum_probs=19.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVY  158 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~  158 (445)
                      ...++|.|++|.|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3588999999999999999976

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

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.28  E-value=0.03  Score=52.61  Aligned_cols=114  Identities=23%  Similarity=0.180  Sum_probs=62.3

Q ss_pred             ccccccchhHHHHHhhhcc--CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhh--ccCCHHHHHHH
Q 045345          114 KDLVGMDSCWNTLRFLMDK--EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREIS--EKGGLICLQKQ  189 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~--~~~~~~~l~~~  189 (445)
                      ..|+|-.++-..+..++..  -.+...-|.|+|+.|.|||.|......+ .+.|.....+..+.+.-  +...+..+..+
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~-~q~~~E~~l~v~Lng~~~~dk~al~~I~rq  102 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSD-IQENGENFLLVRLNGELQTDKIALKGITRQ  102 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhh-HHhcCCeEEEEEECccchhhHHHHHHHHHH
Confidence            4689999998888888764  1123446779999999999998766655 22333333332221111  11122223333


Q ss_pred             HHHHHhCCCCCCCcChhhhHHHHHHHHcc------CcEEEEEcCCC
Q 045345          190 LLSELLKLPDTSTWNVYDGLKMIGSRLRY------RKVLLIVDAAF  229 (445)
Q Consensus       190 il~~l~~~~~~~~~~~~~~~~~l~~~l~~------~~~LlVlDdv~  229 (445)
                      +..++... .....+..+....+...|+.      .+++.|+|.++
T Consensus       103 l~~e~~~~-~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfD  147 (408)
T KOG2228|consen  103 LALELNRI-VKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFD  147 (408)
T ss_pred             HHHHHhhh-heeecccchhHHHHHHHHhcCCCCCCceEEEEeehhh
Confidence            33322211 12223344444555555542      46899999876

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=95.27  E-value=0.024  Score=55.92  Aligned_cols=53  Identities=21%  Similarity=0.205  Sum_probs=37.5

Q ss_pred             cccccccchhHHHHHhhhc-------c---CC--C----CeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          113 FKDLVGMDSCWNTLRFLMD-------K---EP--Y----GVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~-------~---~~--~----~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ....||.+...+.+...+.       .   ..  +    ....+.|+|++|+|||+||+.++..+...|
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf  144 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPF  144 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCe
Confidence            3567999998888855441       1   01  1    124788999999999999999997664333

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>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=95.26  E-value=0.029  Score=50.33  Aligned_cols=26  Identities=35%  Similarity=0.534  Sum_probs=22.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++|.|.+|+|||+|+..+.+....
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~~~   41 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQDA   41 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCTT
T ss_pred             CEEEEEcCcccccchhhHHHHhcccc
Confidence            47889999999999999999987654

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 ....

>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=95.26  E-value=0.016  Score=46.62  Aligned_cols=21  Identities=38%  Similarity=0.520  Sum_probs=19.3

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |.|.|.+|+|||||.+.++..
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            679999999999999999875

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=95.26  E-value=0.022  Score=51.84  Aligned_cols=36  Identities=17%  Similarity=0.103  Sum_probs=27.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..++.|.|.+|+|||+||.+++.....+-..++|+.
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS   99 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT   99 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            458899999999999999998876533334455554

>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=95.26  E-value=0.024  Score=48.20  Aligned_cols=35  Identities=20%  Similarity=0.334  Sum_probs=28.8

Q ss_pred             hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       121 ~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-+++|...|..     +++++.|.+|+|||||...+...
T Consensus        24 ~g~~~l~~~l~~-----k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   24 EGIEELKELLKG-----KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTHHHHHHHHTT-----SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCHHHHHHHhcC-----CEEEEECCCCCCHHHHHHHHHhh
Confidence            456777877762     58899999999999999998764

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.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.25  E-value=0.018  Score=54.15  Aligned_cols=28  Identities=36%  Similarity=0.398  Sum_probs=23.3

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ....+|||.|..|+||||+|+.+...+.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3467999999999999999988766554

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.

>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=95.24  E-value=0.014  Score=51.47  Aligned_cols=22  Identities=32%  Similarity=0.226  Sum_probs=20.1

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |.|.|++|+||||+|+.++..+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999998864

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK06761 hypothetical protein; Provisional

Probab=95.23  E-value=0.02  Score=53.50  Aligned_cols=27  Identities=37%  Similarity=0.626  Sum_probs=23.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ++|.|.|++|+||||+++.+++.+...
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~~   30 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQN   30 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCcC
Confidence            589999999999999999999987543

>PRK14532 adenylate kinase; Provisional

Probab=95.22  E-value=0.016  Score=51.00  Aligned_cols=22  Identities=23%  Similarity=0.240  Sum_probs=19.9

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |.|.|++|+||||+|+.++..+
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999998755

>CHL00206 ycf2 Ycf2; Provisional

Probab=95.22  E-value=0.076  Score=60.83  Aligned_cols=26  Identities=27%  Similarity=0.258  Sum_probs=22.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+=|.++|++|+|||.||++++....
T Consensus      1630 PKGILLiGPPGTGKTlLAKALA~es~ 1655 (2281)
T CHL00206       1630 SRGILVIGSIGTGRSYLVKYLATNSY 1655 (2281)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHhcC
Confidence            45678999999999999999998643

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=95.21  E-value=0.033  Score=53.19  Aligned_cols=92  Identities=20%  Similarity=0.147  Sum_probs=51.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL  216 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l  216 (445)
                      ...++|.|..|.|||||++++...+.... ..+.+.+..+.....      .... .+...........-.....+...|
T Consensus       144 ~~~ili~G~tGsGKTTll~al~~~~~~~~-~iv~ied~~El~~~~------~~~~-~l~~~~~~~~~~~~~~~~~l~~~L  215 (308)
T TIGR02788       144 RKNIIISGGTGSGKTTFLKSLVDEIPKDE-RIITIEDTREIFLPH------PNYV-HLFYSKGGQGLAKVTPKDLLQSCL  215 (308)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHccCCccc-cEEEEcCccccCCCC------CCEE-EEEecCCCCCcCccCHHHHHHHHh
Confidence            46899999999999999999987654332 333343322221110      0000 000000000111122345566778


Q ss_pred             ccCcEEEEEcCCCCHHHHHH
Q 045345          217 RYRKVLLIVDAAFDLKQLES  236 (445)
Q Consensus       217 ~~~~~LlVlDdv~~~~~l~~  236 (445)
                      +..+-.|++|.+.+.+.+..
T Consensus       216 r~~pd~ii~gE~r~~e~~~~  235 (308)
T TIGR02788       216 RMRPDRIILGELRGDEAFDF  235 (308)
T ss_pred             cCCCCeEEEeccCCHHHHHH
Confidence            88888999999987665443

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>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=95.21  E-value=0.04  Score=47.91  Aligned_cols=25  Identities=36%  Similarity=0.526  Sum_probs=21.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|+.|.|||||++.++...
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            3489999999999999999988754

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.

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=95.20  E-value=0.018  Score=53.76  Aligned_cols=34  Identities=26%  Similarity=0.287  Sum_probs=28.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ++|+|.|.+|+|||||+..+...++.+. .++.+.
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IK   35 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVK   35 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEE
Confidence            5899999999999999999999887765 455554

>PLN02318 phosphoribulokinase/uridine kinase

Probab=95.19  E-value=0.023  Score=57.97  Aligned_cols=29  Identities=28%  Similarity=0.588  Sum_probs=24.9

Q ss_pred             CCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          133 EPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       133 ~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..++..+|+|.|++|.||||||+.+...+
T Consensus        61 ~~~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         61 KNDGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             cCCCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            34467899999999999999999998764

>PRK14531 adenylate kinase; Provisional

Probab=95.19  E-value=0.017  Score=50.68  Aligned_cols=23  Identities=26%  Similarity=0.199  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|.|.|++|+||||+++.++..+
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998865

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

Probab=95.18  E-value=0.08  Score=54.29  Aligned_cols=50  Identities=30%  Similarity=0.372  Sum_probs=36.2

Q ss_pred             ccccccccchhHHHHHhhhc---cCC-----C-C-eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          112 IFKDLVGMDSCWNTLRFLMD---KEP-----Y-G-VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~---~~~-----~-~-~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+.-|.+...+++.+.+.   ...     + . ++=|.++|++|.|||.||++++...
T Consensus       148 ~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA  207 (596)
T COG0465         148 TFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA  207 (596)
T ss_pred             ChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc
Confidence            44678898887776666543   221     1 1 4568899999999999999998753

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.17  E-value=0.016  Score=49.20  Aligned_cols=26  Identities=27%  Similarity=0.298  Sum_probs=22.8

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +++|+|+.|+|||||+..+...++.+
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~   26 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR   26 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            57899999999999999999987554

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.

>PRK14529 adenylate kinase; Provisional

Probab=95.13  E-value=0.12  Score=46.55  Aligned_cols=90  Identities=22%  Similarity=0.133  Sum_probs=46.7

Q ss_pred             EEEEccCCCchhHHHHHHHhhccCcc-ccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHcc
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSHEF-EASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRY  218 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~  218 (445)
                      |.|.|++|+||||+|+.++..+.-.+ ...-.+..  .+.....+....++++..      ......+-....+.+.+..
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~~is~gdllr~--~i~~~t~lg~~i~~~i~~------G~lvpdei~~~lv~~~l~~   74 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLAHIESGAIFRE--HIGGGTELGKKAKEYIDR------GDLVPDDITIPMILETLKQ   74 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCcccchhhhh--hccCCChHHHHHHHHHhc------cCcchHHHHHHHHHHHHhc
Confidence            67899999999999999988753221 11111110  011112222223333221      1122223345556666643


Q ss_pred             C-cEEEEEcCCC-CHHHHHHh
Q 045345          219 R-KVLLIVDAAF-DLKQLESL  237 (445)
Q Consensus       219 ~-~~LlVlDdv~-~~~~l~~l  237 (445)
                      . ..=+|||..- +.+|.+.+
T Consensus        75 ~~~~g~iLDGfPRt~~Qa~~l   95 (223)
T PRK14529         75 DGKNGWLLDGFPRNKVQAEKL   95 (223)
T ss_pred             cCCCcEEEeCCCCCHHHHHHH
Confidence            2 3458999984 55665544

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.13  E-value=0.023  Score=50.97  Aligned_cols=29  Identities=28%  Similarity=0.326  Sum_probs=25.4

Q ss_pred             CCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          134 PYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       134 ~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++++|+++|..|+|||||...+.....
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34789999999999999999999987654

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PLN02348 phosphoribulokinase

Probab=95.13  E-value=0.039  Score=53.67  Aligned_cols=29  Identities=28%  Similarity=0.425  Sum_probs=25.5

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +...+|+|.|.+|+||||||+.+.+.+..
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~Lg~   75 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVFGG   75 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            45689999999999999999999987753

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

Probab=95.12  E-value=0.015  Score=52.84  Aligned_cols=47  Identities=26%  Similarity=0.150  Sum_probs=31.1

Q ss_pred             HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-cccceeee
Q 045345          126 LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLA  172 (445)
Q Consensus       126 l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~  172 (445)
                      |.++|..+-....++.|.|++|+|||+||.+++.....+ -..++|+.
T Consensus         8 LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs   55 (226)
T PF06745_consen    8 LDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS   55 (226)
T ss_dssp             HHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE
T ss_pred             HHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE
Confidence            344454332335699999999999999999987654333 34566665

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 ....

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=95.12  E-value=0.058  Score=51.90  Aligned_cols=45  Identities=16%  Similarity=0.235  Sum_probs=36.2

Q ss_pred             chhHHHHHhhhccCC-CCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          120 DSCWNTLRFLMDKEP-YGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       120 ~~~l~~l~~~L~~~~-~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +...+.|.+.+...+ ....+|+|.|.=|+|||++.+.+.+.+...
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            445667777777543 567899999999999999999999887666

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.12  E-value=0.033  Score=52.99  Aligned_cols=29  Identities=28%  Similarity=0.303  Sum_probs=24.4

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ....+|+|.|++|+|||||+..+...+..
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~~~~~   60 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGMELRR   60 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            45689999999999999999998876433

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

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

Probab=95.09  E-value=0.031  Score=51.36  Aligned_cols=55  Identities=24%  Similarity=0.308  Sum_probs=41.0

Q ss_pred             ccccccccchhHHHHHhhhccCC-----------CCeEEEEEEccCCCchhHHHHHHHhhccCccc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEP-----------YGVRMIGICGMGGIGKTTLARVVYDLSSHEFE  166 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~-----------~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~  166 (445)
                      ...+.=|.+..+++|.+.....-           ...+=|.++|.+|.|||-||++++++.+..|-
T Consensus       183 ty~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFl  248 (440)
T KOG0726|consen  183 TYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFL  248 (440)
T ss_pred             hhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhh
Confidence            33556789999999987654211           12445779999999999999999998766653

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.09  E-value=0.072  Score=53.16  Aligned_cols=93  Identities=19%  Similarity=0.153  Sum_probs=50.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCC------CCCCcChhh---
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLP------DTSTWNVYD---  207 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~------~~~~~~~~~---  207 (445)
                      ...++|.|.+|+|||||+..++.....+...++.+.-+.  .....+..+.+.++..-....      ..+......   
T Consensus       144 GQR~gIfa~~GvGKt~Ll~~i~~~~~~~~~~v~V~~liG--ER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a  221 (463)
T PRK09280        144 GGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVG--ERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRV  221 (463)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEec--cCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            458899999999999999998876554433333332221  122334444444443211000      011111111   


Q ss_pred             --hHHHHHHHH---ccCcEEEEEcCCCCH
Q 045345          208 --GLKMIGSRL---RYRKVLLIVDAAFDL  231 (445)
Q Consensus       208 --~~~~l~~~l---~~~~~LlVlDdv~~~  231 (445)
                        ..-.+.+++   +++.+||++|++...
T Consensus       222 ~~~a~tiAEyfrd~~G~~VLll~DslTR~  250 (463)
T PRK09280        222 ALTGLTMAEYFRDVEGQDVLLFIDNIFRF  250 (463)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecchHHH
Confidence              112234444   679999999998644

>PRK13764 ATPase; Provisional

Probab=95.07  E-value=0.05  Score=56.21  Aligned_cols=85  Identities=15%  Similarity=0.144  Sum_probs=48.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLR  217 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~  217 (445)
                      ..|.|.|++|+||||++.++++.+..+-..+..+.+..+......+        .+..    ....+...   .....|+
T Consensus       258 ~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~~~~i--------~q~~----~~~~~~~~---~~~~lLR  322 (602)
T PRK13764        258 EGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQVPPEI--------TQYS----KLEGSMEE---TADILLL  322 (602)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccCCCcc--------eEEe----eccccHHH---HHHHHHh
Confidence            4588999999999999999998765432222344433222111100        0000    00111111   2223367


Q ss_pred             cCcEEEEEcCCCCHHHHHHh
Q 045345          218 YRKVLLIVDAAFDLKQLESL  237 (445)
Q Consensus       218 ~~~~LlVlDdv~~~~~l~~l  237 (445)
                      .+|=.+++|.+.+.+.++.+
T Consensus       323 ~rPD~IivGEiRd~Et~~~~  342 (602)
T PRK13764        323 VRPDYTIYDEMRKTEDFKIF  342 (602)
T ss_pred             hCCCEEEECCCCCHHHHHHH
Confidence            78889999999988877653

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.07  E-value=0.091  Score=52.91  Aligned_cols=25  Identities=24%  Similarity=0.301  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++++|+.|+||||++..++..+
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHH
Confidence            4799999999999999999998765

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.06  E-value=0.02  Score=49.86  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=22.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+++|.|++|.|||||++.++..+.
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~   28 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFS   28 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4789999999999999999998654

>TIGR01817 nifA Nif-specific regulatory protein

Probab=95.05  E-value=0.029  Score=58.06  Aligned_cols=51  Identities=16%  Similarity=0.143  Sum_probs=40.3

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .....++|.+..++++.+.+..-......|.|+|.+|+|||++|+.+++..
T Consensus       193 ~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       193 GKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             CccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            345689999999999988776532233466799999999999999998753

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.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.05  E-value=0.019  Score=54.61  Aligned_cols=24  Identities=33%  Similarity=0.422  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+|.+.|++|+||||+|+.+..++
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578899999999999999998765

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.04  E-value=0.031  Score=50.75  Aligned_cols=48  Identities=19%  Similarity=0.137  Sum_probs=32.5

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .|.+.|..+-....++.|.|.+|+|||++|.+++.....+-..++|+.
T Consensus         4 ~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s   51 (224)
T TIGR03880         4 GLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYIS   51 (224)
T ss_pred             hhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            344445433334578999999999999999999876433334455654

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.

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.04  E-value=0.046  Score=55.45  Aligned_cols=29  Identities=17%  Similarity=0.013  Sum_probs=24.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ....+|+|++|+|||||+..+++.+...+
T Consensus       416 GQR~LIvgpp~aGKTtLL~~IAn~i~~n~  444 (672)
T PRK12678        416 GQRGLIVSPPKAGKTTILQNIANAITTNN  444 (672)
T ss_pred             CCEeEEeCCCCCCHHHHHHHHHHHHhhcC
Confidence            45778999999999999999998765433

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=95.03  E-value=0.052  Score=53.95  Aligned_cols=25  Identities=32%  Similarity=0.449  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...++|+|.+|+|||||+..+....
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l~  189 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARAD  189 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999998887643

>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=95.01  E-value=0.038  Score=48.78  Aligned_cols=25  Identities=32%  Similarity=0.440  Sum_probs=22.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +|+|.|+.|+||||+++.+++.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~~   26 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLEA   26 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6899999999999999999987643

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.01  E-value=0.13  Score=44.38  Aligned_cols=80  Identities=14%  Similarity=0.136  Sum_probs=42.8

Q ss_pred             EEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHcc-
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRY-  218 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~-  218 (445)
                      +.|.|.+|+|||++|.+++...   ....+++.    .....+. ...+.+.+... ..+ ......+....+.+.+.. 
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~---~~~~~y~a----t~~~~d~-em~~rI~~H~~-~R~-~~w~t~E~~~~l~~~l~~~   71 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL---GGPVTYIA----TAEAFDD-EMAERIARHRK-RRP-AHWRTIETPRDLVSALKEL   71 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc---CCCeEEEE----ccCcCCH-HHHHHHHHHHH-hCC-CCceEeecHHHHHHHHHhc
Confidence            6799999999999999998652   23455654    2222222 23344333222 122 222222333344444432 


Q ss_pred             -CcEEEEEcCCC
Q 045345          219 -RKVLLIVDAAF  229 (445)
Q Consensus       219 -~~~LlVlDdv~  229 (445)
                       +.-.+++|.+.
T Consensus        72 ~~~~~VLIDclt   83 (169)
T cd00544          72 DPGDVVLIDCLT   83 (169)
T ss_pred             CCCCEEEEEcHh
Confidence             34479999863

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.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=95.01  E-value=0.02  Score=43.87  Aligned_cols=25  Identities=40%  Similarity=0.567  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ++.+.|.+|+||||++..++..++.
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~~   25 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALAK   25 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3678999999999999999987654

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=95.00  E-value=0.019  Score=55.31  Aligned_cols=47  Identities=19%  Similarity=0.172  Sum_probs=37.3

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..++|.+..+..+.+.+..-.....-|.|+|.+|+||+++|+.+...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~   52 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL   52 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            46899999999998877653233346779999999999999998753

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=94.98  E-value=0.071  Score=52.00  Aligned_cols=35  Identities=34%  Similarity=0.321  Sum_probs=28.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc--cCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS--SHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~--~~~f~~~~~~~  172 (445)
                      .++.|.|.+|.|||.||..++.++  ........++.
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~   38 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLC   38 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEE
Confidence            478999999999999999999988  55555556554

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=94.96  E-value=0.029  Score=54.09  Aligned_cols=47  Identities=28%  Similarity=0.304  Sum_probs=37.1

Q ss_pred             ccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....+||-+.....|...+..  .+..-|.|.|..|+||||+|+.+++-
T Consensus        15 pf~~ivGq~~~k~al~~~~~~--p~~~~vli~G~~GtGKs~~ar~~~~~   61 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVID--PKIGGVMIMGDRGTGKSTTIRALVDL   61 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccC--CCCCeEEEEcCCCCCHHHHHHHHHHH
Confidence            456799999888888766653  33445669999999999999999764

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=94.95  E-value=0.023  Score=49.24  Aligned_cols=36  Identities=25%  Similarity=0.352  Sum_probs=30.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ...|++-|++|+|||+|..+.+..++++|...+.-.
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~   48 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITG   48 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEec
Confidence            479999999999999999999999988887555443

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=94.95  E-value=0.022  Score=50.53  Aligned_cols=22  Identities=36%  Similarity=0.647  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+|+|+|+.|+||||.|+.+.+
T Consensus         3 ~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           3 LIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             eEEEEecCCCCCHHHHHHHHHH
Confidence            5899999999999999998876

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=94.94  E-value=0.024  Score=47.74  Aligned_cols=25  Identities=28%  Similarity=0.518  Sum_probs=22.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|+|.+|+||||+.+.+...+
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5789999999999999998887765

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=94.94  E-value=0.032  Score=49.83  Aligned_cols=26  Identities=38%  Similarity=0.593  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .|+|+|-||+||||+|..++.++..+
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~   27 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSK   27 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhc
Confidence            58999999999999999866664433

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=94.92  E-value=0.14  Score=44.22  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ++.|.|.+|+|||++|..++...
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            68899999999999999998764

>PRK05922 type III secretion system ATPase; Validated

Probab=94.91  E-value=0.056  Score=53.55  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=21.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...++|.|..|+|||||.+.++...
T Consensus       157 GqrigI~G~nG~GKSTLL~~Ia~~~  181 (434)
T PRK05922        157 GQRIGVFSEPGSGKSSLLSTIAKGS  181 (434)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccC
Confidence            3478999999999999999988754

>PRK01184 hypothetical protein; Provisional

Probab=94.91  E-value=0.021  Score=50.03  Aligned_cols=21  Identities=33%  Similarity=0.762  Sum_probs=17.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+|+|+|++|+||||+|+ ++.
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~   22 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IAR   22 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHH
Confidence            478999999999999987 444

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=94.91  E-value=0.066  Score=45.45  Aligned_cols=33  Identities=21%  Similarity=0.009  Sum_probs=23.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCcccccee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSF  170 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~  170 (445)
                      ..|-|++..|.||||+|...+-+...+-..+.+
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~   35 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGV   35 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence            467788888999999999888764433333444

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.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=94.90  E-value=0.11  Score=46.20  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+++|.|+.|.|||||++.++....
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          33 GEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             CcEEEEECCCCCCHHHHHHHhcccCC
Confidence            35999999999999999999887654

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=94.90  E-value=0.074  Score=48.97  Aligned_cols=57  Identities=21%  Similarity=0.276  Sum_probs=41.4

Q ss_pred             cccccccccchhHHH---HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcccc
Q 045345          111 EIFKDLVGMDSCWNT---LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEA  167 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~---l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~  167 (445)
                      .....|||.+...+.   +.+++....-..+.+.|.|++|.|||.||.++.+.+...-+.
T Consensus        35 ~~~~g~vGQ~~AReAagiivdlik~KkmaGravLlaGppgtGKTAlAlaisqELG~kvPF   94 (456)
T KOG1942|consen   35 EVAAGFVGQENAREAAGIIVDLIKSKKMAGRAVLLAGPPGTGKTALALAISQELGPKVPF   94 (456)
T ss_pred             ecccccccchhhhhhhhHHHHHHHhhhccCcEEEEecCCCCchhHHHHHHHHHhCCCCCc
Confidence            345789997765442   344554433346789999999999999999999988765443

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=94.90  E-value=0.051  Score=54.34  Aligned_cols=93  Identities=23%  Similarity=0.147  Sum_probs=49.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCC------CCCCcChhh---
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLP------DTSTWNVYD---  207 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~------~~~~~~~~~---  207 (445)
                      ...++|.|.+|+|||+|+..++.....+...++.+.-+.+  ....+..+.+.+...-....      ..+......   
T Consensus       143 GQR~gIfa~~G~GKt~Ll~~~~~~~~~~~~dv~V~~liGE--R~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a  220 (461)
T PRK12597        143 GGKTGLFGGAGVGKTVLMMELIFNISKQHSGSSVFAGVGE--RSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRV  220 (461)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHhhCCCEEEEEcCCc--chHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHH
Confidence            4588999999999999999988876543333332222211  12334444444433211000      011111111   


Q ss_pred             --hHHHHHHHH---ccCcEEEEEcCCCCH
Q 045345          208 --GLKMIGSRL---RYRKVLLIVDAAFDL  231 (445)
Q Consensus       208 --~~~~l~~~l---~~~~~LlVlDdv~~~  231 (445)
                        ..-.+.+++   .++.+||++|++...
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLl~~DslTR~  249 (461)
T PRK12597        221 VLTGLTIAEYLRDEEKEDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEeccchHH
Confidence              112233444   378999999999543

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=94.86  E-value=0.059  Score=57.11  Aligned_cols=24  Identities=33%  Similarity=0.562  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|..|+|||||++-+..-
T Consensus       499 Ge~vaIvG~SGsGKSTL~KLL~gl  522 (709)
T COG2274         499 GEKVAIVGRSGSGKSTLLKLLLGL  522 (709)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999998653

>PRK09165 replicative DNA helicase; Provisional

Probab=94.86  E-value=0.42  Score=48.84  Aligned_cols=44  Identities=20%  Similarity=0.203  Sum_probs=29.6

Q ss_pred             ccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          118 GMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       118 Gr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      |...-+..|..++. +-....++.|-|.+|+|||++|..++....
T Consensus       199 gi~TG~~~LD~~~g-G~~~g~livIaarpg~GKT~~al~ia~~~a  242 (497)
T PRK09165        199 GISTGLRDLDSKLG-GLHPSDLIILAGRPSMGKTALATNIAFNAA  242 (497)
T ss_pred             cccCChHHHhhhcC-CCCCCceEEEEeCCCCChHHHHHHHHHHHH
Confidence            33344445555443 222346889999999999999988876653

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=94.86  E-value=0.088  Score=52.22  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...++|.|..|.|||||+..++....
T Consensus       156 Gqri~I~G~sG~GKTtLl~~Ia~~~~  181 (432)
T PRK06793        156 GQKIGIFAGSGVGKSTLLGMIAKNAK  181 (432)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccCC
Confidence            45789999999999999999887654

>PRK12338 hypothetical protein; Provisional

Probab=94.86  E-value=0.025  Score=53.63  Aligned_cols=25  Identities=32%  Similarity=0.310  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|.|.|.+|+||||+|..++.++
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l   28 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTL   28 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHC
Confidence            4689999999999999999999875

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=94.85  E-value=0.019  Score=50.12  Aligned_cols=21  Identities=38%  Similarity=0.694  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      +|+|+|++|+||||+++.+.+
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.

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=94.85  E-value=0.025  Score=48.03  Aligned_cols=35  Identities=23%  Similarity=0.267  Sum_probs=28.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      .++++|+|+.|+|||||...+...++.+.-.+.-+
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~G~rVa~i   36 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKARGYRVATV   36 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhCCcEEEEE
Confidence            36899999999999999999999877664444444

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

Probab=94.85  E-value=0.19  Score=50.37  Aligned_cols=72  Identities=22%  Similarity=0.166  Sum_probs=43.7

Q ss_pred             cccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc-CccccceeeehhhhhhccCCHHHHHHHHHHHHh
Q 045345          117 VGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS-HEFEASSFLANVREISEKGGLICLQKQLLSELL  195 (445)
Q Consensus       117 vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~  195 (445)
                      .|...-+..|.+++. +-....++.|.|.+|+|||++|..++.... .+-..++|+.      -.-+...+...++....
T Consensus       175 ~gi~tG~~~LD~~~~-G~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fS------lEm~~~~l~~Rl~~~~~  247 (421)
T TIGR03600       175 TGLSTGLPKLDRLTN-GLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFS------LEMSAEQLGERLLASKS  247 (421)
T ss_pred             cceeCCChhHHHHhc-CCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEE------CCCCHHHHHHHHHHHHc
Confidence            344444445555443 222345889999999999999999986643 2223345543      23455666666666544

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.

>PRK00279 adk adenylate kinase; Reviewed

Probab=94.82  E-value=0.024  Score=51.15  Aligned_cols=23  Identities=26%  Similarity=0.301  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|.|.|++|+||||+|+.++..+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=94.81  E-value=0.03  Score=47.73  Aligned_cols=27  Identities=37%  Similarity=0.528  Sum_probs=23.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ++++|+|..|+|||||+..+...+...
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~~~   28 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALSAR   28 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            589999999999999999999876544

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>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=94.79  E-value=0.023  Score=46.99  Aligned_cols=24  Identities=33%  Similarity=0.569  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|+|..|+|||||.+.++...
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEccCCCccccceeeecccc
Confidence            489999999999999999988754

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 ....

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.78  E-value=0.024  Score=50.06  Aligned_cols=35  Identities=26%  Similarity=0.254  Sum_probs=25.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+++|.|++|.|||||.+.+-. +..--.+.+++.
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~-LE~~~~G~I~i~   62 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNG-LEEPDSGSITVD   62 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC-CcCCCCceEEEC
Confidence            35899999999999999988743 323233556654

>PRK05595 replicative DNA helicase; Provisional

Probab=94.78  E-value=0.2  Score=50.46  Aligned_cols=72  Identities=21%  Similarity=0.142  Sum_probs=43.0

Q ss_pred             cccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc-CccccceeeehhhhhhccCCHHHHHHHHHHHHh
Q 045345          117 VGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS-HEFEASSFLANVREISEKGGLICLQKQLLSELL  195 (445)
Q Consensus       117 vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~  195 (445)
                      .|...-+..|..++. +-....++.|-|.+|+|||++|..++.... .+-..++|+.      -.-+...+...++....
T Consensus       182 ~gi~tg~~~ld~~~~-G~~~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fS------lEms~~~l~~R~~a~~~  254 (444)
T PRK05595        182 TGVASGFRELDAKTS-GFQKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFS------LEMSKEQLAYKLLCSEA  254 (444)
T ss_pred             CcccCChHHHHHhcC-CCCCCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEe------cCCCHHHHHHHHHHHhc
Confidence            344444555555443 222345888999999999999999987542 2222344443      23355556666665544

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=94.77  E-value=0.2  Score=45.97  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +..|+|+||+|||+||..++-.+
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~v   25 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAM   25 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHH
Confidence            55789999999999999998754

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.

>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=94.74  E-value=0.15  Score=44.47  Aligned_cols=34  Identities=29%  Similarity=0.436  Sum_probs=25.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ..+++|.|+.|.|||||++.++..... ..+.+++
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~~~-~~G~v~~   58 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLLKP-SSGEILL   58 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-CCcEEEE
Confidence            358999999999999999999875433 3344444

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.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=94.74  E-value=0.056  Score=50.05  Aligned_cols=24  Identities=25%  Similarity=0.198  Sum_probs=19.1

Q ss_pred             eEEEEEEccCCCchhHHH-HHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLA-RVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA-~~~~~~  160 (445)
                      .+.++|.|.+|+|||+|| ..+.+.
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~   93 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQ   93 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHh
Confidence            357899999999999996 555554

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=94.73  E-value=0.04  Score=53.06  Aligned_cols=46  Identities=24%  Similarity=0.236  Sum_probs=34.7

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+||.+..+..|.-.+-.  ++..-+.|.|.+|+|||||++.+..-+
T Consensus         4 ~~ivgq~~~~~al~~~~~~--~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVID--PKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             cccccHHHHHHHHHHHhcC--CCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999888777554442  223457799999999999999998643

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.

>PRK02496 adk adenylate kinase; Provisional

Probab=94.72  E-value=0.024  Score=49.65  Aligned_cols=23  Identities=30%  Similarity=0.236  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+.|.|++|+||||+|+.++..+
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998765

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=94.72  E-value=0.033  Score=45.03  Aligned_cols=26  Identities=31%  Similarity=0.235  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|.+.|.=|.||||+++.++..+
T Consensus        14 ~g~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   14 PGDVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             S-EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            34699999999999999999998864

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=94.69  E-value=0.061  Score=53.52  Aligned_cols=93  Identities=20%  Similarity=0.169  Sum_probs=50.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCC------CCCCcChhh---
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLP------DTSTWNVYD---  207 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~------~~~~~~~~~---  207 (445)
                      ...++|.|.+|+|||+|+..++.....+...++.+.-+++  ....+..+.+++...-....      ..+......   
T Consensus       143 GQr~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~alIGE--R~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a  220 (461)
T TIGR01039       143 GGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGE--RTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRV  220 (461)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHHHHhcCCCeEEEEEecC--CchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            4588999999999999999988765444333333332221  12334444554433211000      011111111   


Q ss_pred             --hHHHHHHHH---ccCcEEEEEcCCCCH
Q 045345          208 --GLKMIGSRL---RYRKVLLIVDAAFDL  231 (445)
Q Consensus       208 --~~~~l~~~l---~~~~~LlVlDdv~~~  231 (445)
                        ..-.+.+++   +++.+||++||+...
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       221 ALTGLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHhcCCeeEEEecchhHH
Confidence              112234444   468999999999644

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=94.68  E-value=0.041  Score=48.78  Aligned_cols=40  Identities=25%  Similarity=0.353  Sum_probs=28.9

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..+.+...+..   +-+++.|.|++|.|||+++..+...+...
T Consensus         6 Q~~a~~~~l~~---~~~~~~l~G~aGtGKT~~l~~~~~~~~~~   45 (196)
T PF13604_consen    6 QREAVRAILTS---GDRVSVLQGPAGTGKTTLLKALAEALEAA   45 (196)
T ss_dssp             HHHHHHHHHHC---TCSEEEEEESTTSTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhc---CCeEEEEEECCCCCHHHHHHHHHHHHHhC
Confidence            34555555552   33688899999999999999988765443

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=94.68  E-value=0.033  Score=47.13  Aligned_cols=27  Identities=41%  Similarity=0.586  Sum_probs=23.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      -.++|.|++|.|||||.+.++.-+...
T Consensus        30 e~iaitGPSG~GKStllk~va~Lisp~   56 (223)
T COG4619          30 EFIAITGPSGCGKSTLLKIVASLISPT   56 (223)
T ss_pred             ceEEEeCCCCccHHHHHHHHHhccCCC
Confidence            378899999999999999999876554

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=94.66  E-value=0.029  Score=54.08  Aligned_cols=45  Identities=22%  Similarity=0.190  Sum_probs=34.7

Q ss_pred             ccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          116 LVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       116 ~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +||....++++.+.+..-.....-|.|+|.+|+||+++|+.++..
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~   45 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYL   45 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHh
Confidence            478888888887776653223346789999999999999998764

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

>cd03114 ArgK-like The function of this protein family is unkown

Probab=94.66  E-value=0.027  Score=47.51  Aligned_cols=25  Identities=36%  Similarity=0.557  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ++++.|.+|+||||++..+...+..
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~~~   25 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITALRA   25 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHHH
Confidence            3789999999999999999876543

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=94.65  E-value=0.034  Score=44.73  Aligned_cols=33  Identities=30%  Similarity=0.445  Sum_probs=24.7

Q ss_pred             EEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +++.|.||+||||++..++..+...-..+..++
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id   34 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAID   34 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            689999999999999999887654433344443

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>PLN02459 probable adenylate kinase

Probab=94.62  E-value=0.26  Score=45.41  Aligned_cols=91  Identities=23%  Similarity=0.175  Sum_probs=46.9

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCccccceeeehhhh-hhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVRE-ISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLR  217 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~-~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~  217 (445)
                      .+.|.|++|+||||+|..++..+.  |..+.-=..++. +.....+....+.++..      ...-+.+.....+.+.+.
T Consensus        31 ~ii~~G~PGsGK~T~a~~la~~~~--~~~is~gdllR~ei~~~t~lg~~i~~~~~~------G~lVPdeiv~~ll~~~l~  102 (261)
T PLN02459         31 NWVFLGCPGVGKGTYASRLSKLLG--VPHIATGDLVREEIKSSGPLGAQLKEIVNQ------GKLVPDEIIFSLLSKRLE  102 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC--CcEEeCcHHHHHHHhccchhHHHHHHHHHc------CCccCHHHHHHHHHHHHh
Confidence            366789999999999999988652  211111111111 11111122222222111      112223334555666664


Q ss_pred             c----CcEEEEEcCCC-CHHHHHHh
Q 045345          218 Y----RKVLLIVDAAF-DLKQLESL  237 (445)
Q Consensus       218 ~----~~~LlVlDdv~-~~~~l~~l  237 (445)
                      .    ..--+|||.+- +..|.+.|
T Consensus       103 ~~~~~~~~g~iLDGFPRt~~Qa~~L  127 (261)
T PLN02459        103 AGEEEGESGFILDGFPRTVRQAEIL  127 (261)
T ss_pred             cccccCCceEEEeCCCCCHHHHHHH
Confidence            3    34569999984 66666665

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=94.61  E-value=0.036  Score=48.57  Aligned_cols=26  Identities=27%  Similarity=0.363  Sum_probs=23.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++.|.|++|.||||+|+.+...+.
T Consensus        18 ~~~i~i~G~~GsGKstla~~l~~~l~   43 (184)
T TIGR00455        18 GVVIWLTGLSGSGKSTIANALEKKLE   43 (184)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46999999999999999999988754

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>TIGR01287 nifH nitrogenase iron protein

Probab=94.61  E-value=0.027  Score=52.88  Aligned_cols=27  Identities=37%  Similarity=0.535  Sum_probs=22.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +.|+|+|-||+||||+|..++..+...
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~   27 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEM   27 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHC
Confidence            468899999999999999988765443

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.

>TIGR00017 cmk cytidylate kinase

Probab=94.60  E-value=0.032  Score=50.30  Aligned_cols=25  Identities=36%  Similarity=0.499  Sum_probs=22.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|+|.|+.|.||||+|+.++.++.
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~~   27 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKLG   27 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999987653

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>PRK13695 putative NTPase; Provisional

Probab=94.56  E-value=0.03  Score=48.61  Aligned_cols=24  Identities=46%  Similarity=0.634  Sum_probs=21.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .++|+|.+|+|||||+..++..+.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~   25 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLK   25 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999887654

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=94.55  E-value=0.14  Score=48.98  Aligned_cols=26  Identities=27%  Similarity=0.419  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...++|.|..|.|||||.+.++....
T Consensus        69 Gqri~I~G~sG~GKTtLl~~Ia~~~~   94 (326)
T cd01136          69 GQRLGIFAGSGVGKSTLLGMIARGTT   94 (326)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCC
Confidence            35789999999999999998887654

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.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.54  E-value=0.03  Score=50.64  Aligned_cols=22  Identities=36%  Similarity=0.641  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      -.|+|.|++|+|||||.+.++-
T Consensus        30 EfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          30 EFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999975

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=94.51  E-value=0.048  Score=53.04  Aligned_cols=95  Identities=14%  Similarity=0.087  Sum_probs=53.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccc---cceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFE---ASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIG  213 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~---~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~  213 (445)
                      ...|.|+|+.|.||||++..+...+....+   .++.+.+..+..    ...... .. ..... .....+.......++
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~~----~~~~~~-~~-~~v~Q-~~v~~~~~~~~~~l~  206 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEFV----YDEIET-IS-ASVCQ-SEIPRHLNNFAAGVR  206 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceEe----cccccc-cc-ceeee-eeccccccCHHHHHH
Confidence            369999999999999999999887644332   123332211110    000000 00 00000 000111223455677


Q ss_pred             HHHccCcEEEEEcCCCCHHHHHHhc
Q 045345          214 SRLRYRKVLLIVDAAFDLKQLESLA  238 (445)
Q Consensus       214 ~~l~~~~~LlVlDdv~~~~~l~~l~  238 (445)
                      ..|+..|-.+++..+.+.+.....+
T Consensus       207 ~aLR~~Pd~i~vGEiRd~et~~~al  231 (358)
T TIGR02524       207 NALRRKPHAILVGEARDAETISAAL  231 (358)
T ss_pred             HHhccCCCEEeeeeeCCHHHHHHHH
Confidence            7888899999999998887765443

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=94.50  E-value=0.045  Score=52.31  Aligned_cols=27  Identities=33%  Similarity=0.500  Sum_probs=23.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ....|+|+|++|+||||+++.++..+.
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~Lg  158 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARLG  158 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            356899999999999999999988763

>PLN02796 D-glycerate 3-kinase

Probab=94.50  E-value=0.032  Score=53.41  Aligned_cols=28  Identities=36%  Similarity=0.338  Sum_probs=24.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..-+|+|.|..|+|||||++.+...+..
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL~~  126 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLFNA  126 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHhcc
Confidence            3568999999999999999999887654

>COG0283 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=94.49  E-value=0.035  Score=48.96  Aligned_cols=27  Identities=30%  Similarity=0.464  Sum_probs=23.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      -+|+|=||+|.||+|+|+.++.++.-.
T Consensus         5 ~~IAIDGPagsGKsTvak~lA~~Lg~~   31 (222)
T COG0283           5 IIIAIDGPAGSGKSTVAKILAEKLGFH   31 (222)
T ss_pred             eEEEEeCCCccChHHHHHHHHHHhCCC
Confidence            589999999999999999999986543

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=94.48  E-value=0.042  Score=38.41  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +..|+|..|.|||||..++..-
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~   46 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTV   46 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7889999999999999887553

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=94.48  E-value=0.034  Score=53.40  Aligned_cols=30  Identities=27%  Similarity=0.199  Sum_probs=26.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFE  166 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~  166 (445)
                      ...+.|-|+||.|||++|..+.+.++++.+
T Consensus        10 G~TLLIKG~PGTGKTtfaLelL~~l~~~~~   39 (484)
T PF07088_consen   10 GQTLLIKGEPGTGKTTFALELLNSLKDHGN   39 (484)
T ss_pred             CcEEEEecCCCCCceeeehhhHHHHhccCC
Confidence            467889999999999999999998877654

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=94.46  E-value=0.029  Score=55.39  Aligned_cols=26  Identities=31%  Similarity=0.355  Sum_probs=23.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      -++.|+|+|.+|.|||||+.+++..+
T Consensus       218 ~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        218 FVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999998753

>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=94.45  E-value=0.033  Score=44.59  Aligned_cols=21  Identities=29%  Similarity=0.455  Sum_probs=19.4

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |+|.|++|+|||||...+...
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            789999999999999999973

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 ....

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=94.45  E-value=0.03  Score=47.56  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|+++|.+|+|||||+..+...
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~   23 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYD   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998753

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

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=94.44  E-value=0.13  Score=51.03  Aligned_cols=25  Identities=20%  Similarity=0.347  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...++|.|..|+|||||+..++...
T Consensus       162 GqrigI~G~sG~GKSTLL~~I~~~~  186 (444)
T PRK08972        162 GQRMGLFAGSGVGKSVLLGMMTRGT  186 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccCC
Confidence            3579999999999999999988643

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=94.44  E-value=0.025  Score=50.83  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=19.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVY  158 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~  158 (445)
                      ...+.|+|.+|+||||+|+.+.
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC
Confidence            3568999999999999999875

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	445
3ozi_A	204	Crystal Structure Of The Tir Domain From The Flax D		1e-14
3jrn_A	176	Crystal Structure Of Tir Domain From Arabidopsis Th		8e-13

>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease Resistance Protein L6 Length = 204

Iteration: 1
 Score = 77.4 bits (189), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 40/95 (42%), Positives = 57/95 (60%), Gaps = 3/95 (3%)
Query: 2   YAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMN 61
           YA S WCL EL EIV  +  +  +++I PIFY V+P+ VR QT  + +AF KH   F  +
Sbjct: 101 YADSKWCLMELAEIVRRQEEDP-RRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKF--D 157
Query: 62  IEKVQKWRDALKKVANVSGWELKDRSESEFIVDIV 96
            + +Q W+DALKKV ++ GW +    +   I D V
Sbjct: 158 GQTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKV 192

>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana Length = 176

Iteration: 1
 Score = 71.6 bits (174), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 39/80 (48%), Positives = 46/80 (57%), Gaps = 4/80 (5%)
Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S+WCLDELV I++ +        + PIFY VEP  VR QT    E F KH    R 
Sbjct: 73  NYAASSWCLDELVTIMDFEKKGS--ITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS--RE 128
Query: 61  NIEKVQKWRDALKKVANVSG 80
           + EKV KWR AL   A +SG
Sbjct: 129 DPEKVLKWRQALTNFAQLSG 148

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	445
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	3e-46
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	1e-45
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	4e-33
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-31
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	1e-26
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-26
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	3e-17

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum} Length = 204

 Score =  157 bits (400), Expect = 3e-46
 Identities = 39/103 (37%), Positives = 56/103 (54%), Gaps = 4/103 (3%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
            YA S WCL EL EIV  +  +  +++I PIFY V+P+ VR QT  + +AF KH   F  
Sbjct: 100 GYADSKWCLMELAEIVRRQEEDP-RRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFDG 158

Query: 61  NIEKVQKWRDALKKVANVSGWELKD-RSESEFIVDIVKDILEM 102
             + +Q W+DALKKV ++ GW +     +      +  DI   
Sbjct: 159 --QTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSH 199

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana} Length = 176

 Score =  155 bits (394), Expect = 1e-45
 Identities = 44/112 (39%), Positives = 55/112 (49%), Gaps = 8/112 (7%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           NYA S+WCLDELV I++ +        + PIFY VEP  VR QT    E F KH      
Sbjct: 73  NYAASSWCLDELVTIMDFEKKGS--ITVMPIFYGVEPNHVRWQTGVLAEQFKKHASREDP 130

Query: 61  NIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEI 112
             EKV KWR AL   A +SG    D  +S+ +  I  +I     K    + I
Sbjct: 131 --EKVLKWRQALTNFAQLSGDCSGD-DDSKLVDKIANEISN---KKTIYATI 176

>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 =  130 bits (327), Expect = 4e-33
 Identities = 59/458 (12%), Positives = 131/458 (28%), Gaps = 72/458 (15%)

Query: 10  DELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWR 69
           ++  E++   ST   +   F   Y  + + +      F      H   F  +        
Sbjct: 38  EDHSELISKMSTRLERIANFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINE 97

Query: 70  DALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFL 129
             L +   ++    +   + + +             +P +   +     +D     L  +
Sbjct: 98  PDLLRPVVIAPQFSRQMLDRKLL----------LGNVPKQMTCYIREYHVDRVIKKLDEM 147

Query: 130 MDKEPYGVRMIGICGMGGIGKTTLARVVY----DLSSHEFEASSFL----ANVREISEKG 181
            D + +    + + G  G GK+ +A         L    +++  +L       +   +  
Sbjct: 148 CDLDSF---FLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLF 204

Query: 182 GLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLR-YRKVLLIVDAAFDLKQLESLAGK 240
             I L  +   +LL  P           +MI + L      L + D   D+ Q E++   
Sbjct: 205 TDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFD---DVVQEETI--- 258

Query: 241 HEWFDEH---LLMT----------HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYE 287
             W  E     L+T              E  ++  L  DE                ++ E
Sbjct: 259 -RWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG-EKEE 316

Query: 288 QLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERE-----------SENEILD 336
            +    ++ S G P  L +       KT ++      +LE             S   +  
Sbjct: 317 DVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAM 376

Query: 337 ILKISFDGLRETEKKIFLDIACFYRGEDRD-YVTKIIDYCDFDPVIG------------I 383
            L+   + L + ++               D  V         D                +
Sbjct: 377 ALQRCVEVLSDEDRSALAFAVVM--PPGVDIPVKLWSCVIPVDICSNEEEQLDDEVADRL 434

Query: 384 RVLIDKSLIEISNGNRL---RMHNLLQEMGQQIVKRQS 418
           + L  +  +       +   ++ +++    + +V  Q+
Sbjct: 435 KRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT 472

>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 =  126 bits (317), Expect = 3e-31
 Identities = 74/476 (15%), Positives = 162/476 (34%), Gaps = 123/476 (25%)

Query: 23  GHQQL----IFPIFYDVEPTVVRKQTASFGEAFS-KHEETFRMNIEKVQKWRDALKKVAN 77
           G  Q     I  +F D           +F + F  K  +    +I   ++    +     
Sbjct: 12  GEHQYQYKDILSVFED-----------AFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDA 60

Query: 78  VSG-----WELKDRSES---EFIVDIVK-------DILEMPSKIPA-KSEIFKDLVGMDS 121
           VSG     W L  + E    +F+ ++++         ++   + P+  + ++ +    D 
Sbjct: 61  VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR--DR 118

Query: 122 CWNTLRFLMDKEPYGV-RM------------------IGICGMGGIGKTTLARVVYDLSS 162
            +N  +       Y V R+                  + I G+ G GKT +A  V    S
Sbjct: 119 LYNDNQVF---AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDV--CLS 173

Query: 163 HEFEASS----FLANVREISEKGGLICLQKQLLSELLK----LPDTS------TWNVYDG 208
           ++ +       F  N++  +    ++ + ++LL ++        D S        ++   
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233

Query: 209 LKMIGSRLRYRKVLLIVD--------AAFDL--KQL---------ESLAGKHEWFDEHLL 249
           L+ +     Y   LL++          AF+L  K L         + L+           
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATT------- 286

Query: 250 MTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGS 309
            TH +   H    L  DE   L  K            + L + V+      P  L ++  
Sbjct: 287 -TH-ISLDHHSMTLTPDEVKSLLLKYL------DCRPQDLPREVLT---TNPRRLSIIAE 335

Query: 310 FLYGKTTKEWESAPKRLERESENEILDILKISFDGLRETE-KKIFLDIACFYRGEDRDYV 368
            +     ++  +     +  + +++  I++ S + L   E +K+F  ++ F         
Sbjct: 336 SI-----RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF--PPSAHIP 388

Query: 369 TKII-----DYCDFDPVIGIRVLIDKSLIEI-SNGNRLRMHNLLQEMGQQIVKRQS 418
           T ++     D    D ++ +  L   SL+E     + + + ++  E+  ++    +
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA 444

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222} Length = 154

 Score =  103 bits (260), Expect = 1e-26
 Identities = 12/74 (16%), Positives = 32/74 (43%), Gaps = 4/74 (5%)

Query: 1   NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRM 60
           ++    W   EL  + +L+S+      I PI++ V    V   + +  +  + +  T   
Sbjct: 84  HFFKKEWPQKELDGLFQLESSGR--SRILPIWHKVSKDEVASFSPTMADKLAFNTSTK-- 139

Query: 61  NIEKVQKWRDALKK 74
           +++++     A+ +
Sbjct: 140 SVDEIVADLMAIIR 153

>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 =  111 bits (280), Expect = 1e-26
 Identities = 67/402 (16%), Positives = 131/402 (32%), Gaps = 63/402 (15%)

Query: 50  AFSKHEETFRMNIEKVQKWRDALKKVANVSGWELKDRSESEFIVDIVKDILEMPSKIPAK 109
               +   +   + +  K   AL             +     I   V+ +L     +P +
Sbjct: 64  DNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGG-VPQR 122

Query: 110 SEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVY---DLSSHEFE 166
             +F   V      N ++  + K       + I GM G GK+ LA        L    F 
Sbjct: 123 PVVF---VTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFP 179

Query: 167 ASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLR------YRK 220
                 +V +  + G L+ LQ  L + L +    S     + ++    RLR      + +
Sbjct: 180 GGVHWVSVGKQDKSGLLMKLQN-LCTRLDQDESFSQRLPLN-IEEAKDRLRILMLRKHPR 237

Query: 221 VLLIVDAAFDLKQLESLAGKHEWFDEH-------------LLMTHGVDEVHKLKVLHDDE 267
            LLI+D   D+     L    + FD                 +      V     L  ++
Sbjct: 238 SLLILD---DVWDSWVL----KAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEK 290

Query: 268 ALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLE 327
            L++             +  + +  ++K   G PL + ++G+ L       WE   K+L+
Sbjct: 291 GLEILSLFVNMKKA---DLPEQAHSIIKECKGSPLVVSLIGALLRDF-PNRWEYYLKQLQ 346

Query: 328 RE-----------SENEILDILKISFDGLRETEKKIFLDIACFYRGEDRDYV---TKIID 373
            +               + + + IS + LRE  K  + D++       +D       +  
Sbjct: 347 NKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQ----KDVKVPTKVLCI 402

Query: 374 YCDFDPVIGIRV---LIDKSLIEISNGNRL---RMHNLLQEM 409
             D +      +    ++KSL+      +     +H+L  + 
Sbjct: 403 LWDMETEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDF 444

>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 = 83.7 bits (207), Expect = 3e-17
 Identities = 58/308 (18%), Positives = 114/308 (37%), Gaps = 49/308 (15%)

Query: 138 RMIGICGMGGIGKTTLAR-VVYDLS--SHEFEASSFLANVREISEKGGLICLQKQLLSEL 194
             + I GM G GK+ LA   V D S     F       ++ +  +K GL+   + L   L
Sbjct: 148 GWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK-QDKSGLLMKLQNLCMRL 206

Query: 195 LKLPDTSTWNVYDGLKMIGSRL------RYRKVLLIVDAAFDLKQLESLAGKHEWFDEH- 247
            +    S   +   ++    RL      ++ + LLI+D  +D   L++       FD   
Sbjct: 207 DQEESFSQ-RLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKA-------FDNQC 258

Query: 248 -LLMT-----------HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVK 295
            +L+T                V     L  ++ L++        N   ++    +  ++K
Sbjct: 259 QILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSL---FVNMKKEDLPAEAHSIIK 315

Query: 296 YSGGLPLALKVLGSFLYGKTTKE-------WESAPKRLERESE---NEILDILKISFDGL 345
              G PL + ++G+ L     +             KR+ + S      + + + IS + L
Sbjct: 316 ECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEML 375

Query: 346 RETEKKIFLDIACFYRGED-RDYVTKIIDYCDFDPVIGI-RVLIDKSLIEI---SNGNRL 400
           RE  K  + D++   +       V  ++   + + V  I +  ++KSL+           
Sbjct: 376 REDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCY 435

Query: 401 RMHNLLQE 408
            +H+L  +
Sbjct: 436 YLHDLQVD 443

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	445
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
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	100.0
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	99.97
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.81
2fna_A	357	Conserved hypothetical protein; structural genomic	99.79
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.71
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.65
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.63
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.6
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.55
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	99.41
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.26
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.23
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.17
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.01
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.93
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.9
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.83
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.76
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.73
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.65
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.64
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.64
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.6
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.58
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	98.58
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.57
3bos_A	242	Putative DNA replication factor; P-loop containing	98.57
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.56
3pvs_A	447	Replication-associated recombination protein A; ma	98.55
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.54
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.44
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.44
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.41
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.39
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.38
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.38
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.38
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.37
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.36
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.33
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.32
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.29
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.28
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.22
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.2
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.2
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.18
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.11
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.1
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.09
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.08
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.02
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.02
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.02
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.01
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.98
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.97
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.96
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.95
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.92
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.89
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.86
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.84
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.77
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.76
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.75
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.66
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.63
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.57
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.56
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.52
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.49
2js7_A	160	Myeloid differentiation primary response protein M	97.49
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.45
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.42
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.41
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.39
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.38
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.34
3co5_A	143	Putative two-component system transcriptional RES	97.29
2qgz_A	308	Helicase loader, putative primosome component; str	97.28
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.26
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	97.15
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.11
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.1
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.08
1fyx_A	149	TOLL-like receptor 2; beta-alpha-beta fold, signal	97.08
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.91
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.91
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	96.91
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.87
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.86
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.83
3io5_A	333	Recombination and repair protein; storage dimer, i	96.8
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.79
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.76
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.73
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.73
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.72
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.72
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.7
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.67
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.65
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.63
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.62
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.6
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.56
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.56
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.53
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.52
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.51
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.48
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.45
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.44
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.42
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.4
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.39
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.39
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.38
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.38
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.36
2xxa_A	433	Signal recognition particle protein; protein trans	96.36
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.35
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.32
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.25
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.23
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.22
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.18
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.17
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.17
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.16
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.16
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.16
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.15
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.15
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.13
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.12
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.11
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.09
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.09
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.08
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.08
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.08
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.07
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.04
1via_A	175	Shikimate kinase; structural genomics, transferase	96.03
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.02
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.01
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.01
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.01
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.01
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.0
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.98
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.98
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.97
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.95
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.95
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.94
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.93
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.93
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.93
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.91
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.91
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.88
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.88
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.88
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.87
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.87
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.87
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.86
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.84
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.79
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.79
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.79
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.77
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.77
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.75
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.75
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.75
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.73
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.73
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.71
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.71
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.68
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.67
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.66
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.64
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.64
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.63
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.62
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.61
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.61
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.61
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.6
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.57
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.55
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.55
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.52
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.52
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.51
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.5
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.47
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.45
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.44
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.43
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.41
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.4
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.4
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.39
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.36
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.35
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.33
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.31
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.29
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.29
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.29
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.27
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.27
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.25
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.24
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.23
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	95.22
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.21
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.2
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.17
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.17
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.15
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.14
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.13
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.12
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.12
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.12
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.11
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.09
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.03
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.01
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.01
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.0
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.0
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.96
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.96
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.96
3ice_A	422	Transcription termination factor RHO; transcriptio	94.95
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.95
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.94
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.91
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.84
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.84
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.79
3fwy_A	314	Light-independent protochlorophyllide reductase I	94.78
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.7
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.68
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.68
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.65
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.63
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.56
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.56
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.54
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.51
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.47
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.45
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.43
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.42
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.41
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.38
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.37
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	94.37
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.32
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.32
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.31
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.26
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.21
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.2
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.18
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.17
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.12
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.06
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.06
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.05
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.04
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.01
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.01
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.99
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	93.99
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.93
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.92
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.91
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.91
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.9
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.89
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	93.88
2og2_A	359	Putative signal recognition particle receptor; nuc	93.86
1g6h_A	257	High-affinity branched-chain amino acid transport	93.86
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.84
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.83
3end_A	307	Light-independent protochlorophyllide reductase ir	93.81
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.8
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.8
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.79
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.78
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.77
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.77
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.75
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	93.74
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.71
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.69
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.68
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.67
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.65
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	93.62
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.62
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	93.6
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.59
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.59
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.58
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.58
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.57
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.57
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	93.56
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.54
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.53
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.51
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.49
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.47
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.44
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	93.44
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.42
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.42
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.4
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	93.39
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	93.38
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	93.37
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.32
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.3
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	93.28
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.26
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	93.26
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.25
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.22
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.21
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.16
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.13
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.1
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.09
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.09
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.08
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.08
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	93.07
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.04
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.01
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.99
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.99
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	92.98
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.96
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.94
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	92.93
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.91
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.9
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.89
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.86
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.85
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	92.85
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.84
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	92.84
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.84
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	92.83
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	92.82
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.81
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	92.81
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.8
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.78
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	92.76
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.75
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	92.74
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	92.73
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	92.71
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.68
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	92.67
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.66
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.62
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	92.62
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.61
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.61
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.59
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.58
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.58
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	92.57
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	92.55
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.51
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	92.51
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	92.51
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	92.5
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	92.43
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.42
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	92.41
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	92.39
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	92.38
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	92.36
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	92.33
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.32
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	92.31
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.3
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	92.28
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.28
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.27
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	92.25
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.24
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.23
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	92.23
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.22
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	92.22
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	92.18
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.16
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.16
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	92.15
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.13
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	92.12
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.11
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.09
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.07
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.04
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.04
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.04
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.03
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.01
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	92.01
3llu_A	196	RAS-related GTP-binding protein C; structural geno	92.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	92.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	91.96
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	91.95
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	91.94
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	91.93
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	91.92
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	91.9
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.89
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	91.86
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.85
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	91.84
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.8
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	91.8
2fh5_B	214	SR-beta, signal recognition particle receptor beta	91.78
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	91.78
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	91.78
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.77
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.75
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	91.72
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.71
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	91.71
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	91.69
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	91.68
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.68
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	91.59
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	91.58
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	91.57
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	91.57
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.55
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	91.55
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.55
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.53
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	91.52
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	91.51
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	91.48
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	91.48
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	91.46
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.41
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	91.38
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	91.37
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	91.35
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	91.35
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.33
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	91.32
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.29
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	91.27
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	91.26
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	91.26
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	91.25
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	91.2
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	91.19
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.18
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	91.17
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	91.17
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	91.17
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	91.13
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	91.08
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	91.05
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	91.01
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.99
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	90.96
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	90.89
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	90.85
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	90.85
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	90.82
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	90.81
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	90.79
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	90.76

>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=8.3e-43  Score=358.27  Aligned_cols=290  Identities=16%  Similarity=0.095  Sum_probs=221.3

Q ss_pred             cccchhHHHHHhhhccC-CCCeEEEEEEccCCCchhHHHHHHHh----hccCccccceeeehhhhhhcc--CCHHHHHHH
Q 045345          117 VGMDSCWNTLRFLMDKE-PYGVRMIGICGMGGIGKTTLARVVYD----LSSHEFEASSFLANVREISEK--GGLICLQKQ  189 (445)
Q Consensus       117 vGr~~~l~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~~~~----~~~~~f~~~~~~~~~~~~~~~--~~~~~l~~~  189 (445)
                      |||+.++++|.++|... ..+.++|+|+|||||||||||+++|+    ++..+|+.++|+.    ++..  .+...++..
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~----vs~~~~~~~~~~~~~  206 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK----DSGTAPKSTFDLFTD  206 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE----CCCCSTTHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEE----ECCCCCCCHHHHHHH
Confidence            49999999999999754 34579999999999999999999996    6889999999996    4443  367889999


Q ss_pred             HHHHHhCCCC------CCCcChhhhHHHHHHHHccC-cEEEEEcCCCCHHHHHHhcCCCCCcCcccccccCC--------
Q 045345          190 LLSELLKLPD------TSTWNVYDGLKMIGSRLRYR-KVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGV--------  254 (445)
Q Consensus       190 il~~l~~~~~------~~~~~~~~~~~~l~~~l~~~-~~LlVlDdv~~~~~l~~l~~~~~~~~~~vl~t~~~--------  254 (445)
                      ++..++....      ....+.......+++.|+++ |+||||||||+.+++ .+... .  +.+|++|++.        
T Consensus       207 il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~~~-~--gs~ilvTTR~~~v~~~~~  282 (549)
T 2a5y_B          207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWAQE-L--RLRCLVTTRDVEISNAAS  282 (549)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHHHH-T--TCEEEEEESBGGGGGGCC
T ss_pred             HHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccccc-C--CCEEEEEcCCHHHHHHcC
Confidence            9999875422      11223344578899999996 999999999998876 33221 1  4556666542        


Q ss_pred             --CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCCCHHHHHHHHHH-HhcCCc
Q 045345          255 --DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKR-LERESE  331 (445)
Q Consensus       255 --~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~-l~~~~~  331 (445)
                        ..+|+|++|+.++|++||.++++.... .+.+.+++.+|+++|+|+||||+++|+.|+.++. +|...+.. +.....
T Consensus       283 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w-~~~~~l~~~l~~~~~  360 (549)
T 2a5y_B          283 QTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTF-EKMAQLNNKLESRGL  360 (549)
T ss_dssp             SCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSH-HHHHHHHHHHHHHCS
T ss_pred             CCCeEEECCCCCHHHHHHHHHHHhcCCCC-chhHHHHHHHHHHHhCCChHHHHHHHHHhccchH-HHHHHhHHHhhcccH
Confidence              246999999999999999999876543 3577889999999999999999999999987753 33333322 222234


Q ss_pred             hhHHHHHHHhhcCCcHhHHHHHh-----------hhhccCCCCCHHHHHHHHHhC--CCCc-----------hhcHHHHh
Q 045345          332 NEILDILKISFDGLRETEKKIFL-----------DIACFYRGEDRDYVTKIIDYC--DFDP-----------VIGIRVLI  387 (445)
Q Consensus       332 ~~i~~~l~~s~~~L~~~~k~~~~-----------~la~f~~~~~~~~l~~~~~~~--~~~~-----------~~~l~~L~  387 (445)
                      ..+..++..||+.||+..+.||+           +||+||.+.+.+  ..+|.++  |+..           ..++++|+
T Consensus       361 ~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L~  438 (549)
T 2a5y_B          361 VGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKRLS  438 (549)
T ss_dssp             STTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHHTT
T ss_pred             HHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHHHH
Confidence            55777788888888888888888           999999887666  5677776  4432           23699999


Q ss_pred             hcCceEEcc---CCeEEccHHHHHHHHHHHhhcC
Q 045345          388 DKSLIEISN---GNRLRMHNLLQEMGQQIVKRQS  418 (445)
Q Consensus       388 ~~sLi~~~~---~~~~~mHdlvr~~ar~~~~~e~  418 (445)
                      ++|||+...   ..+|+|||+||+||++++.+++
T Consensus       439 ~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          439 KRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             TBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             HcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            999998654   3479999999999998776553

>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=3.1e-38  Score=354.54  Aligned_cols=298  Identities=17%  Similarity=0.217  Sum_probs=234.6

Q ss_pred             CccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh---ccCccccce-eeehhhhhhccCCHH
Q 045345          109 KSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL---SSHEFEASS-FLANVREISEKGGLI  184 (445)
Q Consensus       109 ~~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~---~~~~f~~~~-~~~~~~~~~~~~~~~  184 (445)
                      .|..+..||||+.++++|.++|....++.++|+|+||||+||||||++++++   ...+|+..+ |+. +.... .....
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~-~~~~~-~~~~~  196 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVS-IGKQD-KSGLL  196 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEE-CCSCC-HHHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEE-ECCcC-chHHH
Confidence            3345678999999999999999766667899999999999999999999987   356677665 555 22211 22334


Q ss_pred             HHHHHHHHHHhCCCC---CCCcChhhhHHHHHHHHccC--cEEEEEcCCCCHHHHHHhcCCCCCcCcccccccCC-----
Q 045345          185 CLQKQLLSELLKLPD---TSTWNVYDGLKMIGSRLRYR--KVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGV-----  254 (445)
Q Consensus       185 ~l~~~il~~l~~~~~---~~~~~~~~~~~~l~~~l~~~--~~LlVlDdv~~~~~l~~l~~~~~~~~~~vl~t~~~-----  254 (445)
                      ..+..++..+.....   ....+.+.....++..+.++  |+||||||||+..+++.+.+     +.++++|++.     
T Consensus       197 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~~~-----~~~ilvTtR~~~~~~  271 (1249)
T 3sfz_A          197 MKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDN-----QCQILLTTRDKSVTD  271 (1249)
T ss_dssp             HHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTTCS-----SCEEEEEESSTTTTT
T ss_pred             HHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhhcC-----CCEEEEEcCCHHHHH
Confidence            445566666654322   22345666777788888776  99999999999998887632     3456666553     


Q ss_pred             -----CceEEcCC-CCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCCCHHHHHHHHHHHhc
Q 045345          255 -----DEVHKLKV-LHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLER  328 (445)
Q Consensus       255 -----~~~~~l~~-L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~l~~  328 (445)
                           ...+++++ |+.+||++||...++..   .+.+.+.+.+|+++|+|+||||+++|++|+.++ ..|..+++.+..
T Consensus       272 ~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~---~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~  347 (1249)
T 3sfz_A          272 SVMGPKHVVPVESGLGREKGLEILSLFVNMK---KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQN  347 (1249)
T ss_dssp             TCCSCBCCEECCSSCCHHHHHHHHHHHHTSC---STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHS
T ss_pred             hhcCCceEEEecCCCCHHHHHHHHHHhhCCC---hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhh
Confidence                 25688886 99999999999888433   223446689999999999999999999998766 579999988865


Q ss_pred             CC-----------chhHHHHHHHhhcCCcHhHHHHHhhhhccCCC--CCHHHHHHHHHhCCCCchhcHHHHhhcCceEEc
Q 045345          329 ES-----------ENEILDILKISFDGLRETEKKIFLDIACFYRG--EDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEIS  395 (445)
Q Consensus       329 ~~-----------~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~  395 (445)
                      ..           ...+..+|..||+.|++++|.||++||+||++  ++.+.+..+|..++......++.|+++|||+..
T Consensus       348 ~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~~~~  427 (1249)
T 3sfz_A          348 KQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCN  427 (1249)
T ss_dssp             CCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSCEEE
T ss_pred             hhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccceEEe
Confidence            33           15699999999999999999999999999987  678899999987777778899999999999987


Q ss_pred             cCCe---EEccHHHHHHHHHHHhhc
Q 045345          396 NGNR---LRMHNLLQEMGQQIVKRQ  417 (445)
Q Consensus       396 ~~~~---~~mHdlvr~~ar~~~~~e  417 (445)
                      .++.   |+||++||+|+++.+.++
T Consensus       428 ~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          428 RNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             ESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             cCCCceEEEecHHHHHHHHhhhhHH
Confidence            6664   999999999999986654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=2.3e-36  Score=314.08  Aligned_cols=321  Identities=17%  Similarity=0.202  Sum_probs=236.8

Q ss_pred             ccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc---cCccc-cceeeehhhhhhccCCHHH
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS---SHEFE-ASSFLANVREISEKGGLIC  185 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~---~~~f~-~~~~~~~~~~~~~~~~~~~  185 (445)
                      |..+..||||+.+++.|.+.|....++.++|+|+||||+||||||.+++++.   ..+|+ .++|+. +.... ...+..
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~-~~~~~-~~~~~~  197 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVS-VGKQD-KSGLLM  197 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEE-EESCC-HHHHHH
T ss_pred             CCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEE-CCCCc-hHHHHH
Confidence            3456789999999999999998655568999999999999999999999864   67786 567765 22111 111222


Q ss_pred             HHHHHHHHHhCCC---CCCCcChhhhHHHHHHHHcc--CcEEEEEcCCCCHHHHHHhcCCCCCcCcccccccCC------
Q 045345          186 LQKQLLSELLKLP---DTSTWNVYDGLKMIGSRLRY--RKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGV------  254 (445)
Q Consensus       186 l~~~il~~l~~~~---~~~~~~~~~~~~~l~~~l~~--~~~LlVlDdv~~~~~l~~l~~~~~~~~~~vl~t~~~------  254 (445)
                      ....++..+....   .....+.......+...+.+  +++||||||+|+..+++.+.+     +.++++|++.      
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l~~-----~~~ilvTsR~~~~~~~  272 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDS-----QCQILLTTRDKSVTDS  272 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTTCS-----SCEEEEEESCGGGGTT
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHhcC-----CCeEEEECCCcHHHHh
Confidence            2223333443211   12344566667778887776  789999999999988876621     3456666543      


Q ss_pred             --CceEEc---CCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCCCHHHHHHHHHHHhcC
Q 045345          255 --DEVHKL---KVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERE  329 (445)
Q Consensus       255 --~~~~~l---~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~l~~~  329 (445)
                        ...+++   ++|+.+||++||...++..   .....+.+.+|+++|+|+||||+++|++++... ..|...++.+...
T Consensus       273 ~~~~~~~v~~l~~L~~~ea~~L~~~~~~~~---~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~  348 (591)
T 1z6t_A          273 VMGPKYVVPVESSLGKEKGLEILSLFVNMK---KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNK  348 (591)
T ss_dssp             CCSCEEEEECCSSCCHHHHHHHHHHHHTSC---GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSC
T ss_pred             cCCCceEeecCCCCCHHHHHHHHHHHhCCC---cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHh
Confidence              234555   5899999999999988542   222345688999999999999999999998754 4688888887653


Q ss_pred             C-----------chhHHHHHHHhhcCCcHhHHHHHhhhhccCCC--CCHHHHHHHHHhCCCCchhcHHHHhhcCceEEcc
Q 045345          330 S-----------ENEILDILKISFDGLRETEKKIFLDIACFYRG--EDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISN  396 (445)
Q Consensus       330 ~-----------~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~  396 (445)
                      .           ...+..++..||+.|+++.|.||.++|+||.+  ++.+.+..+|..+.......++.|+++|||....
T Consensus       349 ~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~~~Ll~~~~  428 (591)
T 1z6t_A          349 QFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDR  428 (591)
T ss_dssp             CCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSEEEE
T ss_pred             HHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHhCcCeEEec
Confidence            2           25799999999999999999999999999876  6778888888765555677899999999998654


Q ss_pred             C---CeEEccHHHHHHHHHHHhh------------cC-------CCCCCCcccccccchHHHHhhhC
Q 045345          397 G---NRLRMHNLLQEMGQQIVKR------------QS-------PKEPGKRSRLWKEEDVHHVLTKN  441 (445)
Q Consensus       397 ~---~~~~mHdlvr~~ar~~~~~------------e~-------~~~~~~~~rlw~~~d~~~~l~~~  441 (445)
                      +   .+|+||++||+++++....            -.       +..++.+.++|+++.+.+++.-+
T Consensus       429 ~~~~~~~~~H~lv~~~~~~~~~~~~~~~h~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~~a~  495 (591)
T 1z6t_A          429 NGKSFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQFQRYHQPHTLSPDQEDCMYWYNFLAYHMASAK  495 (591)
T ss_dssp             ETTEEEEECCHHHHHHHHHHTGGGHHHHHHHHHHHHTTTCCGGGCCTTSTTHHHHHHHHHHHHHHTT
T ss_pred             CCCccEEEEcHHHHHHHHhhhhhHHHHHHHHHHHHHHhhcCCCCCCCCCCCEEeehhhHHHHHHhcC
Confidence            3   2699999999999887211            00       22334566778888888877654

>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=2.4e-36  Score=316.61  Aligned_cols=293  Identities=16%  Similarity=0.165  Sum_probs=217.3

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh--ccCcccc-ceeeehhhhhhccCCHHHHHHHHH
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL--SSHEFEA-SSFLANVREISEKGGLICLQKQLL  191 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~--~~~~f~~-~~~~~~~~~~~~~~~~~~l~~~il  191 (445)
                      ..|||+.++++|.++|... ++.++|+|+||||+||||||++++++  ++.+|+. ++|+.    ++...+...+...++
T Consensus       129 ~~VGRe~eLeeL~elL~~~-d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVs----Vs~~~d~~~IL~~Ll  203 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN----LKNCNSPETVLEMLQ  203 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHC-CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEE----CCCSSSHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhcc-CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEE----eCCCCCHHHHHHHHH
Confidence            3499999999999998753 34789999999999999999999974  6788997 67776    455555666666666


Q ss_pred             HHHhCCC---C--CC-----CcChhhhHHHHHHHH---ccCcEEEEEcCCCCHHHHHHhcCCCCCcCcccccccCCC---
Q 045345          192 SELLKLP---D--TS-----TWNVYDGLKMIGSRL---RYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGVD---  255 (445)
Q Consensus       192 ~~l~~~~---~--~~-----~~~~~~~~~~l~~~l---~~~~~LlVlDdv~~~~~l~~l~~~~~~~~~~vl~t~~~~---  255 (445)
                      ..+....   .  ..     ..+.+.....++..|   .++|+||||||||+.++++.+.   .  +.++++|++..   
T Consensus       204 ~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~---p--GSRILVTTRd~~Va  278 (1221)
T 1vt4_I          204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN---L--SCKILLTTRFKQVT  278 (1221)
T ss_dssp             HHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH---S--SCCEEEECSCSHHH
T ss_pred             HHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC---C--CeEEEEeccChHHH
Confidence            5432110   0  00     112334455666655   6799999999999999998874   1  45677777643   


Q ss_pred             ------ceEEcC------CCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCC--CHHHHHH
Q 045345          256 ------EVHKLK------VLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGK--TTKEWES  321 (445)
Q Consensus       256 ------~~~~l~------~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~--~~~~w~~  321 (445)
                            ..|.|+      +|+.+||++||++.. +.. .    .++..++   |+|+||||+++|++|+.+  +..+|..
T Consensus       279 ~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~-~----eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~  349 (1221)
T 1vt4_I          279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR-P----QDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKH  349 (1221)
T ss_dssp             HHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC-T----TTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHH
T ss_pred             HhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC-H----HHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhc
Confidence                  246777      999999999999884 322 1    1223333   999999999999999886  6778875


Q ss_pred             HHHHHhcCCchhHHHHHHHhhcCCcHhH-HHHHhhhhccCCC--CCHHHHHHHHHhCCC-CchhcHHHHhhcCceEEcc-
Q 045345          322 APKRLERESENEILDILKISFDGLRETE-KKIFLDIACFYRG--EDRDYVTKIIDYCDF-DPVIGIRVLIDKSLIEISN-  396 (445)
Q Consensus       322 ~l~~l~~~~~~~i~~~l~~s~~~L~~~~-k~~~~~la~f~~~--~~~~~l~~~~~~~~~-~~~~~l~~L~~~sLi~~~~-  396 (445)
                      .       ....+..+|..||+.|++++ |.||++||+||.+  ++.+.+..+|..++. .+...++.|+++|||+..+ 
T Consensus       350 ~-------~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~d~~  422 (1221)
T 1vt4_I          350 V-------NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK  422 (1221)
T ss_dssp             C-------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSBCSS
T ss_pred             C-------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEEeCC
Confidence            3       35789999999999999999 9999999999986  566788999987643 3667899999999999763 


Q ss_pred             CCeEEccHHHHHHHHHHHhhcCCCCCCCcccccccchHHHHh
Q 045345          397 GNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVL  438 (445)
Q Consensus       397 ~~~~~mHdlvr~~ar~~~~~e~~~~~~~~~rlw~~~d~~~~l  438 (445)
                      .++|+||||+++++     ......+..+.|+.++-++.+++
T Consensus       423 ~~rYrMHDLllELr-----~~~~e~~alHrRLvd~Y~~~~vf  459 (1221)
T 1vt4_I          423 ESTISIPSIYLELK-----VKLENEYALHRSIVDHYNIPKTF  459 (1221)
T ss_dssp             SSEEBCCCHHHHHH-----HHHSCCTTHHHHHHHHHHHHHHC
T ss_pred             CCEEEehHHHHHHh-----cCCCcHHHHHHHHHHHHHhhCcC
Confidence            57899999998743     11123455666666665555444

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana}

Probab=100.00  E-value=1.6e-33  Score=239.87  Aligned_cols=103  Identities=41%  Similarity=0.653  Sum_probs=94.4

Q ss_pred             CCCCChhhHHHHHHHHhchhcCCCccEEEeeeccCCCcccccccchHHHHHHHhHHhhhhcHHHHHHHHHHHHHHHhhcC
Q 045345            1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVSG   80 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~~~~~~~~~v~Pvfy~v~ps~vr~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~~~g   80 (445)
                      |||+|+|||+||++|++|+++++  ++||||||+|+||+||+|+|+||++|.+|+++  .+.+++++||.||+++||++|
T Consensus        73 ny~~S~WCl~EL~~i~~~~~~~~--~~ViPIfy~V~ps~Vr~q~g~fg~af~~~~~~--~~~~~~~~Wr~AL~~va~~~G  148 (176)
T 3jrn_A           73 NYAASSWCLDELVTIMDFEKKGS--ITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR--EDPEKVLKWRQALTNFAQLSG  148 (176)
T ss_dssp             TTTTCHHHHHHHHHHHHHHHTTS--CEEEEEECSSCHHHHHHTCTHHHHHHHHHHTT--SCHHHHHHHHHHHHHHTTSCC
T ss_pred             CcCCChhHHHHHHHHHhhhccCC--CEEEEEEecCCHHHhhhccCcHHHHHHHHHhc--cCHHHHHHHHHHHHHHhcccc
Confidence            79999999999999999999999  99999999999999999999999999999987  467899999999999999999


Q ss_pred             CccCCchhhhhHhhhhhcccCCCCCCCCCc
Q 045345           81 WELKDRSESEFIVDIVKDILEMPSKIPAKS  110 (445)
Q Consensus        81 ~~~~~~~e~~~i~~iv~~v~~~p~~~~~~~  110 (445)
                      |++. .+|+++|++||++|+++  +.++|+
T Consensus       149 ~~~~-~~e~~~i~~Iv~~v~~~--l~~~~~  175 (176)
T 3jrn_A          149 DCSG-DDDSKLVDKIANEISNK--KTIYAT  175 (176)
T ss_dssp             EECC-SCHHHHHHHHHHHHHTT--CC----
T ss_pred             eecC-CCHHHHHHHHHHHHHHH--hcCCCC
Confidence            9994 67999999999999999  877664

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum}

Probab=99.97  E-value=8.7e-32  Score=232.59  Aligned_cols=98  Identities=40%  Similarity=0.763  Sum_probs=90.9

Q ss_pred             CCCCChhhHHHHHHHHhchhc-CCCccEEEeeeccCCCcccccccchHHHHHHHhHHhhhhcHHHHHHHHHHHHHHHhhc
Q 045345            1 NYAYSTWCLDELVEIVELKST-NGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDALKKVANVS   79 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~~~-~~~~~~v~Pvfy~v~ps~vr~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~~~   79 (445)
                      |||+|+|||+||++||+|+++ ++  ++||||||+|+||+||+|+|+||++|.+|++++.  .+++++||.||+++|+++
T Consensus       100 nYa~S~WCl~EL~~I~e~~~~~~~--~~ViPIFY~VdPs~Vr~q~g~fg~af~~~~~~~~--~~~v~~Wr~AL~~va~ls  175 (204)
T 3ozi_A          100 GYADSKWCLMELAEIVRRQEEDPR--RIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFD--GQTIQNWKDALKKVGDLK  175 (204)
T ss_dssp             TGGGCHHHHHHHHHHHHHHHHCTT--SEECCEEESSCHHHHHHTCTTHHHHHHHHTTTSC--HHHHHHHHHHHHHHHTSC
T ss_pred             ccccCcHHHHHHHHHHHHHHhcCC--eeeEEEEeecCHHHHHhccccHHHHHHHHHHhhC--HHHHHHHHHHHHHHhccC
Confidence            799999999999999999975 57  8999999999999999999999999999998874  478999999999999999


Q ss_pred             CCccCCch-hhhhHhhhhhcccCC
Q 045345           80 GWELKDRS-ESEFIVDIVKDILEM  102 (445)
Q Consensus        80 g~~~~~~~-e~~~i~~iv~~v~~~  102 (445)
                      ||++.... |+++|++||.+|.++
T Consensus       176 G~~~~~~~~e~~~i~~Iv~di~~k  199 (204)
T 3ozi_A          176 GWHIGKNDKQGAIADKVSADIWSH  199 (204)
T ss_dssp             BEEECTTSCHHHHHHHHHHHHHHH
T ss_pred             ceecCCCCCHHHHHHHHHHHHHHH
Confidence            99997754 789999999999877

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.81  E-value=7.7e-19  Score=169.75  Aligned_cols=285  Identities=13%  Similarity=0.066  Sum_probs=171.2

Q ss_pred             CCCCCccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhh---ccC
Q 045345          105 KIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREIS---EKG  181 (445)
Q Consensus       105 ~~~~~~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~---~~~  181 (445)
                      +.+.++..+..|+||+.+++.|.+.+..+    +++.|+|++|+|||+|++++++...     .+|+... ...   ...
T Consensus         3 F~~~~~~~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~~-----~~~~~~~-~~~~~~~~~   72 (350)
T 2qen_A            3 FDLRPKTRREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNERP-----GILIDCR-ELYAERGHI   72 (350)
T ss_dssp             SCCSCCCSGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHSS-----EEEEEHH-HHHHTTTCB
T ss_pred             CCCCCCCChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHcC-----cEEEEee-cccccccCC
Confidence            66677777889999999999999988742    6899999999999999999998752     5555422 111   112


Q ss_pred             CHHHHHHHHHHHHhC----------------CC-CCCCcChhhhHHHHHHHHcc-CcEEEEEcCCCCHHH---------H
Q 045345          182 GLICLQKQLLSELLK----------------LP-DTSTWNVYDGLKMIGSRLRY-RKVLLIVDAAFDLKQ---------L  234 (445)
Q Consensus       182 ~~~~l~~~il~~l~~----------------~~-~~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~~~~~---------l  234 (445)
                      +...+...+...+..                .. .....+.......+...... ++++|||||++....         +
T Consensus        73 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~  152 (350)
T 2qen_A           73 TREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELL  152 (350)
T ss_dssp             CHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHH
Confidence            334444444443321                00 00112344445555555443 499999999976321         2


Q ss_pred             H---HhcCCCCCc-------Cccccc------c------cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHH
Q 045345          235 E---SLAGKHEWF-------DEHLLM------T------HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKY  292 (445)
Q Consensus       235 ~---~l~~~~~~~-------~~~vl~------t------~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~  292 (445)
                      .   .+.......       ....+.      .      .+....+++.+|+.+|+.+++...........  ..+.+..
T Consensus       153 ~~L~~~~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~--~~~~~~~  230 (350)
T 2qen_A          153 ALFAYAYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDV--PENEIEE  230 (350)
T ss_dssp             HHHHHHHHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCC--CHHHHHH
T ss_pred             HHHHHHHHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHH
Confidence            2   221111111       111000      0      01124789999999999999987542211111  1346788


Q ss_pred             HHHHhCCChHHHHHHHHhhCC-CCHHHHHHHHHHHhcCCchhHHHHHHHhhcCC---cHhHHHHHhhhhccCCCCCHHHH
Q 045345          293 VVKYSGGLPLALKVLGSFLYG-KTTKEWESAPKRLERESENEILDILKISFDGL---RETEKKIFLDIACFYRGEDRDYV  368 (445)
Q Consensus       293 i~~~~~GlPLal~~~~~~L~~-~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L---~~~~k~~~~~la~f~~~~~~~~l  368 (445)
                      +++.+||+|+++..++..+.. .+...+   ...+..    .+...+...+..+   ++..+.++..+|+  ...+...+
T Consensus       231 i~~~tgG~P~~l~~~~~~~~~~~~~~~~---~~~~~~----~~~~~~~~~l~~l~~~~~~~~~~l~~la~--g~~~~~~l  301 (350)
T 2qen_A          231 AVELLDGIPGWLVVFGVEYLRNGDFGRA---MKRTLE----VAKGLIMGELEELRRRSPRYVDILRAIAL--GYNRWSLI  301 (350)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCHHHH---HHHHHH----HHHHHHHHHHHHHHHHCHHHHHHHHHHHT--TCCSHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHhccccHhHH---HHHHHH----HHHHHHHHHHHHHHhCChhHHHHHHHHHh--CCCCHHHH
Confidence            999999999999999876432 222222   111111    1111222222333   6888999999998  34566777


Q ss_pred             HHHHHhC--CCC---chhcHHHHhhcCceEEccCCeEE-ccHHHHHHHH
Q 045345          369 TKIIDYC--DFD---PVIGIRVLIDKSLIEISNGNRLR-MHNLLQEMGQ  411 (445)
Q Consensus       369 ~~~~~~~--~~~---~~~~l~~L~~~sLi~~~~~~~~~-mHdlvr~~ar  411 (445)
                      ...+...  +..   ...+++.|.+.+||... ++.|. .|++++.+.+
T Consensus       302 ~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          302 RDYLAVKGTKIPEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHHHHTTCCCCHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHHHT
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHHHc
Confidence            6665321  222   34579999999999876 46665 5889888754

>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=99.79  E-value=7.7e-18  Score=163.10  Aligned_cols=284  Identities=14%  Similarity=0.109  Sum_probs=162.9

Q ss_pred             CCCCCccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhh--ccCC
Q 045345          105 KIPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREIS--EKGG  182 (445)
Q Consensus       105 ~~~~~~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~--~~~~  182 (445)
                      +.+.++..+..|+||+.+++.|.+ +..     +++.|+|++|+|||+|++++++.....   .+|+... ...  ...+
T Consensus         4 f~~~~~~~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~~~~---~~~~~~~-~~~~~~~~~   73 (357)
T 2fna_A            4 FDTSPKDNRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINELNLP---YIYLDLR-KFEERNYIS   73 (357)
T ss_dssp             TCSSCCCSGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHHTCC---EEEEEGG-GGTTCSCCC
T ss_pred             CCCCCCCCHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhcCCC---EEEEEch-hhccccCCC
Confidence            445556677889999999999999 763     599999999999999999999876432   4555421 110  0112


Q ss_pred             HHHHHHHHHHHHh-------------CCC------CC---------CCcChhhhHHHHHHHHccCcEEEEEcCCCCHH--
Q 045345          183 LICLQKQLLSELL-------------KLP------DT---------STWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK--  232 (445)
Q Consensus       183 ~~~l~~~il~~l~-------------~~~------~~---------~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--  232 (445)
                      .......+...+.             ..-      ..         ...........+.+... ++++|||||++...  
T Consensus        74 ~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~  152 (357)
T 2fna_A           74 YKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKL  152 (357)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGC
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhcc
Confidence            2223322222211             000      00         01122233333332211 49999999997532  


Q ss_pred             -------HHHHhcCCCCCc-------Cccccc------------ccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHH
Q 045345          233 -------QLESLAGKHEWF-------DEHLLM------------THGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEY  286 (445)
Q Consensus       233 -------~l~~l~~~~~~~-------~~~vl~------------t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~  286 (445)
                             .+..+.......       ....+.            ..+....+++.+|+.+|+.+++............. 
T Consensus       153 ~~~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~-  231 (357)
T 2fna_A          153 RGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD-  231 (357)
T ss_dssp             TTCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC-
T ss_pred             CchhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc-
Confidence                   132222111111       111100            00112578999999999999998754211111111 


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHhhCC-CCHHHHHHHHHHHhcCCchhHHHHHHHhh---cCCcHhHHHHHhhhhccCCC
Q 045345          287 EQLSKYVVKYSGGLPLALKVLGSFLYG-KTTKEWESAPKRLERESENEILDILKISF---DGLRETEKKIFLDIACFYRG  362 (445)
Q Consensus       287 ~~~~~~i~~~~~GlPLal~~~~~~L~~-~~~~~w~~~l~~l~~~~~~~i~~~l~~s~---~~L~~~~k~~~~~la~f~~~  362 (445)
                         ...|++.++|+|+++..++..+.. .+...|..   .+.......+..-+...+   ..|++..+.++..+|+ . .
T Consensus       232 ---~~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~l~~la~-g-~  303 (357)
T 2fna_A          232 ---YEVVYEKIGGIPGWLTYFGFIYLDNKNLDFAIN---QTLEYAKKLILKEFENFLHGREIARKRYLNIMRTLSK-C-G  303 (357)
T ss_dssp             ---HHHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHH---HHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHTT-C-B
T ss_pred             ---HHHHHHHhCCCHHHHHHHHHHHccccchHHHHH---HHHHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHc-C-C
Confidence               178999999999999999877643 23333321   111111111222222111   1688999999999998 3 3


Q ss_pred             CCHHHHHHHHH-hCC--C---CchhcHHHHhhcCceEEccCCeEE-ccHHHHHHH
Q 045345          363 EDRDYVTKIID-YCD--F---DPVIGIRVLIDKSLIEISNGNRLR-MHNLLQEMG  410 (445)
Q Consensus       363 ~~~~~l~~~~~-~~~--~---~~~~~l~~L~~~sLi~~~~~~~~~-mHdlvr~~a  410 (445)
                       +...+...+. ..|  .   .....++.|.+.+||...+ +.|+ .|++++++.
T Consensus       304 -~~~~l~~~~~~~~g~~~~~~~~~~~L~~L~~~gli~~~~-~~y~f~~~~~~~~l  356 (357)
T 2fna_A          304 -KWSDVKRALELEEGIEISDSEIYNYLTQLTKHSWIIKEG-EKYCPSEPLISLAF  356 (357)
T ss_dssp             -CHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHTTSEEESS-SCEEESSHHHHHHT
T ss_pred             -CHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEecC-CEEEecCHHHHHhh
Confidence             6666664432 122  2   2356799999999999874 5565 689999874

>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=99.71  E-value=6.6e-16  Score=152.70  Aligned_cols=271  Identities=15%  Similarity=0.074  Sum_probs=163.1

Q ss_pred             ccccccccchhHHHHHhhh-cc--CC--CCeEEEEE--EccCCCchhHHHHHHHhhccCcc-----c-cceeeehhhhhh
Q 045345          112 IFKDLVGMDSCWNTLRFLM-DK--EP--YGVRMIGI--CGMGGIGKTTLARVVYDLSSHEF-----E-ASSFLANVREIS  178 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L-~~--~~--~~~~vv~I--~G~gGiGKTtLA~~~~~~~~~~f-----~-~~~~~~~~~~~~  178 (445)
                      .+..|+||+.+++.|...+ ..  ..  ...+.+.|  +|++|+|||+||+.+++.....+     . ..+|+.    ..
T Consensus        20 ~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~----~~   95 (412)
T 1w5s_A           20 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN----AF   95 (412)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE----GG
T ss_pred             CCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEE----CC
Confidence            4578999999999999988 42  11  23456667  99999999999999998765421     2 235554    23


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHc--cCcEEEEEcCCCCH--------HHHHHhcCC---CC--C
Q 045345          179 EKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLR--YRKVLLIVDAAFDL--------KQLESLAGK---HE--W  243 (445)
Q Consensus       179 ~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~--------~~l~~l~~~---~~--~  243 (445)
                      ...+...+...++..++........+.......+...+.  +++++|||||++..        +.+..+...   ..  .
T Consensus        96 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~  175 (412)
T 1w5s_A           96 NAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRD  175 (412)
T ss_dssp             GCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTT
T ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCC
Confidence            345677788888888764322222334455556666664  67999999999764        333322211   00  0


Q ss_pred             --cCccccccc------------------CCCceEEcCCCCHHHHHHHHHHhh---cCCCCCchHHHHHHHHHHHHhC--
Q 045345          244 --FDEHLLMTH------------------GVDEVHKLKVLHDDEALQLFCKQA---FKTNQPWKEYEQLSKYVVKYSG--  298 (445)
Q Consensus       244 --~~~~vl~t~------------------~~~~~~~l~~L~~~ea~~Lf~~~a---~~~~~~~~~~~~~~~~i~~~~~--  298 (445)
                        ....++.++                  +....+.+++|+.+++.++|...+   +.....   ..+.+..+++.++  
T Consensus       176 ~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~---~~~~~~~i~~~~~~~  252 (412)
T 1w5s_A          176 GVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVW---EPRHLELISDVYGED  252 (412)
T ss_dssp             SCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSC---CHHHHHHHHHHHCGG
T ss_pred             CCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCC---ChHHHHHHHHHHHHh
Confidence              111122121                  112238999999999999997654   222112   2356788999999  


Q ss_pred             ----CChHHHHHHHHhhC------C---CCHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccC----C
Q 045345          299 ----GLPLALKVLGSFLY------G---KTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFY----R  361 (445)
Q Consensus       299 ----GlPLal~~~~~~L~------~---~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~----~  361 (445)
                          |+|..+..+.....      +   -+...+...+.....      ...+..++..||+..+.++..+|.++    .
T Consensus       253 ~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~  326 (412)
T 1w5s_A          253 KGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------ASIQTHELEALSIHELIILRLIAEATLGGME  326 (412)
T ss_dssp             GTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------CCSSSSSCHHHHHHHHHHHHHHHTTCS
T ss_pred             ccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------cchHHHHHHcCCHHHHHHHHHHHHHHhcCCC
Confidence                99976655543211      1   122333333322110      23456677899999999999999754    2


Q ss_pred             CCCHHHHHH----HH-HhCCCC------chhcHHHHhhcCceEEc
Q 045345          362 GEDRDYVTK----II-DYCDFD------PVIGIRVLIDKSLIEIS  395 (445)
Q Consensus       362 ~~~~~~l~~----~~-~~~~~~------~~~~l~~L~~~sLi~~~  395 (445)
                      .++...+..    +. ...+..      ....++.|.+.+||...
T Consensus       327 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~  371 (412)
T 1w5s_A          327 WINAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAK  371 (412)
T ss_dssp             SBCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             CccHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEee
Confidence            345543322    22 222322      24568999999999864

>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=99.65  E-value=2e-14  Score=140.71  Aligned_cols=268  Identities=14%  Similarity=0.067  Sum_probs=166.9

Q ss_pred             ccccccccchhHHHHHhhhcc--CCCCeEEEEEEccCCCchhHHHHHHHhhccCc--------cccceeeehhhhhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK--EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE--------FEASSFLANVREISEKG  181 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~--------f~~~~~~~~~~~~~~~~  181 (445)
                      .+..|+||+.+++.+..++..  .....+.+.|+|++|+|||+||+.+++.+...        ....+++.    .....
T Consensus        18 ~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~----~~~~~   93 (384)
T 2qby_B           18 VFKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVN----CREVG   93 (384)
T ss_dssp             HCSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEE----HHHHC
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEE----CccCC
Confidence            347899999999999987764  23345689999999999999999999876333        12234444    22233


Q ss_pred             -CHHHHHHHHHHHHhCCCCC-CCcChhhhHHHHHHHHccCcEEEEEcCCCCHH------H-HHHhcCCCCCcCccccccc
Q 045345          182 -GLICLQKQLLSELLKLPDT-STWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK------Q-LESLAGKHEWFDEHLLMTH  252 (445)
Q Consensus       182 -~~~~l~~~il~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~------~-l~~l~~~~~~~~~~vl~t~  252 (445)
                       +...+...++..+.+.... ...+.......+...+..++.+|||||++...      . +..+.....  +..++.++
T Consensus        94 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~--~~~iI~~t  171 (384)
T 2qby_B           94 GTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDA--NISVIMIS  171 (384)
T ss_dssp             SCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSS--CEEEEEEC
T ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCc--ceEEEEEE
Confidence             6667777888877543222 22233455667777777766699999997543      2 444443221  11121111


Q ss_pred             ---------------CCCceEEcCCCCHHHHHHHHHHhhc---CCCCCchHHHHHHHHHHHHhC---CChH-HHHHHHHh
Q 045345          253 ---------------GVDEVHKLKVLHDDEALQLFCKQAF---KTNQPWKEYEQLSKYVVKYSG---GLPL-ALKVLGSF  310 (445)
Q Consensus       253 ---------------~~~~~~~l~~L~~~ea~~Lf~~~a~---~~~~~~~~~~~~~~~i~~~~~---GlPL-al~~~~~~  310 (445)
                                     +....+.+++++.++..++|...+.   .....+   .+....+++.++   |.|. ++..+-..
T Consensus       172 ~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~G~~r~a~~~l~~a  248 (384)
T 2qby_B          172 NDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYD---DEILSYIAAISAKEHGDARKAVNLLFRA  248 (384)
T ss_dssp             SSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCC---SHHHHHHHHHHHTTCCCHHHHHHHHHHH
T ss_pred             CCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcC---HHHHHHHHHHHHhccCCHHHHHHHHHHH
Confidence                           2234799999999999999998752   222222   245667888887   9887 44333322


Q ss_pred             --hC----CCCHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccCC-CCCHHHHHHHHHhCCCC-----
Q 045345          311 --LY----GKTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYR-GEDRDYVTKIIDYCDFD-----  378 (445)
Q Consensus       311 --L~----~~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~-~~~~~~l~~~~~~~~~~-----  378 (445)
                        +.    .-+.+.+..++....       ...+..+++.|++.++.++..++.... +........+....|..     
T Consensus       249 ~~~a~~~~~i~~~~v~~~~~~~~-------~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~  321 (384)
T 2qby_B          249 AQLASGGGIIRKEHVDKAIVDYE-------QERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYR  321 (384)
T ss_dssp             HHHTTSSSCCCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHTCCBHHHHHHHHHHHHHHTTCCCCCHH
T ss_pred             HHHhcCCCccCHHHHHHHHHHHh-------cchHHHHHHcCCHHHHHHHHHHHHhcccChHHHHHHHHHHHcCCCCCCHH
Confidence              21    134566666665542       234667788999999998888887212 11112333333333322     


Q ss_pred             -chhcHHHHhhcCceEEc
Q 045345          379 -PVIGIRVLIDKSLIEIS  395 (445)
Q Consensus       379 -~~~~l~~L~~~sLi~~~  395 (445)
                       ....+..|.+.|||+..
T Consensus       322 ~~~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          322 RFSDIISELDMFGIVKIR  339 (384)
T ss_dssp             HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHhCCCEEEE
Confidence             23468899999999864

>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=99.63  E-value=7.3e-15  Score=143.62  Aligned_cols=300  Identities=13%  Similarity=0.057  Sum_probs=172.1

Q ss_pred             ccccccccchhHHHHHhhhccC--CCCeEEEEEEccCCCchhHHHHHHHhhccCccc---cceeeehhhhhhccCCHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKE--PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFE---ASSFLANVREISEKGGLICL  186 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~---~~~~~~~~~~~~~~~~~~~l  186 (445)
                      .+..|+||+.+++.|..++...  ....+.+.|+|++|+||||||+.+++.....+.   ..+|+.    .........+
T Consensus        18 ~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~----~~~~~~~~~~   93 (386)
T 2qby_A           18 IPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN----TRQIDTPYRV   93 (386)
T ss_dssp             CCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEE----HHHHCSHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEE----CCCCCCHHHH
Confidence            4578999999999999988742  334568899999999999999999987654431   334554    2223345555


Q ss_pred             HHHHHHHHhCCCCCCCcChhhhHHHHHHHHc--cCcEEEEEcCCCCHH------HHHHhcCCC---CCcCcc-ccccc--
Q 045345          187 QKQLLSELLKLPDTSTWNVYDGLKMIGSRLR--YRKVLLIVDAAFDLK------QLESLAGKH---EWFDEH-LLMTH--  252 (445)
Q Consensus       187 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~------~l~~l~~~~---~~~~~~-vl~t~--  252 (445)
                      ...++..++........+.......+...+.  +++.+||||+++...      .+..+....   ...+.. +++++  
T Consensus        94 ~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~  173 (386)
T 2qby_A           94 LADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDV  173 (386)
T ss_dssp             HHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCG
T ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCC
Confidence            5666555533222122234444555555554  348999999996532      233332110   100111 11111  


Q ss_pred             ------------CCC-ceEEcCCCCHHHHHHHHHHhhc---CCCCCchHHHHHHHHHHHHhC---CChHHHHHHHHhhC-
Q 045345          253 ------------GVD-EVHKLKVLHDDEALQLFCKQAF---KTNQPWKEYEQLSKYVVKYSG---GLPLALKVLGSFLY-  312 (445)
Q Consensus       253 ------------~~~-~~~~l~~L~~~ea~~Lf~~~a~---~~~~~~~~~~~~~~~i~~~~~---GlPLal~~~~~~L~-  312 (445)
                                  +.. ..+.+++++.++..+++...+.   ......   .+....+++.++   |.|..+..+..... 
T Consensus       174 ~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~  250 (386)
T 2qby_A          174 KFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLP---DNVIKLCAALAAREHGDARRALDLLRVSGE  250 (386)
T ss_dssp             GGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSC---HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             ChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence                        111 4789999999999999987642   112222   345666777777   99984443332211 


Q ss_pred             -----C---CCHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccCC-C---CCHHHH----HHHHHhCC
Q 045345          313 -----G---KTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYR-G---EDRDYV----TKIIDYCD  376 (445)
Q Consensus       313 -----~---~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~-~---~~~~~l----~~~~~~~~  376 (445)
                           +   -+.+.+..++....       ...+..++..|++..+.++..++.+.. +   ++...+    ..+....|
T Consensus       251 ~a~~~~~~~i~~~~v~~a~~~~~-------~~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g  323 (386)
T 2qby_A          251 IAERMKDTKVKEEYVYMAKEEIE-------RDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLG  323 (386)
T ss_dssp             HHHHTTCSSCCHHHHHHHHHHHH-------HHHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHT
T ss_pred             HHHhcCCCccCHHHHHHHHHHHh-------hchHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcC
Confidence                 1   23445555444432       235667788899999999888885432 2   233322    22222222


Q ss_pred             CC------chhcHHHHhhcCceEEccCCeEEccHHHHHHHHHHHhhcCCCCCCCcccccccchHHHHhhh-Cc
Q 045345          377 FD------PVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTK-NT  442 (445)
Q Consensus       377 ~~------~~~~l~~L~~~sLi~~~~~~~~~mHdlvr~~ar~~~~~e~~~~~~~~~rlw~~~d~~~~l~~-~~  442 (445)
                      ..      ...+++.|.+.|+|+....+                 ..........+-.|+++|+..+|.+ +.
T Consensus       324 ~~~~~~~~~~~~l~~L~~~gli~~~~~~-----------------~~~~g~y~~~~l~~~~~~v~~~l~~~~~  379 (386)
T 2qby_A          324 VEAVTQRRVSDIINELDMVGILTAKVVN-----------------RGRYGKTKEIGLAVDKNIIVRSLIESDS  379 (386)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTSEEEEECC-----------------CTTSCCCEEEEESSCSHHHHHHHHHHC-
T ss_pred             CCCCCHHHHHHHHHHHHhCCCEEEEeec-----------------CCCCCCeEEEEeCCCHHHHHHHHhcCCh
Confidence            22      24568899999999864210                 0000011123346788888888876 43

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.60  E-value=9.9e-14  Score=135.64  Aligned_cols=295  Identities=12%  Similarity=0.027  Sum_probs=177.7

Q ss_pred             ccccccccchhHHHHHhhhccC--CCCeEEEEEEccCCCchhHHHHHHHhhccCcc------ccceeeehhhhhhccCCH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKE--PYGVRMIGICGMGGIGKTTLARVVYDLSSHEF------EASSFLANVREISEKGGL  183 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~  183 (445)
                      .+..|+||+.+++.+..++...  ....+.+.|+|++|+|||+||+.+++.....+      ...+++.    .....+.
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~----~~~~~~~   92 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVN----ARHRETP   92 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEE----TTTSCSH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEE----CCcCCCH
Confidence            3478999999999999988542  33456889999999999999999998764321      1234444    3344566


Q ss_pred             HHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHc--cCcEEEEEcCCCCHH-------HHHHhcCCCC----CcCcccc-
Q 045345          184 ICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLR--YRKVLLIVDAAFDLK-------QLESLAGKHE----WFDEHLL-  249 (445)
Q Consensus       184 ~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~-------~l~~l~~~~~----~~~~~vl-  249 (445)
                      ..+...++..++........+.......+...+.  +++.+||||+++...       .+..+.....    ..+..++ 
T Consensus        93 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~  172 (387)
T 2v1u_A           93 YRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVG  172 (387)
T ss_dssp             HHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEE
Confidence            6777888888764333233334555566666663  468999999998543       1222221110    0011111 


Q ss_pred             ccc--------------CCC-ceEEcCCCCHHHHHHHHHHhhc---CCCCCchHHHHHHHHHHHHhC---CChHHH-HHH
Q 045345          250 MTH--------------GVD-EVHKLKVLHDDEALQLFCKQAF---KTNQPWKEYEQLSKYVVKYSG---GLPLAL-KVL  307 (445)
Q Consensus       250 ~t~--------------~~~-~~~~l~~L~~~ea~~Lf~~~a~---~~~~~~~~~~~~~~~i~~~~~---GlPLal-~~~  307 (445)
                      +++              +.. ..+.+++++.++..+++...+.   .....+   .+....+++.++   |.|..+ ..+
T Consensus       173 ~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~~~~l  249 (387)
T 2v1u_A          173 ITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLD---PDVVPLCAALAAREHGDARRALDLL  249 (387)
T ss_dssp             ECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBC---SSHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             EECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhccCHHHHHHHH
Confidence            111              122 3689999999999999987752   222212   244677888888   999433 332


Q ss_pred             HHhh--C---C---CCHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccCCC---CCHHHHH----HHH
Q 045345          308 GSFL--Y---G---KTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYRG---EDRDYVT----KII  372 (445)
Q Consensus       308 ~~~L--~---~---~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~~---~~~~~l~----~~~  372 (445)
                      ....  .   +   -+.+.+..++....       ...+..++..|++.++.++..++.+..+   +....+.    .+.
T Consensus       250 ~~a~~~a~~~~~~~i~~~~v~~a~~~~~-------~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~  322 (387)
T 2v1u_A          250 RVAGEIAERRREERVRREHVYSARAEIE-------RDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELT  322 (387)
T ss_dssp             HHHHHHHHHTTCSCBCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcCHHHHHHHHHHHh-------hchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHH
Confidence            2221  1   1   24555655555442       2346667889999999988888854333   2333222    222


Q ss_pred             HhCCCC------chhcHHHHhhcCceEEcc-----CCeEEccHHHHHHHHHHHhhcCCCCCCCcccccccchHHHHhhhC
Q 045345          373 DYCDFD------PVIGIRVLIDKSLIEISN-----GNRLRMHNLLQEMGQQIVKRQSPKEPGKRSRLWKEEDVHHVLTKN  441 (445)
Q Consensus       373 ~~~~~~------~~~~l~~L~~~sLi~~~~-----~~~~~mHdlvr~~ar~~~~~e~~~~~~~~~rlw~~~d~~~~l~~~  441 (445)
                      ...+..      ....++.|...|+++...     .|++                      ...+-.|++++|..+|.++
T Consensus       323 ~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~g~~g~~----------------------~~~~l~~~~~~i~~~l~~~  380 (387)
T 2v1u_A          323 STLGLEHVTLRRVSGIISELDMLGIVKSRVVSRGRYGKT----------------------REVSLDADRLAVENALSED  380 (387)
T ss_dssp             HHTTCCCCCHHHHHHHHHHHHHTTSEEEEEEECGGGCEE----------------------EEEEECSCHHHHHHHHHHS
T ss_pred             HhcCCCCCCHHHHHHHHHHHHhCCCeEEEeecCCCCCce----------------------eEEEecCCHHHHHHHHhcc
Confidence            222322      234688899999998642     1222                      2344567777787777766


Q ss_pred             c
Q 045345          442 T  442 (445)
Q Consensus       442 ~  442 (445)
                      .
T Consensus       381 ~  381 (387)
T 2v1u_A          381 P  381 (387)
T ss_dssp             T
T ss_pred             H
Confidence            4

>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=99.55  E-value=5.1e-13  Score=130.78  Aligned_cols=294  Identities=15%  Similarity=0.101  Sum_probs=171.9

Q ss_pred             cccccccchhHHHHHhhhcc----CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc-ccceeeehhhhhhccCCHHHHH
Q 045345          113 FKDLVGMDSCWNTLRFLMDK----EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF-EASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ++.++||+.+++.+..++..    .....+.+.|+|++|+||||||+.++....... ...+++.    .........+.
T Consensus        16 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~----~~~~~~~~~~~   91 (389)
T 1fnn_A           16 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN----GFIYRNFTAII   91 (389)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE----TTTCCSHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEe----CccCCCHHHHH
Confidence            47899999999999988874    222234899999999999999999998865542 2344444    33344566777


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHHHc--cCcEEEEEcCCCCH--HHHHHhcCCCCC------cCcccccc-cCC--
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSRLR--YRKVLLIVDAAFDL--KQLESLAGKHEW------FDEHLLMT-HGV--  254 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~--~~l~~l~~~~~~------~~~~vl~t-~~~--  254 (445)
                      ..++..++........+.......+...+.  +++.+||||+++..  ..+..+......      .+..++.+ +..  
T Consensus        92 ~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~  171 (389)
T 1fnn_A           92 GEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAV  171 (389)
T ss_dssp             HHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHH
T ss_pred             HHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchH
Confidence            777777654322222344455555555554  56899999999753  333333211110      01122221 111  


Q ss_pred             -------------CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHh---------CCChHHHHHHHHhhC
Q 045345          255 -------------DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYS---------GGLPLALKVLGSFLY  312 (445)
Q Consensus       255 -------------~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~---------~GlPLal~~~~~~L~  312 (445)
                                   ...+.+++++.++..+++...+........-..+....+++.+         +|.|..+..+.....
T Consensus       172 ~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a~  251 (389)
T 1fnn_A          172 LNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSA  251 (389)
T ss_dssp             HHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHHH
T ss_pred             HHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHHH
Confidence                         1268999999999999998775321001112235678899999         798865544433221


Q ss_pred             ------C---CCHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccC---C--CCCHHHHHHHHHh----
Q 045345          313 ------G---KTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFY---R--GEDRDYVTKIIDY----  374 (445)
Q Consensus       313 ------~---~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~---~--~~~~~~l~~~~~~----  374 (445)
                            +   -+.+............       .+...+..|+...+.++..++.+.   .  .++...+...+..    
T Consensus       252 ~~a~~~~~~~i~~~~v~~~~~~~~~~-------~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~  324 (389)
T 1fnn_A          252 YAAQQNGRKHIAPEDVRKSSKEVLFG-------ISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVCEE  324 (389)
T ss_dssp             HHHHHTTCSSCCHHHHHHHHHHHSCC-------CCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCcCHHHHHHHHHHHhhh-------hHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHHHH
Confidence                  1   1233333333332211       122335678888888888887654   2  3444444443322    


Q ss_pred             CCCC------chhcHHHHhhcCceEEccC-------CeE-------EccHHHHHHHHHHHhhc
Q 045345          375 CDFD------PVIGIRVLIDKSLIEISNG-------NRL-------RMHNLLQEMGQQIVKRQ  417 (445)
Q Consensus       375 ~~~~------~~~~l~~L~~~sLi~~~~~-------~~~-------~mHdlvr~~ar~~~~~e  417 (445)
                      .+..      ....+..|...+||.....       |++       ..|++++.+...++.+|
T Consensus       325 ~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~~~~l~~~~~~v~~~~~~~~~~~~  387 (389)
T 1fnn_A          325 YGERPRVHSQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDTLEAVITKLIKEE  387 (389)
T ss_dssp             TTCCCCCHHHHHHHHHHHHHTTSSEEEEC---------CEEEECCSSCHHHHHHHHHHHHHHH
T ss_pred             cCCCCCCHHHHHHHHHHHHhCCCeEEeeeccCCCCCCceeEEEeCCCHHHHHHHHHHHHHHHh
Confidence            2221      2346899999999987433       222       24566666666666544

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222}

Probab=99.41  E-value=1.5e-14  Score=122.28  Aligned_cols=54  Identities=19%  Similarity=0.349  Sum_probs=49.7

Q ss_pred             CCCCChhhHHHHHHHHhchhcCCCccEEEeeeccCCCcccccccchHHHHHHHhHH
Q 045345            1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEPTVVRKQTASFGEAFSKHEE   56 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~~~~~~~~~v~Pvfy~v~ps~vr~~~~~~~~~~~~~~~   56 (445)
                      ||++|.||++||.+|++|.++++  +.||||||+|+|++||+|+|.|+++|.....
T Consensus        84 ~y~~S~wc~~El~~~~~~~~~~~--~~iiPV~~~v~p~~v~~~~~~~~~~~~~~~~  137 (154)
T 3h16_A           84 HFFKKEWPQKELDGLFQLESSGR--SRILPIWHKVSKDEVASFSPTMADKLAFNTS  137 (154)
T ss_dssp             HHHTTCCCHHHHHHHTCCCTTSC--CCEEEEEESCCTGGGTTTCCCCCSSCCEETT
T ss_pred             chhcChHHHHHHHHHHHHHhcCC--CEEEEEEecCCHHHHhhCCccHHHHHhhhcC
Confidence            69999999999999999988888  8999999999999999999999998876543

>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=99.26  E-value=5.1e-11  Score=108.13  Aligned_cols=186  Identities=14%  Similarity=0.097  Sum_probs=104.8

Q ss_pred             ccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLL  191 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il  191 (445)
                      ....++||+..++.|...+..+. ..+.+.|+|++|+||||||+.+++.+...+.......        ..... ...+.
T Consensus        21 ~~~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~--------~~~~~-~~~~~   90 (250)
T 1njg_A           21 TFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPC--------GVCDN-CREIE   90 (250)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCC--------SCSHH-HHHHH
T ss_pred             cHHHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCC--------cccHH-HHHHh
Confidence            34679999999999999887532 2347889999999999999999987644321110000        00000 00000


Q ss_pred             HHH----hCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCC--HHHHHHhc---CCCCCcCcccccccC----
Q 045345          192 SEL----LKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFD--LKQLESLA---GKHEWFDEHLLMTHG----  253 (445)
Q Consensus       192 ~~l----~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~l~~l~---~~~~~~~~~vl~t~~----  253 (445)
                      ...    ........... .....+...+     .+++.+|||||++.  ...++.+.   ..... +..++.++.    
T Consensus        91 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~-~~~~i~~t~~~~~  168 (250)
T 1njg_A           91 QGRFVDLIEIDAASRTKV-EDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPE-HVKFLLATTDPQK  168 (250)
T ss_dssp             TTCCSSEEEEETTCGGGH-HHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCT-TEEEEEEESCGGG
T ss_pred             ccCCcceEEecCcccccH-HHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCC-ceEEEEEeCChHh
Confidence            000    00000000011 1111122221     34679999999974  33333332   11111 122222211    


Q ss_pred             -------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhh
Q 045345          254 -------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFL  311 (445)
Q Consensus       254 -------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  311 (445)
                             ....+++++++.++..+++...+.......  ..+....|++.++|+|..+..+...+
T Consensus       169 ~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~--~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          169 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAH--EPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCB--CHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence                   124689999999999999988764332221  13557889999999999988776543

>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=99.23  E-value=1.4e-10  Score=103.83  Aligned_cols=175  Identities=15%  Similarity=0.102  Sum_probs=101.6

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      .....++|++..++.+..++....  .+.+.|+|++|+|||+||+.+++.+........++...  .+...+...+.. .
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~-~   88 (226)
T 2chg_A           14 RTLDEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN--ASDERGIDVVRH-K   88 (226)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEE--TTCTTCHHHHHH-H
T ss_pred             CCHHHHcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEec--cccccChHHHHH-H
Confidence            345679999999999999988542  23488999999999999999998753332222222200  111122222111 1


Q ss_pred             HHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHh---cCCCCCcCcccccccC-----------C
Q 045345          191 LSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESL---AGKHEWFDEHLLMTHG-----------V  254 (445)
Q Consensus       191 l~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~~~~vl~t~~-----------~  254 (445)
                      +........               ....++.+|||||++..  ...+.+   +..... +..++.++.           .
T Consensus        89 ~~~~~~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~-~~~~i~~~~~~~~~~~~l~~r  152 (226)
T 2chg_A           89 IKEFARTAP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSK-SCRFILSCNYVSRIIEPIQSR  152 (226)
T ss_dssp             HHHHHTSCC---------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTT-TEEEEEEESCGGGSCHHHHTT
T ss_pred             HHHHhcccC---------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCC-CCeEEEEeCChhhcCHHHHHh
Confidence            111111000               01257889999999753  222222   211111 122222221           1


Q ss_pred             CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          255 DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       255 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                      ...+++.+++.++..+++...+.......  ..+....+++.++|+|..+..+.
T Consensus       153 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~--~~~~~~~l~~~~~g~~r~l~~~l  204 (226)
T 2chg_A          153 CAVFRFKPVPKEAMKKRLLEICEKEGVKI--TEDGLEALIYISGGDFRKAINAL  204 (226)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHTCCB--CHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CceeecCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHHH
Confidence            23689999999999999988764322221  13557778899999999655443

>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=99.17  E-value=5.7e-10  Score=106.01  Aligned_cols=173  Identities=16%  Similarity=0.182  Sum_probs=99.6

Q ss_pred             ccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-ccc-ceeeehhhhhhccCCHHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-FEA-SSFLANVREISEKGGLICLQKQ  189 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~-~~~~~~~~~~~~~~~~~~l~~~  189 (445)
                      ....++|++..++.+..++..+.  .+.+.|+|++|+|||++|+.+++.+... +.. .+.+.    .+...+...+ ..
T Consensus        19 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~----~~~~~~~~~i-~~   91 (323)
T 1sxj_B           19 VLSDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELN----ASDDRGIDVV-RN   91 (323)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC----TTSCCSHHHH-HT
T ss_pred             CHHHHHCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEec----CccccChHHH-HH
Confidence            44679999999999999987543  2338899999999999999999875332 221 22222    1111121111 11


Q ss_pred             HHHHHhCCCCCCCcChhhhHHHHHHHH-ccCcEEEEEcCCCCH--HHHHHh---cCCCCCcCccccccc-----------
Q 045345          190 LLSELLKLPDTSTWNVYDGLKMIGSRL-RYRKVLLIVDAAFDL--KQLESL---AGKHEWFDEHLLMTH-----------  252 (445)
Q Consensus       190 il~~l~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~~~~vl~t~-----------  252 (445)
                      ++..+....               ..+ .+++.+||+||++..  ...+.+   +..... +..++.++           
T Consensus        92 ~~~~~~~~~---------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~-~~~~il~~~~~~~l~~~l~  155 (323)
T 1sxj_B           92 QIKHFAQKK---------------LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSN-STRFAFACNQSNKIIEPLQ  155 (323)
T ss_dssp             HHHHHHHBC---------------CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTT-TEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHhcc---------------ccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCC-CceEEEEeCChhhchhHHH
Confidence            111111000               001 345889999999753  222222   211111 11111111           


Q ss_pred             CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHH-HHHHHH
Q 045345          253 GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLA-LKVLGS  309 (445)
Q Consensus       253 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLa-l~~~~~  309 (445)
                      .....+++.+++.++..+++...+.......  ..+.+..+++.++|.|.. +..+..
T Consensus       156 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~~--~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          156 SQCAILRYSKLSDEDVLKRLLQIIKLEDVKY--TNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHHHTCCB--CHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhceEEeecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            1124789999999999999988763222111  135577899999999954 444433

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=99.01  E-value=4.2e-09  Score=100.16  Aligned_cols=175  Identities=15%  Similarity=0.133  Sum_probs=99.1

Q ss_pred             ccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLL  191 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il  191 (445)
                      ...+++|++..++.+..++..+.  .+.+.|+|++|+|||++|+.+++.+........++..-  .+...+...+ ...+
T Consensus        23 ~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~--~~~~~~~~~~-~~~~   97 (327)
T 1iqp_A           23 RLDDIVGQEHIVKRLKHYVKTGS--MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELN--ASDERGINVI-REKV   97 (327)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEE--TTCHHHHHTT-HHHH
T ss_pred             CHHHhhCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEee--ccccCchHHH-HHHH
Confidence            34679999999999999888543  33488999999999999999998753322111122100  1100000000 0011


Q ss_pred             HHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHhc---CCCCCcCcccccccC-----------CC
Q 045345          192 SELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESLA---GKHEWFDEHLLMTHG-----------VD  255 (445)
Q Consensus       192 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l~---~~~~~~~~~vl~t~~-----------~~  255 (445)
                      .......               ....+++.++|+||++..  .....+.   ..... +..++.++.           ..
T Consensus        98 ~~~~~~~---------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~-~~~~i~~~~~~~~l~~~l~sr~  161 (327)
T 1iqp_A           98 KEFARTK---------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSS-NVRFILSCNYSSKIIEPIQSRC  161 (327)
T ss_dssp             HHHHHSC---------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTT-TEEEEEEESCGGGSCHHHHHTE
T ss_pred             HHHHhhC---------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCC-CCeEEEEeCCccccCHHHHhhC
Confidence            1100000               001256789999999743  3333332   11111 112222211           12


Q ss_pred             ceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHH
Q 045345          256 EVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGS  309 (445)
Q Consensus       256 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~  309 (445)
                      ..+++.+++.++..+++...+......  -..+....|++.++|.|..+..+..
T Consensus       162 ~~~~~~~l~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~~~~~l~  213 (327)
T 1iqp_A          162 AIFRFRPLRDEDIAKRLRYIAENEGLE--LTEEGLQAILYIAEGDMRRAINILQ  213 (327)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCE--ECHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cEEEecCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            368999999999999998776433221  1235677899999999996654443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.93  E-value=1.1e-08  Score=97.91  Aligned_cols=248  Identities=18%  Similarity=0.119  Sum_probs=142.0

Q ss_pred             ccccccccchhHHHHHhhhccC---CCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKE---PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ....++|++..++.+..++...   ....+.|.|+|++|+|||+||+.+++.....|.   .+.    ........    
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~---~~~----~~~~~~~~----   95 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANIK---TTA----APMIEKSG----   95 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEE---EEE----GGGCCSHH----
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeE---Eec----chhccchh----
Confidence            4567999999999998888642   233456889999999999999999887654432   111    00001111    


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHH--ccCcEEEEEcCCCCH--HHHHHhc---CCCC------------C--cC--
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRL--RYRKVLLIVDAAFDL--KQLESLA---GKHE------------W--FD--  245 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~--~~l~~l~---~~~~------------~--~~--  245 (445)
                                            .+...+  ..++.+|+||+++..  .....+.   ....            .  .+  
T Consensus        96 ----------------------~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~  153 (338)
T 3pfi_A           96 ----------------------DLAAILTNLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLP  153 (338)
T ss_dssp             ----------------------HHHHHHHTCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCC
T ss_pred             ----------------------HHHHHHHhccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCC
Confidence                                  011111  235678899998743  2222221   1110            0  00  


Q ss_pred             -ccccc------------ccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhC
Q 045345          246 -EHLLM------------THGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLY  312 (445)
Q Consensus       246 -~~vl~------------t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~  312 (445)
                       ..++.            ..+....+.+++++.++..+++...+......  -..+....+++.+.|+|-.+..+...+.
T Consensus       154 ~~~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~l~~~l~~~~  231 (338)
T 3pfi_A          154 KFTLIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNKT--CEEKAALEIAKRSRSTPRIALRLLKRVR  231 (338)
T ss_dssp             CCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCE--ECHHHHHHHHHTTTTCHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence             11111            11334679999999999999998776332211  2235677788899999976654443321


Q ss_pred             ------CC---CHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccC-CCCCHHHHHHHHHhCCCCchhc
Q 045345          313 ------GK---TTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFY-RGEDRDYVTKIIDYCDFDPVIG  382 (445)
Q Consensus       313 ------~~---~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~-~~~~~~~l~~~~~~~~~~~~~~  382 (445)
                            +.   +.+.....+            ..+..+...++..+++++..++-.. ...+...+...++.........
T Consensus       232 ~~a~~~~~~~i~~~~~~~~~------------~~~~~~~~~l~~~e~~~l~~l~~~~~~~~~~~~~a~~lg~~~~tl~~~  299 (338)
T 3pfi_A          232 DFADVNDEEIITEKRANEAL------------NSLGVNELGFDAMDLRYLELLTAAKQKPIGLASIAAALSEDENTIEDV  299 (338)
T ss_dssp             HHHHHTTCSEECHHHHHHHH------------HHHTCCTTCCCHHHHHHHHHHHHSCSCCBCHHHHHHHTTCCHHHHHHT
T ss_pred             HHHHhhcCCccCHHHHHHHH------------HHhCCcccCCCHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHH
Confidence                  11   122222222            1233344556666677776666552 2255777777665433233334


Q ss_pred             HH-HHhhcCceEEccCCeEEccHHH
Q 045345          383 IR-VLIDKSLIEISNGNRLRMHNLL  406 (445)
Q Consensus       383 l~-~L~~~sLi~~~~~~~~~mHdlv  406 (445)
                      ++ .|++.++|.....|++....-+
T Consensus       300 l~~~l~~~gli~~~~~g~~~t~~~~  324 (338)
T 3pfi_A          300 IEPYLLANGYIERTAKGRIASAKSY  324 (338)
T ss_dssp             THHHHHHTTSEEEETTEEEECHHHH
T ss_pred             HhHHHHHcCceecCCCcccccHHHH
Confidence            55 8999999998877776544433

>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=98.90  E-value=4.8e-08  Score=92.77  Aligned_cols=245  Identities=16%  Similarity=0.068  Sum_probs=139.8

Q ss_pred             ccccccccchhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ...+|+|++..++.+...+..   .......+.|+|++|+|||+||+++++.....|   .++.    .........   
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~---~~~~----~~~~~~~~~---   79 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---RVTS----GPAIEKPGD---   79 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCE---EEEC----TTTCCSHHH---
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCE---EEEe----ccccCChHH---
Confidence            456799999999998887753   112235688999999999999999998764322   2222    111111111   


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHhc---CCC--------CC---------cCc
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESLA---GKH--------EW---------FDE  246 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l~---~~~--------~~---------~~~  246 (445)
                       +...+.                  .. ..++.+|+||+++..  .....+.   ...        ..         .+.
T Consensus        80 -l~~~l~------------------~~-~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~  139 (324)
T 1hqc_A           80 -LAAILA------------------NS-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRF  139 (324)
T ss_dssp             -HHHHHT------------------TT-CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCC
T ss_pred             -HHHHHH------------------Hh-ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCE
Confidence             111110                  00 135668999999753  2222221   100        00         001


Q ss_pred             ccccc------------cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCC
Q 045345          247 HLLMT------------HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGK  314 (445)
Q Consensus       247 ~vl~t------------~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~  314 (445)
                      .++.+            .+....+.+.+++.++..+++...+......  -..+....++++++|+|..+..+...+...
T Consensus       140 ~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~  217 (324)
T 1hqc_A          140 TLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR--ITEEAALEIGRRSRGTMRVAKRLFRRVRDF  217 (324)
T ss_dssp             EEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHSCSCHHHHHHHHHHHTTT
T ss_pred             EEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHccCCHHHHHHHHHHHHHH
Confidence            11111            1233578999999999999998876432222  123567889999999999887776554321


Q ss_pred             ---------CHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccC--CCCCHHHHHHHHHhCCCCchhcH
Q 045345          315 ---------TTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFY--RGEDRDYVTKIIDYCDFDPVIGI  383 (445)
Q Consensus       315 ---------~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~--~~~~~~~l~~~~~~~~~~~~~~l  383 (445)
                               +.+.....+..            +..+...|+..++.++..+....  +++....+...++.........+
T Consensus       218 a~~~~~~~i~~~~~~~~~~~------------~~~~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~~~l  285 (324)
T 1hqc_A          218 AQVAGEEVITRERALEALAA------------LGLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLEEVH  285 (324)
T ss_dssp             STTTSCSCCCHHHHHHHHHH------------HTCCTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHHHHT
T ss_pred             HHHhcCCCCCHHHHHHHHHH------------hcccccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHH
Confidence                     22222222222            22334567777778877666443  33567777766543222222223


Q ss_pred             HH-HhhcCceEEccCCeE
Q 045345          384 RV-LIDKSLIEISNGNRL  400 (445)
Q Consensus       384 ~~-L~~~sLi~~~~~~~~  400 (445)
                      +. +++.++|.....|+.
T Consensus       286 ~~~~i~~~li~~~~~g~~  303 (324)
T 1hqc_A          286 EPYLIRQGLLKRTPRGRV  303 (324)
T ss_dssp             HHHHHHTTSEEEETTEEE
T ss_pred             hHHHHHhcchhcCCccce
Confidence            33 888999987756654

>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=98.83  E-value=1.1e-07  Score=89.93  Aligned_cols=171  Identities=15%  Similarity=0.139  Sum_probs=99.6

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc-cCccccc-eeeehhhhhhccCCHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS-SHEFEAS-SFLANVREISEKGGLICLQK  188 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~-~~~f~~~-~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ....+++|++..++.+..++..+  ..+.+.|+|++|+|||++|+.+++.+ ...+... +.+.    .+...+      
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~----~~~~~~------   81 (319)
T 2chq_A           14 RTLDEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN----ASDERG------   81 (319)
T ss_dssp             SSGGGSCSCHHHHHHHHTTTTTT--CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEE----TTSTTC------
T ss_pred             CCHHHHhCCHHHHHHHHHHHhCC--CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEe----CccccC------
Confidence            34567999999999999998753  23348899999999999999999875 2222211 1122    111000      


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHH--H-ccCcEEEEEcCCCCH--HHHHHhcCCCCCc--CcccccccC--------
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSR--L-RYRKVLLIVDAAFDL--KQLESLAGKHEWF--DEHLLMTHG--------  253 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~--l-~~~~~LlVlDdv~~~--~~l~~l~~~~~~~--~~~vl~t~~--------  253 (445)
                                   ..........+...  + .+++.++|+|+++..  ...+.+.......  +..++.++.        
T Consensus        82 -------------~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~  148 (319)
T 2chq_A           82 -------------IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEP  148 (319)
T ss_dssp             -------------TTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHH
T ss_pred             -------------hHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchH
Confidence                         01111111111100  1 256789999999743  3333333221111  122222111        


Q ss_pred             ---CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          254 ---VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       254 ---~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                         ....+++.+++.++..+++...+.......  ..+....+++.++|.+..+....
T Consensus       149 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i--~~~~l~~l~~~~~G~~r~~~~~l  204 (319)
T 2chq_A          149 IQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKI--TEDGLEALIYISGGDFRKAINAL  204 (319)
T ss_dssp             HHTTCEEEECCCCCHHHHHHHHHHHHHTTCCCB--CHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             HHhhCeEEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHHH
Confidence               124689999999999999987764333221  23557788899999998655443

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.76  E-value=2.2e-08  Score=94.14  Aligned_cols=158  Identities=14%  Similarity=0.101  Sum_probs=94.5

Q ss_pred             ccccccchhHHHHHhhhcc--CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc-----c--cceeeehhhhhhccCCHH
Q 045345          114 KDLVGMDSCWNTLRFLMDK--EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF-----E--ASSFLANVREISEKGGLI  184 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f-----~--~~~~~~~~~~~~~~~~~~  184 (445)
                      ..+.||+.+++.|...|..  .....+.+.|+|++|+|||++++.+++.+....     +  ..+.+.    .....+..
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~IN----c~~~~t~~   95 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHID----ALELAGMD   95 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEE----TTCCC--H
T ss_pred             cccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEe----ccccCCHH
Confidence            3489999999999887764  233456788999999999999999999864321     1  123343    23345566


Q ss_pred             HHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH---ccCcEEEEEcCCCCH---HHHHHhcC----CCCCc-------C--
Q 045345          185 CLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL---RYRKVLLIVDAAFDL---KQLESLAG----KHEWF-------D--  245 (445)
Q Consensus       185 ~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l---~~~~~LlVlDdv~~~---~~l~~l~~----~~~~~-------~--  245 (445)
                      .+...|+.++.+.......... ....+...+   .+++++++||+++..   +.+-.+..    ....+       +  
T Consensus        96 ~~~~~I~~~L~g~~~~~~~~~~-~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d  174 (318)
T 3te6_A           96 ALYEKIWFAISKENLCGDISLE-ALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNV  174 (318)
T ss_dssp             HHHHHHHHHHSCCC--CCCCHH-HHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSC
T ss_pred             HHHHHHHHHhcCCCCCchHHHH-HHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcc
Confidence            7778888888654322222222 222222222   457899999999854   33333321    11100       0  


Q ss_pred             --cccc---cccCCC-ceEEcCCCCHHHHHHHHHHhh
Q 045345          246 --EHLL---MTHGVD-EVHKLKVLHDDEALQLFCKQA  276 (445)
Q Consensus       246 --~~vl---~t~~~~-~~~~l~~L~~~ea~~Lf~~~a  276 (445)
                        ...+   +.++.. ..+.+++++.+|-.+++..++
T Consensus       175 ~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          175 TIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             CCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHH
T ss_pred             cchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHH
Confidence              0011   111222 468899999999999888776

>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=98.73  E-value=2e-07  Score=90.22  Aligned_cols=181  Identities=15%  Similarity=0.113  Sum_probs=100.5

Q ss_pred             ccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcccc---ceeeehhhhhhccCCHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEA---SSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~---~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ...+++|++..++.+...+..+. ....+.|+|++|+|||++|+.+++.+......   .+...            ....
T Consensus        14 ~~~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~------------~~~~   80 (373)
T 1jr3_A           14 TFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVC------------DNCR   80 (373)
T ss_dssp             STTTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSS------------HHHH
T ss_pred             chhhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCccc------------HHHH
Confidence            34569999999999999887533 23477899999999999999999875432210   00000            0000


Q ss_pred             HHHHH----HhCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHh---cCCCCCcCcccc-ccc-
Q 045345          189 QLLSE----LLKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESL---AGKHEWFDEHLL-MTH-  252 (445)
Q Consensus       189 ~il~~----l~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~~~~vl-~t~-  252 (445)
                      .+...    +...........+ ....+...+     .+++.+||+||++..  ...+.+   +..... +..++ ++. 
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~-~~~~Il~~~~  158 (373)
T 1jr3_A           81 EIEQGRFVDLIEIDAASRTKVE-DTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPE-HVKFLLATTD  158 (373)
T ss_dssp             HHHTSCCSSCEEEETTCSCCSS-CHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCS-SEEEEEEESC
T ss_pred             HHhccCCCceEEecccccCCHH-HHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCC-ceEEEEEeCC
Confidence            01000    0000000000111 122222322     246789999999743  333333   222111 11111 111 


Q ss_pred             ---------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHH
Q 045345          253 ---------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGS  309 (445)
Q Consensus       253 ---------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~  309 (445)
                               .....+++.+++.++..+++...+...+...  ..+.+..|++.++|.|..+..+..
T Consensus       159 ~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~--~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          159 PQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAH--EPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             GGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCB--CHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             hHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHCCCCHHHHHHHHH
Confidence                     1225689999999999999987653222111  134577899999999998766543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.65  E-value=1.7e-07  Score=87.31  Aligned_cols=170  Identities=16%  Similarity=0.161  Sum_probs=95.2

Q ss_pred             cccccccccchhHHHHHhhhccC-----------CCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKE-----------PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE  179 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~  179 (445)
                      ....+++|.+..++.|...+...           ....+-+.|+|++|+|||+||+++++.....|-.   +. ......
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~---v~-~~~~~~   89 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIR---VV-GSELVK   89 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEE---EE-GGGGCC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEE---Ee-hHHHHH
Confidence            44578999999999998877431           1234568899999999999999999876544321   11 111100


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCcChhh-hHHHHHHHHccCcEEEEEcCCCCH----------------HHHHHhcCC--
Q 045345          180 KGGLICLQKQLLSELLKLPDTSTWNVYD-GLKMIGSRLRYRKVLLIVDAAFDL----------------KQLESLAGK--  240 (445)
Q Consensus       180 ~~~~~~l~~~il~~l~~~~~~~~~~~~~-~~~~l~~~l~~~~~LlVlDdv~~~----------------~~l~~l~~~--  240 (445)
                      .                    ....... ....+.......+.+|+||+++..                ..+..++..  
T Consensus        90 ~--------------------~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~  149 (285)
T 3h4m_A           90 K--------------------FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMD  149 (285)
T ss_dssp             C--------------------STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHH
T ss_pred             h--------------------ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhh
Confidence            0                    0001111 112223333456789999999653                112222211  


Q ss_pred             --CCCcCccccccc--------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCC-ChHH
Q 045345          241 --HEWFDEHLLMTH--------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGG-LPLA  303 (445)
Q Consensus       241 --~~~~~~~vl~t~--------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~G-lPLa  303 (445)
                        ....+..++.++              +....+.++.++.++..+++...+........   .....++..+.| .|-.
T Consensus       150 ~~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~---~~~~~l~~~~~g~~~~~  226 (285)
T 3h4m_A          150 GFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAED---VNLEEIAKMTEGCVGAE  226 (285)
T ss_dssp             TTCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHHCTTCCHHH
T ss_pred             CCCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCc---CCHHHHHHHcCCCCHHH
Confidence              110011222222              23356899999999999999887643222111   114556777766 4545


Q ss_pred             HHHH
Q 045345          304 LKVL  307 (445)
Q Consensus       304 l~~~  307 (445)
                      |..+
T Consensus       227 i~~l  230 (285)
T 3h4m_A          227 LKAI  230 (285)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>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=98.64  E-value=4.5e-07  Score=91.82  Aligned_cols=183  Identities=14%  Similarity=0.080  Sum_probs=98.3

Q ss_pred             ccccccccchhHHHHHhhhccC---------------CCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhh
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKE---------------PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVRE  176 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~---------------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~  176 (445)
                      ...+++|++..++.|..++...               ....+.+.|+|++|+|||+||+.+++.+..  + .+.+.    
T Consensus        37 ~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~--~-~i~in----  109 (516)
T 1sxj_A           37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY--D-ILEQN----  109 (516)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC--E-EEEEC----
T ss_pred             CHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCC--C-EEEEe----
Confidence            4567999999999999988641               012468899999999999999999987732  1 12222    


Q ss_pred             hhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--------HHHHHhcCCCCC-c---
Q 045345          177 ISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--------KQLESLAGKHEW-F---  244 (445)
Q Consensus       177 ~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--------~~l~~l~~~~~~-~---  244 (445)
                      .+...... .....+.......  .....-..... .....+++.+|+||+++..        ..+..++..... +   
T Consensus       110 ~s~~~~~~-~~~~~i~~~~~~~--~~~~~~~~~~~-~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~~~~iIli  185 (516)
T 1sxj_A          110 ASDVRSKT-LLNAGVKNALDNM--SVVGYFKHNEE-AQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILI  185 (516)
T ss_dssp             TTSCCCHH-HHHHTGGGGTTBC--CSTTTTTC-----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEEE
T ss_pred             CCCcchHH-HHHHHHHHHhccc--cHHHHHhhhhh-hhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhcCCCEEEE
Confidence            12212211 1222222111100  00000000000 0012357889999999743        233333321110 0   


Q ss_pred             -----CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHH-HHHH
Q 045345          245 -----DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLA-LKVL  307 (445)
Q Consensus       245 -----~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLa-l~~~  307 (445)
                           ...+..-.+....+.+++++.++..+.+...+.......+  .+....|++.++|.+.. +..+
T Consensus       186 ~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~--~~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          186 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD--PNVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC--TTHHHHHHHHTTTCHHHHHHHH
T ss_pred             EcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHcCCcHHHHHHHH
Confidence                 0111111123456899999999999988776643221111  13467788999996554 4443

>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=98.64  E-value=4.5e-07  Score=87.34  Aligned_cols=192  Identities=14%  Similarity=0.088  Sum_probs=107.4

Q ss_pred             hhhhHhhhhhcccCCCCCCCCCccccccccccchhHHHHHhhhcc----------CCCCeEEEEEEccCCCchhHHHHHH
Q 045345           88 ESEFIVDIVKDILEMPSKIPAKSEIFKDLVGMDSCWNTLRFLMDK----------EPYGVRMIGICGMGGIGKTTLARVV  157 (445)
Q Consensus        88 e~~~i~~iv~~v~~~p~~~~~~~~~~~~~vGr~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~~  157 (445)
                      +..+++.|...+...  .+   +....+++|.+..++.|.+.+..          .....+.|.|+|++|+|||+||+++
T Consensus        63 ~~~~~~~i~~~i~~~--~~---~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~ai  137 (357)
T 3d8b_A           63 EPKMIELIMNEIMDH--GP---PVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCI  137 (357)
T ss_dssp             CHHHHHHHHHHTBCC--SC---CCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHH
T ss_pred             ChHHHHHHHhhcccC--CC---CCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHH
Confidence            556666777776655  32   33456799999999999887642          1123457889999999999999999


Q ss_pred             HhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHH-HHHHHccCcEEEEEcCCCCH-----
Q 045345          158 YDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKM-IGSRLRYRKVLLIVDAAFDL-----  231 (445)
Q Consensus       158 ~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~-----  231 (445)
                      +......|   +.+. .......                    ........... +......++.+|+||+++..     
T Consensus       138 a~~~~~~~---~~i~-~~~l~~~--------------------~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~  193 (357)
T 3d8b_A          138 ASQSGATF---FSIS-ASSLTSK--------------------WVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRG  193 (357)
T ss_dssp             HHHTTCEE---EEEE-GGGGCCS--------------------STTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC--
T ss_pred             HHHcCCeE---EEEe-hHHhhcc--------------------ccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCC
Confidence            98764332   1222 1111100                    00001111111 22222356789999998543     


Q ss_pred             ------------HHHHHhcCCCCC--cCccccccc------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchH
Q 045345          232 ------------KQLESLAGKHEW--FDEHLLMTH------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKE  285 (445)
Q Consensus       232 ------------~~l~~l~~~~~~--~~~~vl~t~------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~  285 (445)
                                  ..+..+.+....  .+..++.++            +....+.+...+.++..+++...+.......  
T Consensus       194 ~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l--  271 (357)
T 3d8b_A          194 DGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCL--  271 (357)
T ss_dssp             ----CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCC--
T ss_pred             CCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCc--
Confidence                        112222211100  011122111            3345678999999999888877663322111  


Q ss_pred             HHHHHHHHHHHhCC-ChHHHHHHHHh
Q 045345          286 YEQLSKYVVKYSGG-LPLALKVLGSF  310 (445)
Q Consensus       286 ~~~~~~~i~~~~~G-lPLal~~~~~~  310 (445)
                      ..+....|++.+.| .+-.|..+...
T Consensus       272 ~~~~l~~la~~t~G~s~~dl~~l~~~  297 (357)
T 3d8b_A          272 SEEEIEQIVQQSDAFSGADMTQLCRE  297 (357)
T ss_dssp             CHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            12456778888888 55666666543

>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=98.60  E-value=7.5e-07  Score=81.69  Aligned_cols=172  Identities=17%  Similarity=0.147  Sum_probs=92.0

Q ss_pred             cccccccchhHHHHHhhhcc---C-------CCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCC
Q 045345          113 FKDLVGMDSCWNTLRFLMDK---E-------PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGG  182 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~---~-------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~  182 (445)
                      ..+++|.+..++.|.+++..   .       ....+-+.|+|++|+|||+||+++++.....|   +.+. ........ 
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~---~~~~-~~~~~~~~-   79 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPF---LAMA-GAEFVEVI-   79 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCE---EEEE-TTTTSSSS-
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCE---EEec-hHHHHhhc-
Confidence            46789999988888765431   1       12235678999999999999999998764432   1121 11110000 


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH-----------------HHHHHhc----CC-
Q 045345          183 LICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL-----------------KQLESLA----GK-  240 (445)
Q Consensus       183 ~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-----------------~~l~~l~----~~-  240 (445)
                                        ...........+.......+.+|+||+++..                 ..+..++    .. 
T Consensus        80 ------------------~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~  141 (262)
T 2qz4_A           80 ------------------GGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMG  141 (262)
T ss_dssp             ------------------TTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCC
T ss_pred             ------------------cChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcC
Confidence                              0000111112223333456889999999864                 1122222    10 


Q ss_pred             -CCCc------------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHHH
Q 045345          241 -HEWF------------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALKV  306 (445)
Q Consensus       241 -~~~~------------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~~  306 (445)
                       ....            +..++...+....+.++.++.++-.+++...+....... ........+++.+.|.+- .|..
T Consensus       142 ~~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~-~~~~~~~~l~~~~~g~~~~~l~~  220 (262)
T 2qz4_A          142 TTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQ-SSTFYSQRLAELTPGFSGADIAN  220 (262)
T ss_dssp             TTCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCB-THHHHHHHHHHTCTTCCHHHHHH
T ss_pred             CCCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCc-chhhHHHHHHHHCCCCCHHHHHH
Confidence             0100            111111114456788999999999999987763322221 112234677888877754 4544


Q ss_pred             HH
Q 045345          307 LG  308 (445)
Q Consensus       307 ~~  308 (445)
                      +.
T Consensus       221 l~  222 (262)
T 2qz4_A          221 IC  222 (262)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.58  E-value=9.6e-07  Score=85.33  Aligned_cols=51  Identities=20%  Similarity=0.220  Sum_probs=39.1

Q ss_pred             cccccccchhHHHHHh---hhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          113 FKDLVGMDSCWNTLRF---LMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~---~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...|+|++..++.+..   .+..+....+.+.|+|++|+|||+||+.+++.+..
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~   96 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGP   96 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCS
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            5789999999777544   44433322358889999999999999999998754

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A

Probab=98.58  E-value=1e-08  Score=85.12  Aligned_cols=67  Identities=15%  Similarity=0.280  Sum_probs=46.5

Q ss_pred             CCCCChhhHHHHHHHHhchhcCCCccEEEeeeccCCC----cccccccchHHHHHHHhHHhhhhcHHHHHHHHHHH
Q 045345            1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEP----TVVRKQTASFGEAFSKHEETFRMNIEKVQKWRDAL   72 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~~~~~~~~~v~Pvfy~v~p----s~vr~~~~~~~~~~~~~~~~~~~~~~~~~~w~~al   72 (445)
                      ||++|.||+.||..++.|...+.  ..||||||+|++    ..+|........   .+...|....+.|.+|++||
T Consensus        75 ~y~~S~wc~~El~~al~~~~~~~--~~vIpv~~~v~~~~lp~~Lr~~~~id~~---~~d~~f~~l~~~v~~~~~~~  145 (146)
T 3ub2_A           75 GFLQDPWCKYQMLQALTEAPGAE--GCTIPLLSGLSRAAYPPELRFMYYVDGR---GPDGGFRQVKEAVMRYLQTL  145 (146)
T ss_dssp             HHHHCHHHHHHHHHHHHTSSSSS--SEEEEEECSCCGGGSCGGGGGSCCEETT---SGGGGHHHHHHHHHHHHTTC
T ss_pred             ccccCHHHHHHHHHHHHHHhhcC--CcEEEEEcCCChhhCCHHHhCeeeeecc---ChHhhHHHHHHHHHHHHHhc
Confidence            68999999999999999874444  467799999994    455665432221   23344444456788888765

>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=98.57  E-value=3e-06  Score=81.22  Aligned_cols=183  Identities=13%  Similarity=0.087  Sum_probs=98.5

Q ss_pred             ccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc--cccceeeehhhhhhccCCHHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE--FEASSFLANVREISEKGGLICLQKQ  189 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~l~~~  189 (445)
                      ....++|++..++.+...+..+..  +.+.|+|++|+||||+|+.+++.+...  +...+...+   .+...+...+. +
T Consensus        35 ~~~~i~g~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~---~~~~~~~~~~~-~  108 (353)
T 1sxj_D           35 NLDEVTAQDHAVTVLKKTLKSANL--PHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELN---ASDERGISIVR-E  108 (353)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTTC--CCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEEC---SSSCCCHHHHT-T
T ss_pred             CHHHhhCCHHHHHHHHHHHhcCCC--CEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEc---cccccchHHHH-H
Confidence            346799999999999999875432  238899999999999999999875321  221111111   11112222221 1


Q ss_pred             HHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHh---cCCCCCcCcccccccC----------C
Q 045345          190 LLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESL---AGKHEWFDEHLLMTHG----------V  254 (445)
Q Consensus       190 il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~~~~vl~t~~----------~  254 (445)
                      .+..............     .....-...+-+|++|+++..  .....+   +........-++++..          .
T Consensus       109 ~~~~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR  183 (353)
T 1sxj_D          109 KVKNFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQ  183 (353)
T ss_dssp             HHHHHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHH
T ss_pred             HHHHHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhcc
Confidence            1111111100000000     000111235579999998743  222222   2111110111222211          1


Q ss_pred             CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          255 DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       255 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                      ...+.+.+++.++..+.+...+.......  ..+....|++.++|.|..+..+
T Consensus       184 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~i--~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          184 CSKFRFKALDASNAIDRLRFISEQENVKC--DDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTCCC--CHHHHHHHHHHTSSCHHHHHHH
T ss_pred             CceEEeCCCCHHHHHHHHHHHHHHhCCCC--CHHHHHHHHHHcCCCHHHHHHH
Confidence            13688999999999999987763322211  1356788999999999875443

>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=98.57  E-value=1.3e-07  Score=85.40  Aligned_cols=165  Identities=15%  Similarity=0.094  Sum_probs=91.4

Q ss_pred             cccccccccc---hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMD---SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~---~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....+|+|.+   ..++.+..+....  ..+.+.|+|++|+|||+||+.+++..........++.. ......  +    
T Consensus        25 ~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~-~~~~~~--~----   95 (242)
T 3bos_A           25 ETFTSYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPL-GIHASI--S----   95 (242)
T ss_dssp             CSTTTSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEG-GGGGGS--C----
T ss_pred             CChhhccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEH-HHHHHH--H----
Confidence            3456788743   5566666665532  35678899999999999999999876443333445441 111100  0    


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH--H--HHHhcCCCCCc---C-cccccccC------
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK--Q--LESLAGKHEWF---D-EHLLMTHG------  253 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~--l~~l~~~~~~~---~-~~vl~t~~------  253 (445)
                                        ....    ..+ .++.+|||||++...  .  .+.+.......   + ..++.++.      
T Consensus        96 ------------------~~~~----~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~  152 (242)
T 3bos_A           96 ------------------TALL----EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEA  152 (242)
T ss_dssp             ------------------GGGG----TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTT
T ss_pred             ------------------HHHH----Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHH
Confidence                              0000    011 345688999986431  1  11111000000   1 11222111      


Q ss_pred             ------------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHH
Q 045345          254 ------------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGS  309 (445)
Q Consensus       254 ------------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~  309 (445)
                                  ....+++++++.++..+++...+......  -..+....+++.++|++..+..+..
T Consensus       153 ~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~l~~~l~  218 (242)
T 3bos_A          153 GFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQ--LPEDVGRFLLNRMARDLRTLFDVLD  218 (242)
T ss_dssp             TCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCC--CCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHccCCHHHHHHHHH
Confidence                        11568999999999999998776322211  1235577888899999877665443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.56  E-value=2.7e-07  Score=80.03  Aligned_cols=47  Identities=15%  Similarity=0.196  Sum_probs=40.0

Q ss_pred             cccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...++||+.+++.+.+.+...  ..+.+.|+|++|+|||+||+.+++.+
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            457999999999999988753  34567899999999999999999875

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.55  E-value=5e-07  Score=89.45  Aligned_cols=168  Identities=17%  Similarity=0.169  Sum_probs=96.1

Q ss_pred             ccccccccchhH---HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          112 IFKDLVGMDSCW---NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       112 ~~~~~vGr~~~l---~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ....+||.+..+   ..|...+..+  ..+.+.|+|++|+||||||+.+++.....|....-        ...+...+. 
T Consensus        24 ~l~~ivGq~~~~~~~~~L~~~i~~~--~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a--------~~~~~~~ir-   92 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAGKPLPRAIEAG--HLHSMILWGPPGTGKTTLAEVIARYANADVERISA--------VTSGVKEIR-   92 (447)
T ss_dssp             STTTCCSCHHHHSTTSHHHHHHHHT--CCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEET--------TTCCHHHHH-
T ss_pred             CHHHhCCcHHHHhchHHHHHHHHcC--CCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEe--------ccCCHHHHH-
Confidence            446799999888   6777777743  34678899999999999999999877554422110        011222111 


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH--HHHHhcCCCCCcCcccc-ccc------------C
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK--QLESLAGKHEWFDEHLL-MTH------------G  253 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~l~~l~~~~~~~~~~vl-~t~------------~  253 (445)
                      .++..                 .......+++.+|+||+++...  +.+.++.........++ .|+            .
T Consensus        93 ~~~~~-----------------a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~~v~lI~att~n~~~~l~~aL~s  155 (447)
T 3pvs_A           93 EAIER-----------------ARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDGTITFIGATTENPSFELNSALLS  155 (447)
T ss_dssp             HHHHH-----------------HHHHHHTTCCEEEEEETTTCC------CCHHHHHTTSCEEEEEESSCGGGSSCHHHHT
T ss_pred             HHHHH-----------------HHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcCceEEEecCCCCcccccCHHHhC
Confidence            11111                 0011124578899999997542  22222111000001111 111            1


Q ss_pred             CCceEEcCCCCHHHHHHHHHHhhcCCC-----CCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          254 VDEVHKLKVLHDDEALQLFCKQAFKTN-----QPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       254 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~-----~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                      ...++.+++++.++..+++...+....     ....-..+....|++.++|.+..+..+
T Consensus       156 R~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~  214 (447)
T 3pvs_A          156 RARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNT  214 (447)
T ss_dssp             TEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHH
T ss_pred             ceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHH
Confidence            124688999999999999987763211     111223456778888899998866544

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.54  E-value=3e-07  Score=79.41  Aligned_cols=48  Identities=15%  Similarity=0.149  Sum_probs=40.3

Q ss_pred             cccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...++||+.+++.+.+.+...  ..+.+.|+|++|+|||+||+.+++.+.
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~--~~~~vll~G~~G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRR--TKNNPILLGDPGVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSS--SSCEEEEESCGGGCHHHHHHHHHHHHH
T ss_pred             cchhhcchHHHHHHHHHHhCC--CCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            357999999999999988752  345678999999999999999998753

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.44  E-value=6.9e-06  Score=76.78  Aligned_cols=174  Identities=16%  Similarity=0.135  Sum_probs=95.2

Q ss_pred             ccccccccccchhHHHHHhhhccC----------CCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhc
Q 045345          110 SEIFKDLVGMDSCWNTLRFLMDKE----------PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE  179 (445)
Q Consensus       110 ~~~~~~~vGr~~~l~~l~~~L~~~----------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~  179 (445)
                      +....+++|.+..++.|...+...          ....+.+.|+|++|+|||+||++++......|-   .+. ......
T Consensus        17 ~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~---~i~-~~~l~~   92 (297)
T 3b9p_A           17 KVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATFL---NIS-AASLTS   92 (297)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEE---EEE-STTTSS
T ss_pred             CCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeE---Eee-HHHHhh
Confidence            344578999999999998876320          112457889999999999999999987644331   111 100000


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCcChhhhHHH-HHHHHccCcEEEEEcCCCCH-------------HH----HHHhcCCC
Q 045345          180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKM-IGSRLRYRKVLLIVDAAFDL-------------KQ----LESLAGKH  241 (445)
Q Consensus       180 ~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~-------------~~----l~~l~~~~  241 (445)
                                          ............ +.......+.+|+||+++..             ..    +..+-+..
T Consensus        93 --------------------~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~  152 (297)
T 3b9p_A           93 --------------------KYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLP  152 (297)
T ss_dssp             --------------------SSCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC
T ss_pred             --------------------cccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhccc
Confidence                                000111111222 22223457789999999643             11    11111111


Q ss_pred             CC---cCccccccc------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHH
Q 045345          242 EW---FDEHLLMTH------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALK  305 (445)
Q Consensus       242 ~~---~~~~vl~t~------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~  305 (445)
                      ..   ....++.++            +....+.++..+.++...++...+.......  ..+....+++.+.|.+- .|.
T Consensus       153 ~~~~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~--~~~~~~~la~~~~g~~~~~l~  230 (297)
T 3b9p_A          153 GNPDGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPL--DTEALRRLAKITDGYSGSDLT  230 (297)
T ss_dssp             ------CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCCS--CHHHHHHHHHHTTTCCHHHHH
T ss_pred             ccCCCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHcCCCCHHHHH
Confidence            00   011122111            2335677888888888888877653322111  12456778888888875 555


Q ss_pred             HHHH
Q 045345          306 VLGS  309 (445)
Q Consensus       306 ~~~~  309 (445)
                      .+..
T Consensus       231 ~l~~  234 (297)
T 3b9p_A          231 ALAK  234 (297)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>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=98.44  E-value=2.4e-06  Score=82.05  Aligned_cols=188  Identities=14%  Similarity=0.047  Sum_probs=95.4

Q ss_pred             cccccccccchhHHHHHhhh-ccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhh--------------
Q 045345          111 EIFKDLVGMDSCWNTLRFLM-DKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVR--------------  175 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L-~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~--------------  175 (445)
                      ....+++|.+..++.+..++ ..+. ... +.|+|++|+||||+|+.++..+.....+.+.+....              
T Consensus        11 ~~~~~~vg~~~~~~~l~~~~~~~~~-~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~   88 (354)
T 1sxj_E           11 KSLNALSHNEELTNFLKSLSDQPRD-LPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   88 (354)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCTTC-CCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             CCHHHhcCCHHHHHHHHHHHhhCCC-CCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeee
Confidence            34567999999999999988 5332 223 899999999999999999885422211111111000              


Q ss_pred             ------hh--hcc-CCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HH---HHHhcCCC
Q 045345          176 ------EI--SEK-GGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQ---LESLAGKH  241 (445)
Q Consensus       176 ------~~--~~~-~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~---l~~l~~~~  241 (445)
                            ..  +.. ........+++..+......     .... .+ ..+.+++-++|||+++..  ..   +..++...
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~-~l-s~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~  161 (354)
T 1sxj_E           89 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV-----DFQD-SK-DGLAHRYKCVIINEANSLTKDAQAALRRTMEKY  161 (354)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHHHS
T ss_pred             cccceEEecHhhcCCcchHHHHHHHHHHHHhccc-----cccc-cc-cccCCCCeEEEEeCccccCHHHHHHHHHHHHhh
Confidence                  00  000 00000111222222110000     0000 00 002346779999999753  22   22222111


Q ss_pred             CCcCcccccccC----------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHH
Q 045345          242 EWFDEHLLMTHG----------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLG  308 (445)
Q Consensus       242 ~~~~~~vl~t~~----------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  308 (445)
                      .....-+++++.          ....+++++++.++..+.+...+...+...+ ..+.+..|++.++|.+..+..+.
T Consensus       162 ~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~l~~i~~~~~G~~r~a~~~l  237 (354)
T 1sxj_E          162 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE-TKDILKRIAQASNGNLRVSLLML  237 (354)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC-CSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCC-cHHHHHHHHHHcCCCHHHHHHHH
Confidence            110122222221          1256899999999999999877632221111 02456788999999997665443

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=98.41  E-value=1.1e-05  Score=76.91  Aligned_cols=249  Identities=16%  Similarity=0.143  Sum_probs=129.2

Q ss_pred             ccccccccchhHHHHHhhhccC---CCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKE---PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ....++|.+..++.+...+..+   ......++|+|++|+||||||+.++..+...|..   ..  ..+.  ....    
T Consensus        23 ~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~---~s--g~~~--~~~~----   91 (334)
T 1in4_A           23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHV---TS--GPVL--VKQG----   91 (334)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEE---EE--TTTC--CSHH----
T ss_pred             cHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEE---Ee--chHh--cCHH----
Confidence            3467899988888887766532   1223578999999999999999999876433211   00  0000  0000    


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHhc---CCCC--------C----c----Ccc
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESLA---GKHE--------W----F----DEH  247 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l~---~~~~--------~----~----~~~  247 (445)
                                        +.. .+...+ .++.++++|+++..  ...+.+.   ....        .    .    ..-
T Consensus        92 ------------------~l~-~~~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~  151 (334)
T 1in4_A           92 ------------------DMA-AILTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPF  151 (334)
T ss_dssp             ------------------HHH-HHHHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCC
T ss_pred             ------------------HHH-HHHHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCe
Confidence                              000 011111 13346677776532  1111111   0000        0    0    000


Q ss_pred             cc-------------cccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhh---
Q 045345          248 LL-------------MTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFL---  311 (445)
Q Consensus       248 vl-------------~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L---  311 (445)
                      .+             ...+....+.+++.+.++-.+++.+.+......  -..+.+..|++.+.|.|..+.-+...+   
T Consensus       152 ~li~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~--~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~  229 (334)
T 1in4_A          152 TLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE--IEDAAAEMIAKRSRGTPRIAIRLTKRVRDM  229 (334)
T ss_dssp             EEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC--BCHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             EEEEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHhcCCChHHHHHHHHHHHHH
Confidence            00             011233457899999999999998776322211  223567889999999997654433222   


Q ss_pred             ---CC---CCHHHHHHHHHHHhcCCchhHHHHHHHhhcCCcHhHHHHHhhhhccCC--CCCHHHHHHHHHhCCCCchhcH
Q 045345          312 ---YG---KTTKEWESAPKRLERESENEILDILKISFDGLRETEKKIFLDIACFYR--GEDRDYVTKIIDYCDFDPVIGI  383 (445)
Q Consensus       312 ---~~---~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~~~~la~f~~--~~~~~~l~~~~~~~~~~~~~~l  383 (445)
                         .+   -+.+....++..+            ...-..|+...+.++..++-.+.  +...+.+....+.+....+...
T Consensus       230 a~~~~~~~It~~~v~~al~~~------------~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~t~~~~~  297 (334)
T 1in4_A          230 LTVVKADRINTDIVLKTMEVL------------NIDDEGLDEFDRKILKTIIEIYRGGPVGLNALAASLGVEADTLSEVY  297 (334)
T ss_dssp             HHHHTCSSBCHHHHHHHHHHH------------TCCTTCCCHHHHHHHHHHHHHSTTCCBCHHHHHHHHTSCHHHHHHHT
T ss_pred             HHHcCCCCcCHHHHHHHHHHh------------CCCcCCCCHHHHHHHHHHHHHhCCCcchHHHHHHHhCCCcchHHHHH
Confidence               11   1222222222222            11223566666666655543322  2555666655543211111222


Q ss_pred             H-HHhhcCceEEccCCeEEccHH
Q 045345          384 R-VLIDKSLIEISNGNRLRMHNL  405 (445)
Q Consensus       384 ~-~L~~~sLi~~~~~~~~~mHdl  405 (445)
                      + .|...++|+....|++-...-
T Consensus       298 ~~~l~~~g~i~~~~~gr~~~~~~  320 (334)
T 1in4_A          298 EPYLLQAGFLARTPRGRIVTEKA  320 (334)
T ss_dssp             HHHHHHTTSEEEETTEEEECHHH
T ss_pred             HHHHHHcCCeecccccHHhhHHH
Confidence            2 789999999988888754433

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.39  E-value=5.8e-06  Score=78.30  Aligned_cols=173  Identities=13%  Similarity=0.080  Sum_probs=94.6

Q ss_pred             cccccccccchhHHHHHhhhcc----------CCCCeEEEEEEccCCCchhHHHHHHHhhc-cCccccceeeehhhhhhc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK----------EPYGVRMIGICGMGGIGKTTLARVVYDLS-SHEFEASSFLANVREISE  179 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~-~~~f~~~~~~~~~~~~~~  179 (445)
                      ..-.+++|.+...+.|.+.+..          .....+-|.|+|++|+|||+||+++++.. ...|   +.+. ......
T Consensus         9 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~---~~i~-~~~l~~   84 (322)
T 1xwi_A            9 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTF---FSIS-SSDLVS   84 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEE---EEEE-CCSSCC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCCcE---EEEE-hHHHHh
Confidence            3456799999998888775521          11223678899999999999999999876 3222   1111 000000


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHH-HHHHccCcEEEEEcCCCCHH-------------HHHHhc----CCC
Q 045345          180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMI-GSRLRYRKVLLIVDAAFDLK-------------QLESLA----GKH  241 (445)
Q Consensus       180 ~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l-~~~l~~~~~LlVlDdv~~~~-------------~l~~l~----~~~  241 (445)
                                          ............+ ......++.+|+||+++...             ....++    +..
T Consensus        85 --------------------~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~  144 (322)
T 1xwi_A           85 --------------------KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVG  144 (322)
T ss_dssp             --------------------SSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSS
T ss_pred             --------------------hhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhccc
Confidence                                0001111222222 22234578899999997541             111121    110


Q ss_pred             -CCcCccccccc------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCC-hHHHHHH
Q 045345          242 -EWFDEHLLMTH------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGL-PLALKVL  307 (445)
Q Consensus       242 -~~~~~~vl~t~------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~Gl-PLal~~~  307 (445)
                       ...+..++.++            +....+.++..+.++-.+++..++.......  .......|++.+.|. +-.|..+
T Consensus       145 ~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l--~~~~l~~la~~t~G~sgadl~~l  222 (322)
T 1xwi_A          145 VDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSL--TEADFRELGRKTDGYSGADISII  222 (322)
T ss_dssp             SCCTTEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCC--CHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             ccCCCEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC--CHHHHHHHHHHcCCCCHHHHHHH
Confidence             00011122111            3446678899999998998887763322111  123466788888876 4445555


Q ss_pred             HH
Q 045345          308 GS  309 (445)
Q Consensus       308 ~~  309 (445)
                      ..
T Consensus       223 ~~  224 (322)
T 1xwi_A          223 VR  224 (322)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.38  E-value=1.9e-06  Score=85.29  Aligned_cols=171  Identities=15%  Similarity=0.148  Sum_probs=93.6

Q ss_pred             cccccc-ccchhH--HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccc--eeeehhhhhhccCCHHHH
Q 045345          112 IFKDLV-GMDSCW--NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEAS--SFLANVREISEKGGLICL  186 (445)
Q Consensus       112 ~~~~~v-Gr~~~l--~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~--~~~~~~~~~~~~~~~~~l  186 (445)
                      ..+.|| |....+  ..+........ ....+.|+|++|+||||||+.+++.+...++..  +++.          ...+
T Consensus       103 tfd~fv~g~~n~~a~~~~~~~a~~~~-~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~----------~~~~  171 (440)
T 2z4s_A          103 TFENFVVGPGNSFAYHAALEVAKHPG-RYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT----------SEKF  171 (440)
T ss_dssp             SGGGCCCCTTTHHHHHHHHHHHHSTT-SSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEE----------HHHH
T ss_pred             ChhhcCCCCchHHHHHHHHHHHhCCC-CCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee----------HHHH
Confidence            345677 655443  33333333222 256788999999999999999999875554333  3333          1112


Q ss_pred             HHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH----HHHHhcCC----CCCcCcccccccC-----
Q 045345          187 QKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK----QLESLAGK----HEWFDEHLLMTHG-----  253 (445)
Q Consensus       187 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----~l~~l~~~----~~~~~~~vl~t~~-----  253 (445)
                      ..++...+...          ....+...+..++-+|+|||++...    ..+.+...    ... +..+++++.     
T Consensus       172 ~~~~~~~~~~~----------~~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~-~~~iIitt~~~~~~  240 (440)
T 2z4s_A          172 LNDLVDSMKEG----------KLNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDS-GKQIVICSDREPQK  240 (440)
T ss_dssp             HHHHHHHHHTT----------CHHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTT-TCEEEEEESSCGGG
T ss_pred             HHHHHHHHHcc----------cHHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHC-CCeEEEEECCCHHH
Confidence            23333333311          1222344444467799999996321    11112110    000 122222221     


Q ss_pred             -------------CCceEEcCCCCHHHHHHHHHHhhcCCC-CCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          254 -------------VDEVHKLKVLHDDEALQLFCKQAFKTN-QPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       254 -------------~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                                   ...++.+++++.++-.+++...+.... ..+   .+....|++.++|++.-+.-+
T Consensus       241 l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~---~e~l~~la~~~~gn~R~l~~~  305 (440)
T 2z4s_A          241 LSEFQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELP---EEVLNFVAENVDDNLRRLRGA  305 (440)
T ss_dssp             CSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHCCSCHHHHHHH
T ss_pred             HHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhcCCCHHHHHHH
Confidence                         124578999999999999887763211 111   134667888889998765543

>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=98.38  E-value=5.1e-06  Score=76.68  Aligned_cols=49  Identities=14%  Similarity=0.068  Sum_probs=35.9

Q ss_pred             ccccccchhHHHHHh-------hhcc-CCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRF-------LMDK-EPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~-------~L~~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|.+..++.+..       .+.. .....+.+.|+|++|+|||+||+++++...
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~   89 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESN   89 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            457888777666655       2321 233467889999999999999999998753

>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=98.38  E-value=4.6e-06  Score=79.04  Aligned_cols=173  Identities=13%  Similarity=0.073  Sum_probs=95.4

Q ss_pred             cccccccccchhHHHHHhhhc----------cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMD----------KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEK  180 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~----------~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~  180 (445)
                      ....+++|.+..++.|...+.          ......+-+.|+|++|+|||+||+++++.....|-   .+. ....   
T Consensus        15 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~---~v~-~~~l---   87 (322)
T 3eie_A           15 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFF---SVS-SSDL---   87 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEE---EEE-HHHH---
T ss_pred             CCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEE---EEc-hHHH---
Confidence            345789999999999988772          11122456889999999999999999987644332   121 1111   


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCcChhhhHHH-HHHHHccCcEEEEEcCCCCHH-------------HHHHhc---CCC--
Q 045345          181 GGLICLQKQLLSELLKLPDTSTWNVYDGLKM-IGSRLRYRKVLLIVDAAFDLK-------------QLESLA---GKH--  241 (445)
Q Consensus       181 ~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~~-------------~l~~l~---~~~--  241 (445)
                                ....       .......... +......++.+|+||+++...             ....++   ...  
T Consensus        88 ----------~~~~-------~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~  150 (322)
T 3eie_A           88 ----------VSKW-------MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN  150 (322)
T ss_dssp             ----------HTTT-------GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGT
T ss_pred             ----------hhcc-------cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccc
Confidence                      0000       0111112222 222234577899999997431             011111   100  


Q ss_pred             CCcCccccccc------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCC-ChHHHHHHH
Q 045345          242 EWFDEHLLMTH------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGG-LPLALKVLG  308 (445)
Q Consensus       242 ~~~~~~vl~t~------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~G-lPLal~~~~  308 (445)
                      ...+..++.++            +....+.++..+.++-.++|..++........  ......|++.+.| .+-.|..+.
T Consensus       151 ~~~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~--~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          151 DSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLT--KEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             SCCCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCC--HHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             cCCceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCC--HHHHHHHHHHcCCCCHHHHHHHH
Confidence            00012222222            23456788889999999999887743322111  2345667777776 454555444


Q ss_pred             H
Q 045345          309 S  309 (445)
Q Consensus       309 ~  309 (445)
                      .
T Consensus       229 ~  229 (322)
T 3eie_A          229 K  229 (322)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.37  E-value=4.5e-06  Score=81.33  Aligned_cols=173  Identities=16%  Similarity=0.144  Sum_probs=94.8

Q ss_pred             cccccccccchhHHHHHhhhcc----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEK  180 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~  180 (445)
                      ....+++|.+..++.|...+..          .....+-+.|+|++|+|||+||++++......|-   .+. .......
T Consensus       112 ~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~~~---~v~-~~~l~~~  187 (389)
T 3vfd_A          112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFF---NIS-AASLTSK  187 (389)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEE---EEC-SCCC---
T ss_pred             CChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCcEE---Eee-HHHhhcc
Confidence            4457899999999999887731          0112357889999999999999999887543321   111 1000000


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCcChhhhHH-HHHHHHccCcEEEEEcCCCCH-------------HHHHHhc----CCCC
Q 045345          181 GGLICLQKQLLSELLKLPDTSTWNVYDGLK-MIGSRLRYRKVLLIVDAAFDL-------------KQLESLA----GKHE  242 (445)
Q Consensus       181 ~~~~~l~~~il~~l~~~~~~~~~~~~~~~~-~l~~~l~~~~~LlVlDdv~~~-------------~~l~~l~----~~~~  242 (445)
                                   .       ......... .+.......+.+|+||+++..             .....++    +...
T Consensus       188 -------------~-------~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~  247 (389)
T 3vfd_A          188 -------------Y-------VGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQS  247 (389)
T ss_dssp             ------------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-
T ss_pred             -------------c-------cchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccc
Confidence                         0       000011111 122222346689999999744             0111111    0000


Q ss_pred             --CcCccccccc------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHHHH
Q 045345          243 --WFDEHLLMTH------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALKVL  307 (445)
Q Consensus       243 --~~~~~vl~t~------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~~~  307 (445)
                        ..+..++.++            +....+.+...+.++-.+++...+.......  ..+....|++.+.|..- +|..+
T Consensus       248 ~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l--~~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          248 AGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPL--TQKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             ----CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCS--CHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             cCCCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCC--CHHHHHHHHHHcCCCCHHHHHHH
Confidence              0011112111            3345688999999999999887763322221  12356778888888554 66555


Q ss_pred             HH
Q 045345          308 GS  309 (445)
Q Consensus       308 ~~  309 (445)
                      ..
T Consensus       326 ~~  327 (389)
T 3vfd_A          326 AK  327 (389)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.36  E-value=7.9e-06  Score=80.97  Aligned_cols=173  Identities=15%  Similarity=0.118  Sum_probs=94.4

Q ss_pred             cccccccccchhHHHHHhhhcc----------CCCCeEEEEEEccCCCchhHHHHHHHhhc-cCccccceeeehhhhhhc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK----------EPYGVRMIGICGMGGIGKTTLARVVYDLS-SHEFEASSFLANVREISE  179 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~-~~~f~~~~~~~~~~~~~~  179 (445)
                      ....+++|.+...+.|...+..          .....+-|.|+|++|+|||+||+++++.. ...|   +.+. .   + 
T Consensus       131 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~---~~v~-~---~-  202 (444)
T 2zan_A          131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTF---FSIS-S---S-  202 (444)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEE---EEEC-C---C-
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCE---EEEe-H---H-
Confidence            4457899999999998876521          11224678899999999999999999876 2222   1111 0   0 


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH-------------HHHHHhcCCCCCc--
Q 045345          180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL-------------KQLESLAGKHEWF--  244 (445)
Q Consensus       180 ~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~l~~l~~~~~~~--  244 (445)
                        .       +.....+.   .....   ...+.......+.+|+||+++..             .....++.....+  
T Consensus       203 --~-------l~~~~~g~---~~~~~---~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~  267 (444)
T 2zan_A          203 --D-------LVSKWLGE---SEKLV---KNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV  267 (444)
T ss_dssp             ---------------------CCCTH---HHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSC
T ss_pred             --H-------HHhhhcch---HHHHH---HHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCccc
Confidence              0       01111111   11111   12222223467899999999854             1233333222111  


Q ss_pred             ---Cccccccc------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCC-hHHHHHHH
Q 045345          245 ---DEHLLMTH------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGL-PLALKVLG  308 (445)
Q Consensus       245 ---~~~vl~t~------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~Gl-PLal~~~~  308 (445)
                         +..++.++            +....+.++..+.++-.++|..++.......  .......|++.+.|. +-.|..+.
T Consensus       268 ~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l--~~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          268 DNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSL--TEADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             CCSSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEEC--CHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCCCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCC--CHHHHHHHHHHcCCCCHHHHHHHH
Confidence               11222121            3345678888888888888887763322111  123456678888774 44555444

>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=98.33  E-value=6.7e-06  Score=77.93  Aligned_cols=168  Identities=10%  Similarity=0.122  Sum_probs=86.9

Q ss_pred             cccccc-ccchh--HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHH
Q 045345          112 IFKDLV-GMDSC--WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       112 ~~~~~v-Gr~~~--l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ..++|| |....  ...+.............+.|+|++|+||||||+.+++.....-...+++. .         ..+..
T Consensus         9 ~f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~-~---------~~~~~   78 (324)
T 1l8q_A            9 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS-A---------DDFAQ   78 (324)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE-H---------HHHHH
T ss_pred             CcccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE-H---------HHHHH
Confidence            345676 54333  34444544433223457889999999999999999987633211233333 1         11222


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH----HHHHhcCCCCC---cCccccccc---------
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK----QLESLAGKHEW---FDEHLLMTH---------  252 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----~l~~l~~~~~~---~~~~vl~t~---------  252 (445)
                      .+...+...          ....+...+. ++.+|+|||++...    ..+.+......   .+..+++++         
T Consensus        79 ~~~~~~~~~----------~~~~~~~~~~-~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~  147 (324)
T 1l8q_A           79 AMVEHLKKG----------TINEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDG  147 (324)
T ss_dssp             HHHHHHHHT----------CHHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTT
T ss_pred             HHHHHHHcC----------cHHHHHHHhc-CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHH
Confidence            232222210          1112222232 46799999986432    11111100000   011122221         


Q ss_pred             ---------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          253 ---------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       253 ---------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                               ....++++++ +.++-.+++...+.......  ..+....|++.+ |.+-.+
T Consensus       148 l~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l--~~~~l~~l~~~~-g~~r~l  204 (324)
T 1l8q_A          148 VSDRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNLEL--RKEVIDYLLENT-KNVREI  204 (324)
T ss_dssp             SCHHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCC--CHHHHHHHHHHC-SSHHHH
T ss_pred             hhhHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCCCC--CHHHHHHHHHhC-CCHHHH
Confidence                     1124688999 99999999988764322211  135567788888 777644

>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=98.32  E-value=2.4e-05  Score=73.25  Aligned_cols=165  Identities=16%  Similarity=0.185  Sum_probs=91.9

Q ss_pred             ccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhcc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEK  180 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~  180 (445)
                      ...+++|.+..++.|.+.+..           +-...+.+.|+|++|+|||+||++++......|   +.+.        
T Consensus        13 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~---i~v~--------   81 (301)
T 3cf0_A           13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF---ISIK--------   81 (301)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEE---EEEC--------
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCE---EEEE--------
Confidence            346799999998888876642           112345788999999999999999998764332   1121        


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH-------------------H-HHHhcCC
Q 045345          181 GGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK-------------------Q-LESLAGK  240 (445)
Q Consensus       181 ~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------------~-l~~l~~~  240 (445)
                        ..    .+.....+..   .   ......+.......+.+|+||+++...                   + +..+-+.
T Consensus        82 --~~----~l~~~~~g~~---~---~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~  149 (301)
T 3cf0_A           82 --GP----ELLTMWFGES---E---ANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGM  149 (301)
T ss_dssp             --HH----HHHHHHHTTC---T---THHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSS
T ss_pred             --hH----HHHhhhcCch---H---HHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcc
Confidence              11    1222222211   1   112223333344678999999997532                   1 1112111


Q ss_pred             CCCc--------------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCC-CchHHHHHHHHHHHHhCCChHH
Q 045345          241 HEWF--------------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQ-PWKEYEQLSKYVVKYSGGLPLA  303 (445)
Q Consensus       241 ~~~~--------------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~GlPLa  303 (445)
                      ....              +..++...+....+.++..+.++-.+++......... ....    ...++..+.|.|-+
T Consensus       150 ~~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~----~~~la~~~~g~sg~  223 (301)
T 3cf0_A          150 STKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSGA  223 (301)
T ss_dssp             CTTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHTCSSCCHH
T ss_pred             cCCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccch----HHHHHHHcCCCCHH
Confidence            1100              1112222244567889999999988888776632221 1112    23455566676643

>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=98.29  E-value=2.4e-05  Score=74.63  Aligned_cols=170  Identities=12%  Similarity=0.132  Sum_probs=91.5

Q ss_pred             ccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeehhhhhhccCCHHHHHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....++|.+..++.|...+..+  ..+.+.++|++|+||||+|+.++..+... +...+.-.+   .+...+...+.. .
T Consensus        23 ~~~~~~g~~~~~~~L~~~i~~g--~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~---~~~~~~~~~ir~-~   96 (340)
T 1sxj_C           23 TLDEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELN---ASDDRGIDVVRN-Q   96 (340)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEEC---TTSCCSHHHHHT-H
T ss_pred             cHHHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEc---CcccccHHHHHH-H
Confidence            3456889999999998888754  23338899999999999999999875322 211111110   111112221111 1


Q ss_pred             HHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHh---cCCCCCcCcccccccC----------CC
Q 045345          191 LSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESL---AGKHEWFDEHLLMTHG----------VD  255 (445)
Q Consensus       191 l~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~~~~vl~t~~----------~~  255 (445)
                      +..+.....               .+.+.+-++|+|+++..  ...+.+   +........-++.+..          ..
T Consensus        97 i~~~~~~~~---------------~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~  161 (340)
T 1sxj_C           97 IKDFASTRQ---------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQC  161 (340)
T ss_dssp             HHHHHHBCC---------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHhhcc---------------cCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhc
Confidence            111110000               01134678999998642  222222   2111110111111111          12


Q ss_pred             ceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          256 EVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       256 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                      ..+.+.+++.++..+.+...+-......  ..+....+++.++|.+--+
T Consensus       162 ~~~~~~~l~~~~~~~~l~~~~~~~~~~i--~~~~~~~i~~~s~G~~r~~  208 (340)
T 1sxj_C          162 TRFRFQPLPQEAIERRIANVLVHEKLKL--SPNAEKALIELSNGDMRRV  208 (340)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCCB--CHHHHHHHHHHHTTCHHHH
T ss_pred             eeEeccCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHH
Confidence            3688999999999888876652222111  1345778999999998754

>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=8.1e-06  Score=78.43  Aligned_cols=172  Identities=13%  Similarity=0.092  Sum_probs=94.7

Q ss_pred             cccccccccchhHHHHHhhhcc----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEK  180 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~  180 (445)
                      ....+++|.+..++.|...+..          .....+-|.|+|++|+|||+||+++++.....|-   .+. ....   
T Consensus        48 ~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~---~v~-~~~l---  120 (355)
T 2qp9_X           48 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFF---SVS-SSDL---  120 (355)
T ss_dssp             CCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEE---EEE-HHHH---
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEE---Eee-HHHH---
Confidence            3456799999999999876621          1112345789999999999999999997644321   111 1111   


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCcChhhhHHH-HHHHHccCcEEEEEcCCCCHH-------------HHHHhc----CCCC
Q 045345          181 GGLICLQKQLLSELLKLPDTSTWNVYDGLKM-IGSRLRYRKVLLIVDAAFDLK-------------QLESLA----GKHE  242 (445)
Q Consensus       181 ~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~~-------------~l~~l~----~~~~  242 (445)
                                .....       ......... +......++.+|+||+++...             ....++    +...
T Consensus       121 ----------~~~~~-------g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~  183 (355)
T 2qp9_X          121 ----------VSKWM-------GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN  183 (355)
T ss_dssp             ----------HSCC----------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC-
T ss_pred             ----------hhhhc-------chHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccc
Confidence                      10000       011111222 222234578999999997431             112221    1000


Q ss_pred             -CcCccccccc------------CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCC-ChHHHHHHH
Q 045345          243 -WFDEHLLMTH------------GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGG-LPLALKVLG  308 (445)
Q Consensus       243 -~~~~~vl~t~------------~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~G-lPLal~~~~  308 (445)
                       ..+..++.++            +....+.++..+.++-.+++..++........  ......|++.+.| .+-.|..+.
T Consensus       184 ~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~--~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          184 DSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLT--KEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             --CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCC--HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             cCCCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCC--HHHHHHHHHHcCCCCHHHHHHHH
Confidence             0011122111            34466789999999999999877633221111  2345678888887 454555554

>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=98.22  E-value=1.2e-05  Score=76.07  Aligned_cols=51  Identities=18%  Similarity=0.092  Sum_probs=41.9

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ....+++|.+..++.+..++..+. ...++.+.|++|+|||++|+++++.+.
T Consensus        23 ~~~~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~~l~   73 (324)
T 3u61_B           23 STIDECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCHDVN   73 (324)
T ss_dssp             CSTTTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHHHTT
T ss_pred             CCHHHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            345779999999999999988532 235788899999999999999998763

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.20  E-value=1.7e-05  Score=76.38  Aligned_cols=162  Identities=15%  Similarity=0.118  Sum_probs=91.7

Q ss_pred             ccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhcc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEK  180 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~  180 (445)
                      .-.++.|.+...++|.+.+..           +-...+-|.++|++|+|||.||+++++.....|-.   +. .......
T Consensus       146 ~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~---v~-~s~l~sk  221 (405)
T 4b4t_J          146 TYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIR---VS-GAELVQK  221 (405)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEE---EE-GGGGSCS
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceE---EE-hHHhhcc
Confidence            346788999999988775531           22234568899999999999999999987655421   11 1111100


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCCcChhhhH-HHHHHHHccCcEEEEEcCCCCHH----------------HHHHhc----C
Q 045345          181 GGLICLQKQLLSELLKLPDTSTWNVYDGL-KMIGSRLRYRKVLLIVDAAFDLK----------------QLESLA----G  239 (445)
Q Consensus       181 ~~~~~l~~~il~~l~~~~~~~~~~~~~~~-~~l~~~l~~~~~LlVlDdv~~~~----------------~l~~l~----~  239 (445)
                                          ........+ ..+...-...|++|+||+++...                .+..++    +
T Consensus       222 --------------------~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg  281 (405)
T 4b4t_J          222 --------------------YIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDG  281 (405)
T ss_dssp             --------------------STTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHT
T ss_pred             --------------------ccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhc
Confidence                                001111111 12222234678999999987320                122221    1


Q ss_pred             CCCC--------------cCcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCC-CchHHHHHHHHHHHHhCCCh
Q 045345          240 KHEW--------------FDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQ-PWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       240 ~~~~--------------~~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~GlP  301 (445)
                      ....              +|..++...+.+..+.++..+.++-.++|..+.-+-.. ...+    ...|++.+.|.-
T Consensus       282 ~~~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd----l~~lA~~t~G~S  354 (405)
T 4b4t_J          282 FETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN----LRKVAEKMNGCS  354 (405)
T ss_dssp             TTCCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC----HHHHHHHCCSCC
T ss_pred             cCCCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHCCCCC
Confidence            1110              02333333356678999999999999999877633221 1112    355777777654

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.20  E-value=2.2e-06  Score=80.69  Aligned_cols=47  Identities=23%  Similarity=0.281  Sum_probs=36.2

Q ss_pred             cccccchhHHHHHhhhcc-------------CCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          115 DLVGMDSCWNTLRFLMDK-------------EPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~-------------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++|.+..++.|..++..             .......+.|+|++|+|||+||+.+++.+
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l   91 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLL   91 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            588998888888765531             02234568899999999999999998865

>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=1.1e-05  Score=80.38  Aligned_cols=48  Identities=15%  Similarity=0.190  Sum_probs=40.0

Q ss_pred             cccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+.+|||+.+++.+...+....  ..-+.|+|++|+|||+||+.++..+.
T Consensus       179 ld~iiGr~~~i~~l~~~l~r~~--~~~~LL~G~pG~GKT~la~~la~~l~  226 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQQII  226 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHHHHH
T ss_pred             CCCccCcHHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            3569999999999999987532  33567999999999999999998863

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.11  E-value=4.6e-05  Score=69.50  Aligned_cols=52  Identities=25%  Similarity=0.300  Sum_probs=37.9

Q ss_pred             cccccccccchhHHHHHhhhcc--C--------CCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK--E--------PYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~--~--------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ....+++|.+..++++..++..  .        ....+-+.|+|++|+||||||+.+++...
T Consensus         9 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~   70 (257)
T 1lv7_A            9 TTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK   70 (257)
T ss_dssp             CCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC
Confidence            3456799999888877665431  0        01133588999999999999999998764

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.10  E-value=2e-05  Score=76.99  Aligned_cols=55  Identities=25%  Similarity=0.252  Sum_probs=41.7

Q ss_pred             cccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ....++.|.+...++|.+.+..           +-...+-|.++|+||+|||.||++++......|
T Consensus       178 ~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f  243 (434)
T 4b4t_M          178 ETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATF  243 (434)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE
T ss_pred             CChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCE
Confidence            3457789999999988765321           222356788999999999999999999765543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.09  E-value=3.2e-05  Score=75.67  Aligned_cols=53  Identities=25%  Similarity=0.302  Sum_probs=40.7

Q ss_pred             cccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          113 FKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      -.++.|.+..+++|.+.+..           +-...+=|.++|++|+|||.||+++++.....|
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~  243 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANF  243 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCE
Confidence            46788999998888775531           222356788999999999999999999875543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.08  E-value=3.2e-05  Score=75.55  Aligned_cols=160  Identities=15%  Similarity=0.124  Sum_probs=90.0

Q ss_pred             ccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCC
Q 045345          114 KDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGG  182 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~  182 (445)
                      .++.|.+...++|.+.+..           +-...+-|.++|++|+|||.||+++++.....|-.   +. ...+...  
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~---vs-~s~L~sk--  282 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIR---VI-GSELVQK--  282 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEE---EE-GGGGCCC--
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEE---EE-hHHhhcc--
Confidence            5688999999888775421           22335678899999999999999999987654421   11 1111000  


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcChhhhH-HHHHHHHccCcEEEEEcCCCCHH----------------H----HHHhcCCC
Q 045345          183 LICLQKQLLSELLKLPDTSTWNVYDGL-KMIGSRLRYRKVLLIVDAAFDLK----------------Q----LESLAGKH  241 (445)
Q Consensus       183 ~~~l~~~il~~l~~~~~~~~~~~~~~~-~~l~~~l~~~~~LlVlDdv~~~~----------------~----l~~l~~~~  241 (445)
                                        ........+ ..+...-...+++|+||+++...                .    +..+-+..
T Consensus       283 ------------------~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  344 (467)
T 4b4t_H          283 ------------------YVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFD  344 (467)
T ss_dssp             ------------------SSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSC
T ss_pred             ------------------cCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccC
Confidence                              001111111 22223334678999999986320                1    11111111


Q ss_pred             CC--------------cCcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCC-CchHHHHHHHHHHHHhCCCh
Q 045345          242 EW--------------FDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQ-PWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       242 ~~--------------~~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~GlP  301 (445)
                      ..              ++..++...|.+..+.++..+.++-.++|..+.-+-.. ...+    ...|++.+.|.-
T Consensus       345 ~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvd----l~~LA~~T~GfS  415 (467)
T 4b4t_H          345 PRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIR----WELISRLCPNST  415 (467)
T ss_dssp             CTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHHCCSCC
T ss_pred             CCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCC----HHHHHHHCCCCC
Confidence            10              02222222345677899999999999999877633221 1112    345677777753

>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=98.02  E-value=8.4e-05  Score=70.67  Aligned_cols=170  Identities=16%  Similarity=0.089  Sum_probs=87.1

Q ss_pred             chhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHH-----
Q 045345          120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSEL-----  194 (445)
Q Consensus       120 ~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l-----  194 (445)
                      +...+.+...+..+. -...+.++|++|+|||++|+.+++.+....... ...        .+.......+....     
T Consensus         8 ~~~~~~l~~~i~~~~-~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~-~~~--------c~~c~~c~~~~~~~~~d~~   77 (334)
T 1a5t_A            8 RPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQG-HKS--------CGHCRGCQLMQAGTHPDYY   77 (334)
T ss_dssp             HHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT-TBC--------CSCSHHHHHHHHTCCTTEE
T ss_pred             HHHHHHHHHHHHcCC-cceeEEEECCCCchHHHHHHHHHHHHhCCCCCC-CCC--------CCCCHHHHHHhcCCCCCEE
Confidence            344566666665332 245788999999999999999998753322100 000        00000000010000     


Q ss_pred             -hCCCC-CCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HHHHHh---cCCCCCc---------Cccccccc-
Q 045345          195 -LKLPD-TSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQLESL---AGKHEWF---------DEHLLMTH-  252 (445)
Q Consensus       195 -~~~~~-~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~---------~~~vl~t~-  252 (445)
                       ..... ......+. +..+.+.+     .+++-++|+|+++..  +..+.+   +......         ...++.|. 
T Consensus        78 ~~~~~~~~~~~~i~~-ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~  156 (334)
T 1a5t_A           78 TLAPEKGKNTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLR  156 (334)
T ss_dssp             EECCCTTCSSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             EEeccccCCCCCHHH-HHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHh
Confidence             00000 01111222 12222222     246789999999843  222222   3222211         11122111 


Q ss_pred             CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          253 GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       253 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                      .....+++++++.++..+.+....   .. +   .+.+..+++.++|.|..+..+
T Consensus       157 SRc~~~~~~~~~~~~~~~~L~~~~---~~-~---~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          157 SRCRLHYLAPPPEQYAVTWLSREV---TM-S---QDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHC---CC-C---HHHHHHHHHHTTTCHHHHHHT
T ss_pred             hcceeeeCCCCCHHHHHHHHHHhc---CC-C---HHHHHHHHHHcCCCHHHHHHH
Confidence            123568999999999999998765   11 1   244677999999999766443

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=98.02  E-value=5.2e-06  Score=76.38  Aligned_cols=52  Identities=25%  Similarity=0.259  Sum_probs=38.8

Q ss_pred             ccccccccchhHHHHHhhhcc----------CCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ....++|.+..++.+.+.+..          +....+-+.|+|++|+|||+||+++++....
T Consensus         9 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~   70 (268)
T 2r62_A            9 RFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV   70 (268)
T ss_dssp             CSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC
Confidence            446799999998888776541          1111234779999999999999999987643

>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=98.02  E-value=2.8e-05  Score=83.46  Aligned_cols=47  Identities=15%  Similarity=0.198  Sum_probs=39.6

Q ss_pred             cccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|||+.+++.+...|....  .+.+.|+|++|+|||+||+.+++.+
T Consensus       169 ld~viGr~~~i~~l~~~l~~~~--~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             CcccCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHHH
Confidence            3568999999999999887532  3456799999999999999999875

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.01  E-value=3.1e-05  Score=75.57  Aligned_cols=54  Identities=24%  Similarity=0.299  Sum_probs=41.0

Q ss_pred             ccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ...++.|.+...++|.+.+..           +-...+-|.++|++|+|||.||+++++.....|
T Consensus       170 ~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~  234 (428)
T 4b4t_K          170 TYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAF  234 (428)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEE
T ss_pred             CHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            346789999998888775531           222355688999999999999999999875544

>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=97.98  E-value=2.2e-05  Score=73.55  Aligned_cols=49  Identities=20%  Similarity=0.356  Sum_probs=37.8

Q ss_pred             ccccccchhHHHHHhhhcc------------CCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDK------------EPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~------------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|.+..++.+...+..            .......+.|+|++|+|||+||+.+++.+.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4589999999888876653            011234677999999999999999998764

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.97  E-value=6.8e-05  Score=72.57  Aligned_cols=55  Identities=25%  Similarity=0.346  Sum_probs=41.5

Q ss_pred             cccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ....++.|.+...++|.+.+..           +-.-.+=|.++|++|+|||.||++++......|
T Consensus       179 v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~f  244 (437)
T 4b4t_I          179 ESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATF  244 (437)
T ss_dssp             CCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEE
T ss_pred             CcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCE
Confidence            3446788999998888775431           112346788999999999999999999876554

>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=97.96  E-value=5.8e-05  Score=75.40  Aligned_cols=50  Identities=24%  Similarity=0.268  Sum_probs=39.8

Q ss_pred             ccccccchhHHHHHhhhccC-----------CCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          114 KDLVGMDSCWNTLRFLMDKE-----------PYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++|.+..+++|.+++...           ....+-|.|+|++|+|||+||+++++....
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~  264 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA  264 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSS
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCC
Confidence            56899999999998877531           223456889999999999999999987643

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.95  E-value=3.1e-05  Score=67.80  Aligned_cols=61  Identities=16%  Similarity=0.115  Sum_probs=39.9

Q ss_pred             ccccccccch----hHHHHHhhhccCCCC--eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          112 IFKDLVGMDS----CWNTLRFLMDKEPYG--VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       112 ~~~~~vGr~~----~l~~l~~~L~~~~~~--~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ...+|++.+.    .++.+.+++......  .+.+.|+|++|+|||+||+++++........++++.
T Consensus        23 ~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~   89 (202)
T 2w58_A           23 SLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVY   89 (202)
T ss_dssp             CTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            3456776553    344455555433221  267889999999999999999988655444455554

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.92  E-value=7.1e-05  Score=79.42  Aligned_cols=47  Identities=17%  Similarity=0.161  Sum_probs=39.6

Q ss_pred             cccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...++||+.+++.+.+.|...  ...-+.|+|++|+|||+||+.++..+
T Consensus       185 ~d~~iGr~~~i~~l~~~l~~~--~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          185 IDPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCccCCHHHHHHHHHHHhcc--CCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            356899999999999988754  23456799999999999999999875

>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=97.89  E-value=3.9e-05  Score=65.86  Aligned_cols=49  Identities=20%  Similarity=0.232  Sum_probs=33.1

Q ss_pred             ccccc----cchhHHHHHhhhccC-CCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVG----MDSCWNTLRFLMDKE-PYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vG----r~~~l~~l~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ++|++    ....++.+..++..- ......++|+|++|+||||||+.++..+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           10 DTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             SSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             ccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45654    334444555544431 12346889999999999999999998764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.86  E-value=8.6e-05  Score=78.74  Aligned_cols=47  Identities=15%  Similarity=0.207  Sum_probs=39.7

Q ss_pred             cccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|||+.+++.+...|....  ..-+.|+|++|+|||++|+.+++.+
T Consensus       179 ld~iiG~~~~i~~l~~~l~~~~--~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSRRT--KNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSS--SCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCCccCchHHHHHHHHHHhCCC--CCCeEEECCCCCCHHHHHHHHHHHH
Confidence            3569999999999999987532  3346799999999999999999875

>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=97.84  E-value=0.00016  Score=71.77  Aligned_cols=164  Identities=16%  Similarity=0.109  Sum_probs=88.7

Q ss_pred             ccccccccchhHHHHHhhhcc--C--------CCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK--E--------PYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKG  181 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~--~--------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~  181 (445)
                      ...+++|.+..++++.+....  .        ..-.+-|.|+|++|+|||+||++++......|-   .+. ........
T Consensus        14 ~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~---~is-~~~~~~~~   89 (476)
T 2ce7_A           14 TFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFF---HIS-GSDFVELF   89 (476)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEE---EEE-GGGTTTCC
T ss_pred             CHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCee---eCC-HHHHHHHH
Confidence            456799999988877765432  1        011234789999999999999999987643331   111 11111100


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH----------------HHHHHhcCC-----
Q 045345          182 GLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL----------------KQLESLAGK-----  240 (445)
Q Consensus       182 ~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~l~~l~~~-----  240 (445)
                                         ...........+.....+.+.+|+||+++..                ..+..++..     
T Consensus        90 -------------------~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~  150 (476)
T 2ce7_A           90 -------------------VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFD  150 (476)
T ss_dssp             -------------------TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSC
T ss_pred             -------------------hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccC
Confidence                               0000111222344444567899999998542                112222210     


Q ss_pred             --CCCc-----------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCCh
Q 045345          241 --HEWF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       241 --~~~~-----------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlP  301 (445)
                        ....           +..++...+.+..+.++..+.++-.+++..++.......+.   ....+++.+.|+.
T Consensus       151 ~~~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v---~l~~la~~t~G~s  221 (476)
T 2ce7_A          151 SKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDV---NLEIIAKRTPGFV  221 (476)
T ss_dssp             GGGTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC---CHHHHHHTCTTCC
T ss_pred             CCCCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchh---hHHHHHHhcCCCc
Confidence              0000           12222222445578899999888888887666332211110   0344777788877

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.77  E-value=0.00033  Score=63.66  Aligned_cols=52  Identities=27%  Similarity=0.349  Sum_probs=36.3

Q ss_pred             cccccccccchhHHHHHhhhcc--C-------C-CCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK--E-------P-YGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~--~-------~-~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ....+++|.+....++..+...  .       + .-.+-+.|+|++|+||||||+.++....
T Consensus        13 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           13 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3456789988777766554321  0       0 0012288999999999999999998764

>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=97.76  E-value=0.00019  Score=67.08  Aligned_cols=134  Identities=16%  Similarity=0.072  Sum_probs=76.2

Q ss_pred             ccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc---cCccccceeeehhhhhhc-cCCHHHHHHHHHHH
Q 045345          118 GMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS---SHEFEASSFLANVREISE-KGGLICLQKQLLSE  193 (445)
Q Consensus       118 Gr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~---~~~f~~~~~~~~~~~~~~-~~~~~~l~~~il~~  193 (445)
                      |-+..++.|...+..+.  .+...++|++|+|||++|..+++..   ...++....+.    .+. ..++..+ +++...
T Consensus         1 g~~~~~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~----~~~~~~~id~i-r~li~~   73 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEID----PEGENIGIDDI-RTIKDF   73 (305)
T ss_dssp             ---CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEEC----CSSSCBCHHHH-HHHHHH
T ss_pred             ChHHHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEc----CCcCCCCHHHH-HHHHHH
Confidence            44566778888877543  6788999999999999999998742   11223333332    111 1222222 122222


Q ss_pred             HhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCC--HHHHHHhc---CCC-CC--c------CcccccccCCCceEE
Q 045345          194 LLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFD--LKQLESLA---GKH-EW--F------DEHLLMTHGVDEVHK  259 (445)
Q Consensus       194 l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~l~~l~---~~~-~~--~------~~~vl~t~~~~~~~~  259 (445)
                      ....+                 ..+++-++|+|+++.  ....+.++   ..+ ..  +      ...++.|.... .++
T Consensus        74 ~~~~p-----------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~  135 (305)
T 2gno_A           74 LNYSP-----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFR  135 (305)
T ss_dssp             HTSCC-----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEE
T ss_pred             Hhhcc-----------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEe
Confidence            21110                 023567899999974  23333332   222 11  1      22444444444 899


Q ss_pred             cCCCCHHHHHHHHHHhh
Q 045345          260 LKVLHDDEALQLFCKQA  276 (445)
Q Consensus       260 l~~L~~~ea~~Lf~~~a  276 (445)
                      +.+++.++..+.+....
T Consensus       136 f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          136 VVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             EECCCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998776

>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=97.75  E-value=0.00016  Score=76.02  Aligned_cols=163  Identities=15%  Similarity=0.104  Sum_probs=91.9

Q ss_pred             ccccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhh-hc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREI-SE  179 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~-~~  179 (445)
                      ...++.|.+..+++|.+.+..           +-...+-|.++|++|+|||+||+++++....+|   +.+. ..+. +.
T Consensus       202 ~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~---~~v~-~~~l~sk  277 (806)
T 3cf2_A          202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF---FLIN-GPEIMSK  277 (806)
T ss_dssp             CGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEE---EEEE-HHHHHSS
T ss_pred             ChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeE---EEEE-hHHhhcc
Confidence            346788999999888776431           112256788999999999999999998765443   2222 1111 11


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH-------------HHHHhcCC----CC
Q 045345          180 KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK-------------QLESLAGK----HE  242 (445)
Q Consensus       180 ~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~l~~l~~~----~~  242 (445)
                      ..                    ..........+.......+.+|+||+++...             .+..++..    ..
T Consensus       278 ~~--------------------gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~  337 (806)
T 3cf2_A          278 LA--------------------GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQ  337 (806)
T ss_dssp             CT--------------------THHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCG
T ss_pred             cc--------------------hHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccc
Confidence            00                    0111112222333445688999999986421             11222110    00


Q ss_pred             C--------------cCcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCC-CCchHHHHHHHHHHHHhCCChH
Q 045345          243 W--------------FDEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTN-QPWKEYEQLSKYVVKYSGGLPL  302 (445)
Q Consensus       243 ~--------------~~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~~i~~~~~GlPL  302 (445)
                      .              ++..+....+.+..++++..+.++-.++|..+..+.. ....+    ...|++.+.|.--
T Consensus       338 ~~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvd----l~~lA~~T~Gfsg  408 (806)
T 3cf2_A          338 RAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHVG  408 (806)
T ss_dssp             GGCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCC----HHHHHHHCCSCCH
T ss_pred             cCCEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhcCCCCH
Confidence            0              0222222224556789999999999999987763321 11112    4457777777643

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.66  E-value=0.00098  Score=61.39  Aligned_cols=54  Identities=26%  Similarity=0.334  Sum_probs=38.1

Q ss_pred             CccccccccccchhHHHHHhhhcc--C-------C-CCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          109 KSEIFKDLVGMDSCWNTLRFLMDK--E-------P-YGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       109 ~~~~~~~~vGr~~~l~~l~~~L~~--~-------~-~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +....++++|.+....++..+...  .       + .-.+-+.|+|++|+||||||+.++....
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC
Confidence            344567899999887777654431  0       0 0012288999999999999999998764

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.63  E-value=2.7e-05  Score=64.44  Aligned_cols=47  Identities=21%  Similarity=0.258  Sum_probs=35.8

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +++|++..++.+.+.+..-.....-|.|+|++|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            58999999999988775422222356799999999999999998864

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.57  E-value=0.00014  Score=68.09  Aligned_cols=50  Identities=24%  Similarity=0.319  Sum_probs=38.3

Q ss_pred             ccccccchhHHHHHhhhccC------CC-CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          114 KDLVGMDSCWNTLRFLMDKE------PY-GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~------~~-~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++|.+..++.+...+...      .. ....+.|+|++|+|||++|+.++.....
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~   73 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD   73 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHS
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcC
Confidence            35789999988887776531      11 1357899999999999999999987643

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=97.56  E-value=9e-05  Score=73.64  Aligned_cols=52  Identities=21%  Similarity=0.293  Sum_probs=39.2

Q ss_pred             ccccccccchhHHHHHhhhc---cCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLMD---KEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~---~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ....++|.+..++.+..++.   .+....+-+.++|++|+|||+||+++++.+..
T Consensus        35 ~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~   89 (456)
T 2c9o_A           35 AASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGS   89 (456)
T ss_dssp             EETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCT
T ss_pred             chhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCC
Confidence            35789999998877655443   22222356889999999999999999998753

>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=97.52  E-value=0.00027  Score=62.45  Aligned_cols=33  Identities=21%  Similarity=0.078  Sum_probs=25.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+++|.|++|+||||||..++.   ..-..++|+.
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~---~~~~~v~~i~   52 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL---LSGKKVAYVD   52 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH---HHCSEEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH---HcCCcEEEEE
Confidence            45899999999999999999987   1223455554

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.49  E-value=0.0022  Score=58.91  Aligned_cols=51  Identities=22%  Similarity=0.229  Sum_probs=32.5

Q ss_pred             cccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          113 FKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      -.++.|.+...++|...+..           +-.-.+-++|+|++|+||||||+.++.....
T Consensus         9 ~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~   70 (274)
T 2x8a_A            9 WADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGL   70 (274)
T ss_dssp             ---CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCC
Confidence            34567777777766553210           0001122899999999999999999987543

>2js7_A Myeloid differentiation primary response protein MYD88; MYD88_human, TIR domain, TOLL like receptor adaptor domain, innate immune signaling; NMR {Homo sapiens} PDB: 2z5v_A

Probab=97.49  E-value=1.1e-05  Score=67.84  Aligned_cols=35  Identities=20%  Similarity=0.255  Sum_probs=29.3

Q ss_pred             CCCCChhhHHHHHHHHhch-hcCCCccEEEeeeccCCC
Q 045345            1 NYAYSTWCLDELVEIVELK-STNGHQQLIFPIFYDVEP   37 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~-~~~~~~~~v~Pvfy~v~p   37 (445)
                      ||++|.||+.|+..+++|. +.++  ..||||||+.-+
T Consensus        82 ~y~~S~wc~~El~~a~~~~~~~~~--~~vIpV~~~~~~  117 (160)
T 2js7_A           82 DYLQSKECDFQTKFALSLSPGAHQ--KRLIPIKYKAMK  117 (160)
T ss_dssp             HHHHSHHHHHHHHHHHHHCTTHHH--HTEEEEESSCCC
T ss_pred             chhcCHHHHHHHHHHHHHHHccCC--CEEEEEEEcccc
Confidence            5899999999999999976 4445  789999998643

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.45  E-value=0.00042  Score=69.15  Aligned_cols=52  Identities=29%  Similarity=0.408  Sum_probs=37.6

Q ss_pred             cccccccccchhHHHHHhhhcc--CC--------CCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK--EP--------YGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~--~~--------~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ....+++|.+..+.++.++...  ..        .-.+-+.|+|++|+|||+||++++....
T Consensus        28 ~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~   89 (499)
T 2dhr_A           28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   89 (499)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             CCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3456799999887777665431  10        0122388999999999999999998764

>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=97.42  E-value=0.00023  Score=66.34  Aligned_cols=72  Identities=15%  Similarity=0.171  Sum_probs=45.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL  216 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l  216 (445)
                      .+++.|+|++|+|||+||.+++..   .-..+.|+..-  ..+.             +.    ....+.+.....+.+.+
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~---~G~~VlyIs~~--~eE~-------------v~----~~~~~le~~l~~i~~~l  180 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA---LGGKDKYATVR--FGEP-------------LS----GYNTDFNVFVDDIARAM  180 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH---HHTTSCCEEEE--BSCS-------------ST----TCBCCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh---CCCCEEEEEec--chhh-------------hh----hhhcCHHHHHHHHHHHH
Confidence            357789999999999999999876   22234565520  0111             00    00134455555566666


Q ss_pred             ccCcEEEEEcCCCCH
Q 045345          217 RYRKVLLIVDAAFDL  231 (445)
Q Consensus       217 ~~~~~LlVlDdv~~~  231 (445)
                      ...+ +||+|++...
T Consensus       181 ~~~~-LLVIDsI~aL  194 (331)
T 2vhj_A          181 LQHR-VIVIDSLKNV  194 (331)
T ss_dssp             HHCS-EEEEECCTTT
T ss_pred             hhCC-EEEEeccccc
Confidence            6666 9999998653

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.41  E-value=0.00013  Score=67.87  Aligned_cols=27  Identities=26%  Similarity=0.380  Sum_probs=23.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+.+.|+|++|+|||+||+++++.+..
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~l~~   62 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRKMGI   62 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            467889999999999999999998743

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.39  E-value=0.00018  Score=59.63  Aligned_cols=27  Identities=22%  Similarity=0.257  Sum_probs=23.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...++|+|++|+|||||++.++.....
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~   62 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALE   62 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            458899999999999999999987643

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.38  E-value=0.00023  Score=66.58  Aligned_cols=48  Identities=21%  Similarity=0.207  Sum_probs=37.4

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..++|++..+..+.+.+..-......|.|+|++|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            358999999999988776422223456799999999999999998854

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.29  E-value=4.2e-05  Score=63.09  Aligned_cols=49  Identities=14%  Similarity=0.102  Sum_probs=34.4

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      -.++|++..++.+.+.+..-.....-|.|+|++|+|||++|+.+++...
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~   52 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT   52 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            3589999999988887654111223477999999999999999987543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.28  E-value=0.00035  Score=65.47  Aligned_cols=61  Identities=16%  Similarity=0.195  Sum_probs=38.4

Q ss_pred             ccccccccc----hhHHHHHhhhccCCC-CeEEEEEEccCCCchhHHHHHHHhhcc-Cccccceeee
Q 045345          112 IFKDLVGMD----SCWNTLRFLMDKEPY-GVRMIGICGMGGIGKTTLARVVYDLSS-HEFEASSFLA  172 (445)
Q Consensus       112 ~~~~~vGr~----~~l~~l~~~L~~~~~-~~~vv~I~G~gGiGKTtLA~~~~~~~~-~~f~~~~~~~  172 (445)
                      ...+|++.+    ..++.+.+++..... ....+.|+|++|+|||+||.++++... .....+.++.
T Consensus       122 tfd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~  188 (308)
T 2qgz_A          122 HLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLH  188 (308)
T ss_dssp             CGGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEE
T ss_pred             CHhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence            345676543    234444555553222 246788999999999999999998765 4333344444

>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=97.26  E-value=0.00037  Score=66.34  Aligned_cols=99  Identities=17%  Similarity=0.098  Sum_probs=56.5

Q ss_pred             HHHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC---
Q 045345          124 NTLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD---  199 (445)
Q Consensus       124 ~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~---  199 (445)
                      ..|...|. .+-....++.|.|++|+||||||.+++......-..++|+.    ........     .+..++....   
T Consensus        47 ~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId----~E~s~~~~-----ra~rlgv~~~~l~  117 (356)
T 3hr8_A           47 LAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFID----AEHALDPV-----YAKNLGVDLKSLL  117 (356)
T ss_dssp             HHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE----SSCCCCHH-----HHHHHTCCGGGCE
T ss_pred             HHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEe----cccccchH-----HHHHcCCchhhhh
Confidence            34555555 32233579999999999999999999876543323456665    22212221     2333332111   


Q ss_pred             -CCCcChhhhHHHHHHHHc-cCcEEEEEcCCCCH
Q 045345          200 -TSTWNVYDGLKMIGSRLR-YRKVLLIVDAAFDL  231 (445)
Q Consensus       200 -~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~  231 (445)
                       ....+.++....+...++ .+.-++|+|.+...
T Consensus       118 i~~~~~~e~~l~~~~~l~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          118 ISQPDHGEQALEIVDELVRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             EECCSSHHHHHHHHHHHHHTSCCSEEEEECTTTC
T ss_pred             hhhccCHHHHHHHHHHHhhhcCCCeEEehHhhhh
Confidence             123345555555555544 45679999988543

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A

Probab=97.15  E-value=3.3e-05  Score=66.07  Aligned_cols=33  Identities=21%  Similarity=0.352  Sum_probs=24.5

Q ss_pred             CCCCChhhHHHHHHHHhch-hcCCCccEEEeeeccC
Q 045345            1 NYAYSTWCLDELVEIVELK-STNGHQQLIFPIFYDV   35 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~-~~~~~~~~v~Pvfy~v   35 (445)
                      ||++|.||+.||..++.+. ++++  ..||||||+-
T Consensus       101 ~yl~S~wc~~El~~a~~~~~~~~~--~~vIpV~~~~  134 (178)
T 2j67_A          101 NFVQNEWCHYEFYFAHHNLFHENS--DHIILILLEP  134 (178)
T ss_dssp             HHHHHTGGGTHHHHTTCC---------CEEEEESSC
T ss_pred             cccccchHHHHHHHHHHHHHhcCC--CEEEEEEecC
Confidence            6899999999999999754 5556  7899999973

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.11  E-value=0.00088  Score=70.93  Aligned_cols=49  Identities=20%  Similarity=0.268  Sum_probs=38.2

Q ss_pred             cccccccchhHHHHHhhhccCC-------CCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEP-------YGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~-------~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...++|.+..++.+...+....       .....+.++|++|+|||+||+++++..
T Consensus       490 ~~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          490 HSRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             HTTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hCcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568999999988877665311       112368899999999999999999876

>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=97.10  E-value=0.00034  Score=63.96  Aligned_cols=50  Identities=22%  Similarity=0.155  Sum_probs=34.7

Q ss_pred             cccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...++|.+..+..+.+.+..-......|.|+|++|+|||+||+.+++...
T Consensus         5 f~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            5 KDNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             -----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             cccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            35689999999888776653111234677999999999999999998653

>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=97.08  E-value=0.002  Score=61.33  Aligned_cols=37  Identities=16%  Similarity=0.118  Sum_probs=27.8

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|..+|..+-....++.|+|++|+||||||..++...
T Consensus       110 ~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~  146 (343)
T 1v5w_A          110 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA  146 (343)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             hHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4455554333345799999999999999999998763

>1fyx_A TOLL-like receptor 2; beta-alpha-beta fold, signaling protein; 2.80A {Homo sapiens} SCOP: c.23.2.1 PDB: 1fyw_A 1o77_A

Probab=97.08  E-value=2e-05  Score=65.49  Aligned_cols=38  Identities=24%  Similarity=0.284  Sum_probs=30.1

Q ss_pred             CCCCChhhHHHHHHHHh-chhcCCCccEEEeeecc-CCCccc
Q 045345            1 NYAYSTWCLDELVEIVE-LKSTNGHQQLIFPIFYD-VEPTVV   40 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~-~~~~~~~~~~v~Pvfy~-v~ps~v   40 (445)
                      ||++|.||+.||..++. |.+.++  ..||||||+ +++..+
T Consensus        71 ~y~~S~wc~~El~~a~~~~~~~~~--~~vIpv~~~~i~~~~~  110 (149)
T 1fyx_A           71 NFVKSEWXKYELDFSHFRLFDENN--DAAILILLEPIEKKAI  110 (149)
T ss_dssp             HHHHHHTHHHHSCCSCCTTCGGGT--TCCEEEESSCCCTTTS
T ss_pred             chhccchHHHHHHHHHHHHHhcCC--CEEEEEEecCCChhhc
Confidence            58999999999999995 556666  789999995 555433

>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=96.91  E-value=0.0013  Score=69.80  Aligned_cols=49  Identities=18%  Similarity=0.159  Sum_probs=37.8

Q ss_pred             ccccccchhHHHHHhhhccC-------CCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKE-------PYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~-------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|.+..++.+...+...       ......+.++|++|+|||+||+.+++...
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~  513 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc
Confidence            46899999998887766421       11234788999999999999999998763

>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=96.91  E-value=0.0018  Score=57.97  Aligned_cols=36  Identities=17%  Similarity=0.080  Sum_probs=26.0

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|..+|..+-....+++|.|++|+|||||+..++..
T Consensus        12 ~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           12 ELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             HHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            344444322222459999999999999999999875

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens}

Probab=96.91  E-value=0.00026  Score=59.30  Aligned_cols=36  Identities=19%  Similarity=0.136  Sum_probs=30.3

Q ss_pred             CCC-CChhhHHHHHHHHhch-hcCCCccEEEeeeccCCCc
Q 045345            1 NYA-YSTWCLDELVEIVELK-STNGHQQLIFPIFYDVEPT   38 (445)
Q Consensus         1 ~ya-~s~wcl~el~~i~~~~-~~~~~~~~v~Pvfy~v~ps   38 (445)
                      ||+ +|.||+.|+..++.|. +.++  ..||||||.-.|.
T Consensus        78 ~y~~~S~wc~~El~~a~~~~~~~~~--~~vI~I~~~~~~~  115 (159)
T 1t3g_A           78 NYVVRRGWSIFELETRLRNMLVTGE--IKVILIECSELRG  115 (159)
T ss_dssp             HHHHTTTTHHHHHSHHHHHHHHTTS--SEEEEEECSCCCS
T ss_pred             chhhcChHHHHHHHHHHHHHHhcCC--CEEEEEEeccccc
Confidence            585 9999999999999987 5556  7999999986654

>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=96.87  E-value=0.012  Score=54.47  Aligned_cols=35  Identities=23%  Similarity=0.194  Sum_probs=26.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ..+++++|.+|+||||++..++..+...-..+.++
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~  132 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLV  132 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            57899999999999999999987654332233443

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.86  E-value=0.0028  Score=59.49  Aligned_cols=51  Identities=18%  Similarity=0.079  Sum_probs=34.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSE  193 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~  193 (445)
                      ..++.|.|.+|+||||||..++.....+-..++|+.      -..+...+...++..
T Consensus        68 G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s------lE~s~~~l~~R~~~~  118 (315)
T 3bh0_A           68 RNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS------LEMGKKENIKRLIVT  118 (315)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE------SSSCHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE------CCCCHHHHHHHHHHH
Confidence            458999999999999999999876433324455554      224555555555544

>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=96.83  E-value=0.0021  Score=60.64  Aligned_cols=48  Identities=19%  Similarity=0.091  Sum_probs=31.5

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc------cccceeee
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE------FEASSFLA  172 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~------f~~~~~~~  172 (445)
                      .|..+|..+-....++.|+|++|+|||+||..++......      -..++|+.
T Consensus        95 ~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~  148 (324)
T 2z43_A           95 ALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYID  148 (324)
T ss_dssp             HHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEE
T ss_pred             hHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEE
Confidence            3444443222234589999999999999999998764322      23456665

>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=96.80  E-value=0.0015  Score=60.66  Aligned_cols=83  Identities=13%  Similarity=0.129  Sum_probs=47.4

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCcc--ccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC----CCCcChhhh-HHH
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHEF--EASSFLANVREISEKGGLICLQKQLLSELLKLPD----TSTWNVYDG-LKM  211 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~----~~~~~~~~~-~~~  211 (445)
                      ++.|.|++|+||||||.+++......+  ..++|++    ........     .++.++...+    ....+.++. ...
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId----~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i  100 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYD----SEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDM  100 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEE----SSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEe----ccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHH
Confidence            789999999999999999887654432  3456765    22222221     2344432111    112344444 333


Q ss_pred             HHHH--H-ccCcEEEEEcCCCC
Q 045345          212 IGSR--L-RYRKVLLIVDAAFD  230 (445)
Q Consensus       212 l~~~--l-~~~~~LlVlDdv~~  230 (445)
                      +...  + .+++-+||+|-+..
T Consensus       101 ~~~l~~i~~~~~~lvVIDSI~a  122 (333)
T 3io5_A          101 VNQLDAIERGEKVVVFIDSLGN  122 (333)
T ss_dssp             HHHHHTCCTTCCEEEEEECSTT
T ss_pred             HHHHHHhhccCceEEEEecccc
Confidence            3222  2 35788999998754

>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=96.79  E-value=0.001  Score=63.85  Aligned_cols=48  Identities=25%  Similarity=0.260  Sum_probs=36.3

Q ss_pred             cccccchhHHHHHhhhc-------------cCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          115 DLVGMDSCWNTLRFLMD-------------KEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~-------------~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .++|.+..++.+...+.             ........+.|+|++|+|||++|+.+++...
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            46888888888877662             1111235688999999999999999998764

>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=96.76  E-value=0.00076  Score=57.41  Aligned_cols=26  Identities=27%  Similarity=0.405  Sum_probs=22.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+|.|.|++|+||||+|+.+...+..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~   29 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPE   29 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            47899999999999999999987643

>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=96.73  E-value=0.0015  Score=62.24  Aligned_cols=97  Identities=16%  Similarity=0.082  Sum_probs=52.6

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC----
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD----  199 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~----  199 (445)
                      .|..+|. .+-....++.|+|++|+||||||..++......-..++|+.    ........     ....++....    
T Consensus        48 ~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~----~E~~~~~~-----~a~~lG~~~~~l~i  118 (349)
T 2zr9_A           48 SLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFID----AEHALDPE-----YAKKLGVDTDSLLV  118 (349)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE----SSCCCCHH-----HHHHTTCCGGGCEE
T ss_pred             HHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE----CCCCcCHH-----HHHHcCCCHHHeEE
Confidence            4444554 22223468999999999999999999876543333456665    22212211     1222221100    


Q ss_pred             CCCcChhhhHHHHHHHHc-cCcEEEEEcCCCC
Q 045345          200 TSTWNVYDGLKMIGSRLR-YRKVLLIVDAAFD  230 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~  230 (445)
                      ....+.++....+....+ .++-+||+|.+..
T Consensus       119 ~~~~~~e~~l~~~~~l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          119 SQPDTGEQALEIADMLVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             ECCSSHHHHHHHHHHHHTTTCCSEEEEECGGG
T ss_pred             ecCCCHHHHHHHHHHHHhcCCCCEEEEcChHh
Confidence            112234444444444443 3567999998743

>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=96.73  E-value=0.0084  Score=55.85  Aligned_cols=28  Identities=25%  Similarity=0.278  Sum_probs=24.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...+++|+|++|+||||++..++..+..
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~  130 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVD  130 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHh
Confidence            3579999999999999999999887643

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.72  E-value=0.00076  Score=63.83  Aligned_cols=48  Identities=23%  Similarity=0.207  Sum_probs=38.9

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ..++|++..++.+...+..+    .-+.|+|++|+|||+||+.+++.....|
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~~~~~~   74 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKTMDLDF   74 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHHTTCCE
T ss_pred             cceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            45899999999888777643    3577999999999999999998765443

>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=96.72  E-value=0.003  Score=60.42  Aligned_cols=96  Identities=19%  Similarity=0.133  Sum_probs=52.7

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC----
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD----  199 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~----  199 (445)
                      .|..+|. .+-....++.|.|.+|+||||||..++......-..++|+.    ........     .+..++....    
T Consensus        61 ~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~----~E~s~~~~-----~a~~~g~d~~~l~i  131 (366)
T 1xp8_A           61 SLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID----AEHALDPV-----YARALGVNTDELLV  131 (366)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE----SSCCCCHH-----HHHHTTCCGGGCEE
T ss_pred             HHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEE----CCCChhHH-----HHHHcCCCHHHcee
Confidence            4444554 22223458899999999999999999876543333567776    22212211     1222221100    


Q ss_pred             CCCcChhhhHHHHHHHHc-cCcEEEEEcCCC
Q 045345          200 TSTWNVYDGLKMIGSRLR-YRKVLLIVDAAF  229 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  229 (445)
                      ....+.++....+....+ ...-+||+|.+.
T Consensus       132 ~~~~~~e~~l~~l~~l~~~~~~~lVVIDsl~  162 (366)
T 1xp8_A          132 SQPDNGEQALEIMELLVRSGAIDVVVVDSVA  162 (366)
T ss_dssp             ECCSSHHHHHHHHHHHHTTTCCSEEEEECTT
T ss_pred             ecCCcHHHHHHHHHHHHhcCCCCEEEEeChH
Confidence            112344555555555544 345689999874

>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=96.70  E-value=0.022  Score=55.54  Aligned_cols=29  Identities=21%  Similarity=0.257  Sum_probs=24.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...+|.++|.+|+||||++..++..+..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            36899999999999999999988765443

>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=96.67  E-value=0.0017  Score=61.96  Aligned_cols=48  Identities=25%  Similarity=0.269  Sum_probs=32.6

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .|..+|. .+-...+++.|.|.+|+||||||..++......-..++|++
T Consensus        50 ~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid   98 (356)
T 1u94_A           50 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   98 (356)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            4444454 22223468999999999999999999876543333566766

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.65  E-value=0.0017  Score=56.61  Aligned_cols=43  Identities=26%  Similarity=0.250  Sum_probs=31.8

Q ss_pred             cchhHHHHHhhhcc-CCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          119 MDSCWNTLRFLMDK-EPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       119 r~~~l~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |+..++.|.+.+.. ......+|+|.|++|+|||||++.+...+
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            44556666665543 22345799999999999999999998754

>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=96.63  E-value=0.0068  Score=61.38  Aligned_cols=52  Identities=17%  Similarity=0.325  Sum_probs=37.6

Q ss_pred             ccccccchhHHHHHhhhcc----CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          114 KDLVGMDSCWNTLRFLMDK----EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      .+.+|.+.....+...+..    .......+.|+|++|+||||||+.++......|
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~  136 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKF  136 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCEE
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCCe
Confidence            4578888877776543321    112356899999999999999999998775444

>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=96.62  E-value=0.0012  Score=62.80  Aligned_cols=50  Identities=22%  Similarity=0.222  Sum_probs=35.7

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .....++|.+...+.+...+....  ..-+.|+|++|+|||+||+.+++...
T Consensus        21 ~~f~~i~G~~~~~~~l~~~~~~~~--~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           21 FPFSAIVGQEDMKLALLLTAVDPG--IGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCGG--GCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCchhccChHHHHHHHHHHhhCCC--CceEEEECCCCccHHHHHHHHHHhCc
Confidence            345679999886666544333211  22388999999999999999998754

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.60  E-value=0.0018  Score=56.71  Aligned_cols=40  Identities=23%  Similarity=0.303  Sum_probs=28.5

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +++|.+.+........+|+|.|++|.|||||++.+...+.
T Consensus         8 ~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            8 CQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3344444332223457999999999999999999987654

>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=96.56  E-value=0.014  Score=53.94  Aligned_cols=30  Identities=20%  Similarity=0.153  Sum_probs=25.1

Q ss_pred             CCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          134 PYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       134 ~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .....+|+|.|++|+||||||+.+...+..
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            345679999999999999999998876543

>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=96.56  E-value=0.0013  Score=55.54  Aligned_cols=25  Identities=20%  Similarity=0.037  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|+|.|++|+||||+|+.+...+.
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3789999999999999999988754

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.53  E-value=0.0061  Score=53.98  Aligned_cols=35  Identities=17%  Similarity=0.259  Sum_probs=25.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|.|++|+|||||++.++......-..++|+.
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~   58 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVT   58 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            58999999999999999999865432222344443

>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=96.52  E-value=0.0043  Score=58.40  Aligned_cols=36  Identities=17%  Similarity=0.122  Sum_probs=26.3

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|..+|..+-....++.|+|.+|+|||+||..++..
T Consensus        86 ~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           86 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            344445322223469999999999999999998865

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.51  E-value=0.0045  Score=58.10  Aligned_cols=28  Identities=21%  Similarity=0.345  Sum_probs=24.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...+++|+|++|+||||++..++..+..
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~  131 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAE  131 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4679999999999999999999876654

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.48  E-value=0.039  Score=54.27  Aligned_cols=67  Identities=12%  Similarity=0.036  Sum_probs=41.4

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeehhhhhhccCCHHHHHHHHHHHHhC
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLANVREISEKGGLICLQKQLLSELLK  196 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~  196 (445)
                      +..|..++ .+-....++.|.|.+|+|||+||..++...... -..++|+.      ...+...+...++....+
T Consensus       187 ~~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s------lE~~~~~l~~R~~~~~~~  254 (444)
T 2q6t_A          187 FKELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS------LEMPAAQLTLRMMCSEAR  254 (444)
T ss_dssp             CHHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE------SSSCHHHHHHHHHHHHTT
T ss_pred             CHhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE------CCCCHHHHHHHHHHHHcC
Confidence            33444444 222234589999999999999999998775422 22455544      234555666666655443

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.45  E-value=0.012  Score=51.40  Aligned_cols=23  Identities=26%  Similarity=0.291  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|.|.|+||+||||.|+.++..+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57799999999999999998864

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.44  E-value=0.0016  Score=55.76  Aligned_cols=24  Identities=29%  Similarity=0.432  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.|.|+|++|+||||+|+.++..+
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            578899999999999999998865

>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=96.40  E-value=0.0015  Score=56.19  Aligned_cols=28  Identities=36%  Similarity=0.539  Sum_probs=23.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      |.|+|+|++|+|||||++.+..+....|
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            4678999999999999999987654444

>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=96.39  E-value=0.013  Score=61.58  Aligned_cols=52  Identities=21%  Similarity=0.286  Sum_probs=38.4

Q ss_pred             cccccccchhHHHHHhhhccC-----------CCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKE-----------PYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      -.++.|.+...++|.+.+...           ....+-|.++|++|.|||.||++++......
T Consensus       476 w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~  538 (806)
T 3cf2_A          476 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN  538 (806)
T ss_dssp             STTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE
T ss_pred             HHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc
Confidence            356778888888887765421           1123457899999999999999999976544

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.39  E-value=0.0024  Score=63.76  Aligned_cols=45  Identities=18%  Similarity=0.062  Sum_probs=37.3

Q ss_pred             ccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|.+..++.+...+..+    .-|.|+|++|+|||+||+.++....
T Consensus        22 ~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHHHh
Confidence            35899999998888777643    3678999999999999999998764

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.38  E-value=0.0018  Score=56.34  Aligned_cols=25  Identities=32%  Similarity=0.311  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|+|.|++|+||||+|+.++..+
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3589999999999999999999876

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.38  E-value=0.018  Score=50.68  Aligned_cols=27  Identities=22%  Similarity=0.166  Sum_probs=23.9

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...++|.|.|++|+||||.|+.+++.+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999999998865

>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=96.36  E-value=0.0019  Score=54.42  Aligned_cols=23  Identities=35%  Similarity=0.593  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+|+|.|++|+||||+|+.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            37899999999999999999 543

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.36  E-value=0.039  Score=53.92  Aligned_cols=29  Identities=21%  Similarity=0.268  Sum_probs=24.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..++|.++|.+|+||||++..++..+...
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            46799999999999999999998776543

>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=96.35  E-value=0.0027  Score=61.15  Aligned_cols=26  Identities=27%  Similarity=0.244  Sum_probs=22.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+.|+|++|+|||+||+.+++.+..
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~l~~   98 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKHLDI   98 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            46789999999999999999987643

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.32  E-value=0.0025  Score=54.49  Aligned_cols=26  Identities=12%  Similarity=0.332  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .++++|+|++|+|||||++.+.....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            35899999999999999999987654

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.25  E-value=0.0024  Score=54.17  Aligned_cols=22  Identities=36%  Similarity=0.446  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+|.|.|++|+||||+|+.+..
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            4789999999999999999987

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.23  E-value=0.0022  Score=54.21  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|+|+|++|+|||||++.++..+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988653

>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=96.22  E-value=0.012  Score=54.54  Aligned_cols=26  Identities=31%  Similarity=0.348  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+++|+|++|+||||++..++..+.
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46999999999999999999987654

>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=96.18  E-value=0.0028  Score=54.51  Aligned_cols=24  Identities=29%  Similarity=0.481  Sum_probs=21.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+++|.|++|+|||||++.++..
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            368999999999999999999875

>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=96.17  E-value=0.0037  Score=53.74  Aligned_cols=25  Identities=28%  Similarity=0.278  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|.|.|++|+||||+|+.+...+
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998765

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.17  E-value=0.032  Score=54.79  Aligned_cols=49  Identities=14%  Similarity=0.062  Sum_probs=31.6

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +..|..++. +-....++.|.|.+|+||||||..++.....+-..++|+.
T Consensus       184 ~~~LD~~lg-Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fS  232 (444)
T 3bgw_A          184 FTELDRMTY-GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  232 (444)
T ss_dssp             CHHHHHHHS-SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEEC
T ss_pred             cHHHHhhcC-CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEE
Confidence            334444442 2223458999999999999999999887543322445543

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.16  E-value=0.0035  Score=56.46  Aligned_cols=41  Identities=17%  Similarity=-0.031  Sum_probs=28.2

Q ss_pred             hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       121 ~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+.++..-+.........|+|.|++|+||||+|+.+.+.+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           13 DLLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             HHHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            33444443333222345689999999999999999998764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.16  E-value=0.0029  Score=53.26  Aligned_cols=26  Identities=23%  Similarity=0.282  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|+|.|++|+||||+|+.++..+.
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999988653

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.16  E-value=0.0029  Score=54.34  Aligned_cols=26  Identities=23%  Similarity=0.443  Sum_probs=22.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+|.|.|++|+||||+|+.+...+..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999987653

>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=96.15  E-value=0.0023  Score=54.54  Aligned_cols=25  Identities=36%  Similarity=0.468  Sum_probs=22.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+.|.|.|++|+||||+|+.++..+
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            3578899999999999999998765

>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=96.15  E-value=0.0094  Score=56.70  Aligned_cols=26  Identities=27%  Similarity=0.286  Sum_probs=23.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...++.|+|++|+|||||+..++...
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999998765

>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=96.13  E-value=0.0032  Score=55.21  Aligned_cols=27  Identities=26%  Similarity=0.413  Sum_probs=23.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+++|.|++|+|||||++.+...+..
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            468999999999999999999886543

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.12  E-value=0.0043  Score=53.79  Aligned_cols=42  Identities=12%  Similarity=0.216  Sum_probs=30.9

Q ss_pred             hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       121 ~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .-+..+..++..- +....+.|+|++|+|||++|.++++.+..
T Consensus        43 ~f~~~l~~~~~~i-Pkkn~ili~GPPGtGKTt~a~ala~~l~g   84 (212)
T 1tue_A           43 TFLGALKSFLKGT-PKKNCLVFCGPANTGKSYFGMSFIHFIQG   84 (212)
T ss_dssp             HHHHHHHHHHHTC-TTCSEEEEESCGGGCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhcC-CcccEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4466666666532 22346889999999999999999887643

>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=96.11  E-value=0.0011  Score=58.85  Aligned_cols=35  Identities=14%  Similarity=-0.227  Sum_probs=26.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ..++.|+|..|+||||++..++.+...+-..++.+
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~   46 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVF   46 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence            46899999999999999999988764443333333

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.09  E-value=0.024  Score=53.39  Aligned_cols=53  Identities=17%  Similarity=0.083  Sum_probs=35.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELL  195 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~  195 (445)
                      ..++.|.|.+|+||||||..++.....+-..++|+.      -.-+...+...++....
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fS------lEms~~ql~~Rlls~~~   98 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFS------LEMSAEQLALRALSDLT   98 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEE------SSSCHHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe------CCCCHHHHHHHHHHHhh
Confidence            358999999999999999999876543222344543      23455666666655443

>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=96.09  E-value=0.0035  Score=54.46  Aligned_cols=27  Identities=30%  Similarity=0.377  Sum_probs=23.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...+|+|.|++|.||||||+.++..+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            346999999999999999999998764

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.08  E-value=0.0034  Score=56.86  Aligned_cols=25  Identities=24%  Similarity=0.153  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|+|.|++|+||||||+.++....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            4789999999999999999988653

>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=96.08  E-value=0.014  Score=56.41  Aligned_cols=37  Identities=16%  Similarity=0.087  Sum_probs=26.2

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHh
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      +..|..+|..+-....++.|.|++|+|||||+..++-
T Consensus       164 ~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~  200 (400)
T 3lda_A          164 SKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAV  200 (400)
T ss_dssp             CHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             ChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHH
Confidence            3445555543222345999999999999999998764

>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=96.08  E-value=0.0099  Score=63.73  Aligned_cols=49  Identities=24%  Similarity=0.323  Sum_probs=38.1

Q ss_pred             ccccccchhHHHHHhhhccC------CC-CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMDKE------PY-GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~~------~~-~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|.+..++.+...+...      .+ ....+.|+|++|+|||+||+.+++...
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~  613 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF  613 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            45799999998887766531      11 135788999999999999999998753

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.07  E-value=0.0038  Score=59.00  Aligned_cols=46  Identities=20%  Similarity=0.274  Sum_probs=31.3

Q ss_pred             chhHHHHHhhhcc--CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          120 DSCWNTLRFLMDK--EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       120 ~~~l~~l~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      +.-.+.+...+..  ..+....|.|+|++|+||||+++.++..+...|
T Consensus         5 ~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A            5 HKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             HHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            3344444444432  233456789999999999999999988765444

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.03  E-value=0.0034  Score=53.22  Aligned_cols=24  Identities=38%  Similarity=0.382  Sum_probs=21.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .|.|.|++|+||||+|+.++..+.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999988653

>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=96.02  E-value=0.0034  Score=53.80  Aligned_cols=25  Identities=24%  Similarity=0.485  Sum_probs=22.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|+|.|++|+||||+|+.+...+.
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4789999999999999999998764

>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=96.01  E-value=0.0047  Score=52.25  Aligned_cols=25  Identities=24%  Similarity=0.325  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|++|+||||+++.+...+
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998754

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.01  E-value=0.0059  Score=56.41  Aligned_cols=26  Identities=23%  Similarity=0.394  Sum_probs=22.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|.|.|++|+||||+|+.+...+
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998764

>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=96.01  E-value=0.042  Score=51.60  Aligned_cols=28  Identities=25%  Similarity=0.270  Sum_probs=24.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...+++|+|+.|+||||+++.++..+..
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4679999999999999999999876543

>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=96.01  E-value=0.0027  Score=54.23  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=21.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|+|.|++|+||||+|+.+...+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998865

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.00  E-value=0.0038  Score=54.14  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=22.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .|+|.|++|+||||+|+.++..+..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~   26 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGY   26 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCC
Confidence            5889999999999999999987643

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.98  E-value=0.0047  Score=52.91  Aligned_cols=26  Identities=35%  Similarity=0.438  Sum_probs=23.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|+|.|++|+||||+++.++..+.
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~l~   38 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADLLQ   38 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999988764

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.98  E-value=0.0032  Score=54.74  Aligned_cols=24  Identities=21%  Similarity=0.446  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+|+|.|++|+||||+|+.+...+
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998865

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.97  E-value=0.0041  Score=53.59  Aligned_cols=25  Identities=24%  Similarity=0.251  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|+|.|++|+||||+|+.++..+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998765

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.95  E-value=0.03  Score=55.26  Aligned_cols=36  Identities=17%  Similarity=0.209  Sum_probs=26.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc-cccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~  172 (445)
                      ..++.|.|.+|+||||||..++...... -..++|+.
T Consensus       203 G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s  239 (454)
T 2r6a_A          203 SDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFS  239 (454)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            3589999999999999999998875432 22455544

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.95  E-value=0.0052  Score=53.37  Aligned_cols=26  Identities=27%  Similarity=0.202  Sum_probs=23.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|+|.|++|+||||+|+.+++.+
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999998764

>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=95.94  E-value=0.031  Score=55.96  Aligned_cols=53  Identities=9%  Similarity=-0.063  Sum_probs=36.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeehhhhhhccCCHHHHHHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLANVREISEKGGLICLQKQLLSELL  195 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~  195 (445)
                      ..++.|.|.+|+||||||.+++.....+ -..++|+.      ...+...+...++....
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s------~E~s~~~l~~r~~~~~~  295 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAM------LEESVEETAEDLIGLHN  295 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEE------SSSCHHHHHHHHHHHHT
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEe------ccCCHHHHHHHHHHHHc
Confidence            4588999999999999999998876543 23455654      23345566666655544

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.93  E-value=0.0034  Score=53.48  Aligned_cols=26  Identities=31%  Similarity=0.304  Sum_probs=18.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|.|.|++|+||||+|+.+...+.
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35899999999999999999987654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.93  E-value=0.0066  Score=69.49  Aligned_cols=95  Identities=19%  Similarity=0.103  Sum_probs=54.1

Q ss_pred             HHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCC----CCC
Q 045345          126 LRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKL----PDT  200 (445)
Q Consensus       126 l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~----~~~  200 (445)
                      |..+|. .+-...+.+.|+|++|+|||+||.+++.....+-..+.|+.    .........     ++.++..    ...
T Consensus      1415 LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~----~e~~~~~l~-----a~~~G~dl~~l~v~ 1485 (2050)
T 3cmu_A         1415 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID----AEHALDPIY-----ARKLGVDIDNLLCS 1485 (2050)
T ss_dssp             HHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC----TTSCCCHHH-----HHHTTCCTTTCEEE
T ss_pred             HHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEE----cccccCHHH-----HHHcCCCchhceee
Confidence            444444 22223568999999999999999999887554434566665    222222222     2333211    001


Q ss_pred             CCcChhhhHHHHHHHHc-cCcEEEEEcCCC
Q 045345          201 STWNVYDGLKMIGSRLR-YRKVLLIVDAAF  229 (445)
Q Consensus       201 ~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~  229 (445)
                      ...+.++....+....+ .++-+||+|.+.
T Consensus      1486 ~~~~~E~~l~~~~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1486 QPDTGEQALEICDALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             CCSSHHHHHHHHHHHHHHTCCSEEEESCGG
T ss_pred             cCChHHHHHHHHHHHHhcCCCCEEEEcChh
Confidence            12233444555554443 577899999984

>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=95.93  E-value=0.0048  Score=52.84  Aligned_cols=24  Identities=33%  Similarity=0.340  Sum_probs=21.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|++|+||||+|+.+...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            458999999999999999999886

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.91  E-value=0.0041  Score=54.07  Aligned_cols=25  Identities=40%  Similarity=0.543  Sum_probs=22.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|++|+|||||++.++..+
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998765

>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=95.91  E-value=0.015  Score=56.78  Aligned_cols=28  Identities=29%  Similarity=0.230  Sum_probs=24.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...+|+++|++|+||||++..++..+..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~  123 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKK  123 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3679999999999999999999876543

>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=95.88  E-value=0.0036  Score=52.75  Aligned_cols=25  Identities=28%  Similarity=0.287  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|+|.|++|+||||+|+.+...+.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3689999999999999999988653

>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=95.88  E-value=0.0051  Score=53.23  Aligned_cols=26  Identities=12%  Similarity=0.419  Sum_probs=22.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .++++|+|++|+|||||++.+.....
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999987654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.88  E-value=0.0056  Score=52.29  Aligned_cols=25  Identities=24%  Similarity=0.127  Sum_probs=22.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...|+|.|++|+||||+|+.++..+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999998765

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.87  E-value=0.0036  Score=54.60  Aligned_cols=26  Identities=31%  Similarity=0.543  Sum_probs=22.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|+|.|++|+|||||++.+...+.
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            46889999999999999999988763

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.87  E-value=0.0065  Score=62.44  Aligned_cols=49  Identities=16%  Similarity=0.397  Sum_probs=40.9

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .....++|.+..++.+...+..+    ..+.|+|++|+||||||+.++..+..
T Consensus        38 ~~l~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~l~~   86 (604)
T 3k1j_A           38 KLIDQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAELLPT   86 (604)
T ss_dssp             SHHHHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHTSCC
T ss_pred             cccceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhccCCc
Confidence            44578999999999988888743    47899999999999999999986543

>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=95.87  E-value=0.0049  Score=55.76  Aligned_cols=27  Identities=22%  Similarity=0.365  Sum_probs=23.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...+|+|.|++|+||||+|+.+...+.
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            456899999999999999999988654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.86  E-value=0.0051  Score=52.82  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=21.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+|+|.|++|+||||+|+.++..+
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998764

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.84  E-value=0.0046  Score=53.38  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|+|.|++|+||||+|+.++..+.
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999988653

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.79  E-value=0.0055  Score=51.37  Aligned_cols=24  Identities=21%  Similarity=0.209  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .|+|.|++|+||||+|+.+...+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999988653

>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=95.79  E-value=0.0052  Score=54.22  Aligned_cols=26  Identities=23%  Similarity=0.139  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...|+|.|++|+||||+|+.++..+.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            35789999999999999999988653

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.79  E-value=0.0054  Score=52.64  Aligned_cols=22  Identities=27%  Similarity=0.474  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+++|.|++|.|||||++.++.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999976

>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=95.77  E-value=0.006  Score=52.84  Aligned_cols=25  Identities=36%  Similarity=0.464  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...+|+|.|+.|+||||+|+.+...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4578999999999999999999875

>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=95.77  E-value=0.0059  Score=52.32  Aligned_cols=25  Identities=20%  Similarity=0.110  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|+|.|++|+||||+|+.+...+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998765

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.75  E-value=0.0052  Score=53.40  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=21.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|+.|+|||||++.+....
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            589999999999999999998754

>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=95.75  E-value=0.0088  Score=58.47  Aligned_cols=52  Identities=21%  Similarity=0.372  Sum_probs=36.7

Q ss_pred             ccccccchhHHHHHhhhcc------------CCCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          114 KDLVGMDSCWNTLRFLMDK------------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~------------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ..++|.+...+.|...+..            .....+-+.++|++|+|||++|+.++..+...|
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~   78 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   78 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCE
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCc
Confidence            4578888877777554421            001234588999999999999999998765443

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=95.75  E-value=0.013  Score=57.39  Aligned_cols=30  Identities=30%  Similarity=0.445  Sum_probs=24.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCccccc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHEFEAS  168 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~  168 (445)
                      .++|+|.+|+|||||+..+......++..+
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i  182 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNIAQEHGGI  182 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHHHHHTCCC
T ss_pred             EEEEECCCCCCccHHHHHHHhhhhhccCcE
Confidence            688999999999999999988755444333

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.73  E-value=0.0057  Score=53.38  Aligned_cols=26  Identities=27%  Similarity=0.420  Sum_probs=23.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+|+|.|++|+||||+|+.+...+..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            58999999999999999999987654

>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=95.73  E-value=0.0057  Score=51.55  Aligned_cols=28  Identities=25%  Similarity=0.261  Sum_probs=24.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .++++|.|+.|+|||||+..+...+..+
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            5689999999999999999998876543

>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=95.71  E-value=0.0053  Score=54.31  Aligned_cols=24  Identities=33%  Similarity=0.447  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+|+|.|++|+||||+|+.+...+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998754

>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=95.71  E-value=0.006  Score=52.94  Aligned_cols=25  Identities=24%  Similarity=0.127  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|+|.|++|+||||+|+.+...+
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3489999999999999999998865

>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=95.68  E-value=0.0057  Score=53.19  Aligned_cols=21  Identities=38%  Similarity=0.615  Sum_probs=19.9

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      +|+|.|+.|+||||+++.+..
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999999987

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.67  E-value=0.0054  Score=51.89  Aligned_cols=22  Identities=27%  Similarity=0.585  Sum_probs=19.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVY  158 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~  158 (445)
                      ..+++|+|++|+|||||++.++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHc
Confidence            4689999999999999999754

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.66  E-value=0.0062  Score=52.94  Aligned_cols=24  Identities=25%  Similarity=0.541  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|++|+|||||++.+....
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998765

>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=95.64  E-value=0.0067  Score=55.17  Aligned_cols=25  Identities=24%  Similarity=0.557  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|.|.|++|+||||+|+.+...+
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998864

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.64  E-value=0.0068  Score=53.01  Aligned_cols=27  Identities=37%  Similarity=0.377  Sum_probs=23.1

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...+|+|.|+.|+|||||++.+...+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999987643

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.63  E-value=0.0083  Score=56.19  Aligned_cols=47  Identities=28%  Similarity=0.340  Sum_probs=33.4

Q ss_pred             ccccchhHHHHHhhhccC--CCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          116 LVGMDSCWNTLRFLMDKE--PYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       116 ~vGr~~~l~~l~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ++|-...+..+...+...  .....+|+|.|+.|+||||||+.+...+.
T Consensus        69 ~~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           69 YVTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hhcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            455555666555444332  33467999999999999999999877654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.62  E-value=0.0062  Score=52.27  Aligned_cols=23  Identities=39%  Similarity=0.668  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|+|.|++|+||||+|+.+.+.+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998865

>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=95.61  E-value=0.0065  Score=53.15  Aligned_cols=26  Identities=23%  Similarity=0.289  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|+|.|++|+||||+|+.+...+.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~   34 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALC   34 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35899999999999999999998754

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.61  E-value=0.0081  Score=52.39  Aligned_cols=25  Identities=40%  Similarity=0.507  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|+|.|++|.||||||+.+...+
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            5689999999999999999998753

>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=95.61  E-value=0.0067  Score=52.85  Aligned_cols=22  Identities=41%  Similarity=0.623  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+|+|.|+.|+||||+++.+..
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

>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=95.60  E-value=0.0077  Score=52.00  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...+|+|+|+.|+||||+|+.+...
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            3679999999999999999999875

>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=95.57  E-value=0.0069  Score=51.65  Aligned_cols=23  Identities=39%  Similarity=0.502  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++|+|+.|+|||||++.++..+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998765

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.55  E-value=0.0067  Score=53.24  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|+|.|++|+||||+|+.++..+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>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=95.55  E-value=0.0083  Score=53.05  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|++|+|||||++.++...
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999998743

>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=95.52  E-value=0.0072  Score=53.08  Aligned_cols=23  Identities=22%  Similarity=0.320  Sum_probs=20.4

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|+|.|++|+||||+|+.++..+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.52  E-value=0.0078  Score=53.39  Aligned_cols=25  Identities=24%  Similarity=0.194  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...|+|.|++|+||||+|+.++..+
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3578999999999999999998765

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.51  E-value=0.0069  Score=54.19  Aligned_cols=36  Identities=19%  Similarity=0.180  Sum_probs=26.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..++.|.|++|+||||||..++......-..++|+.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~   58 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVA   58 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            358999999999999999988765433223455554

>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=95.50  E-value=0.043  Score=53.47  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=23.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|.|+|++|+||||+|+.++..+
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            46789999999999999999998754

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.47  E-value=0.0068  Score=53.55  Aligned_cols=26  Identities=19%  Similarity=0.140  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...|.|.|++|+||||+|+.++..+.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35788999999999999999988754

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.45  E-value=0.0076  Score=52.61  Aligned_cols=26  Identities=19%  Similarity=0.330  Sum_probs=22.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|+|.|++|+||||+|+.+...+.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~   35 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLK   35 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45899999999999999999988653

>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=95.44  E-value=0.016  Score=55.23  Aligned_cols=39  Identities=21%  Similarity=0.256  Sum_probs=28.3

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+...+.....+..+|+|+|.+|+|||||+..++..+.
T Consensus        66 ~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~  104 (355)
T 3p32_A           66 QQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLI  104 (355)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            334443433334578999999999999999999887653

>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=95.43  E-value=0.0077  Score=54.16  Aligned_cols=25  Identities=24%  Similarity=0.171  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|++|+|||||++.++..+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999999664

>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=95.41  E-value=0.0094  Score=50.61  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|+|.|+.|+||||+++.+...+
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688999999999999999998865

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=95.40  E-value=0.029  Score=53.40  Aligned_cols=90  Identities=16%  Similarity=0.150  Sum_probs=49.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccce-eeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASS-FLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL  216 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~-~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l  216 (445)
                      .+++|.|+.|.|||||.+.+...+.......+ .+.+..+.......         ....... ...........+...|
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~---------~~v~q~~-~~~~~~~~~~~La~aL  193 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKK---------CLVNQRE-VHRDTLGFSEALRSAL  193 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSS---------SEEEEEE-BTTTBSCHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccc---------cceeeee-eccccCCHHHHHHHHh
Confidence            49999999999999999998876533222222 22111000000000         0000000 0011122345788888


Q ss_pred             ccCcEEEEEcCCCCHHHHHHh
Q 045345          217 RYRKVLLIVDAAFDLKQLESL  237 (445)
Q Consensus       217 ~~~~~LlVlDdv~~~~~l~~l  237 (445)
                      ...|=+|++|+..+.+.++.+
T Consensus       194 ~~~PdvillDEp~d~e~~~~~  214 (356)
T 3jvv_A          194 REDPDIILVGEMRDLETIRLA  214 (356)
T ss_dssp             TSCCSEEEESCCCSHHHHHHH
T ss_pred             hhCcCEEecCCCCCHHHHHHH
Confidence            899999999999877665544

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.39  E-value=0.009  Score=54.02  Aligned_cols=26  Identities=27%  Similarity=0.405  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|+|.|+.|+|||||++.++..+.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45899999999999999999997653

>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=95.36  E-value=0.026  Score=63.88  Aligned_cols=96  Identities=20%  Similarity=0.144  Sum_probs=59.0

Q ss_pred             HHHhhhcc-CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC----
Q 045345          125 TLRFLMDK-EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD----  199 (445)
Q Consensus       125 ~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~----  199 (445)
                      .|...|.. +-...++|-|+|+.|+||||||.++.......-..++|++    .....+..     .++.++...+    
T Consensus      1418 ~lD~~lg~gG~prg~~iei~g~~~sGkttl~~~~~a~~~~~g~~~~~i~----~e~~~~~~-----~~~~~Gv~~~~l~~ 1488 (1706)
T 3cmw_A         1418 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID----AEHALDPI-----YARKLGVDIDNLLC 1488 (1706)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC----TTSCCCHH-----HHHHTTCCGGGCEE
T ss_pred             HHHHhcCCCCCCCCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEe----cCCCCCHH-----HHHHcCCCHHHeEE
Confidence            34455552 2234579999999999999999999876655555677776    22222222     2444442211    


Q ss_pred             CCCcChhhhHHHHHHHHcc-CcEEEEEcCCC
Q 045345          200 TSTWNVYDGLKMIGSRLRY-RKVLLIVDAAF  229 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~  229 (445)
                      ..+...++....+...++. ..-+||+|-|.
T Consensus      1489 ~~p~~~e~~l~~~~~~~~s~~~~~vvvDsv~ 1519 (1706)
T 3cmw_A         1489 SQPDTGEQALEICDALARSGAVDVIVVDSVA 1519 (1706)
T ss_dssp             ECCSSHHHHHHHHHHHHHHTCCSEEEESCST
T ss_pred             eCCCcHHHHHHHHHHHHHcCCCCEEEEccHH
Confidence            1334445566666666654 55699999873

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.35  E-value=0.0069  Score=52.58  Aligned_cols=24  Identities=29%  Similarity=0.526  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ++++|+|+.|+|||||++.+...+
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998754

>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=95.33  E-value=0.0096  Score=51.60  Aligned_cols=24  Identities=25%  Similarity=0.266  Sum_probs=22.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..|+|.|+.|+||||+++.+.+.+
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999876

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.31  E-value=0.0098  Score=53.78  Aligned_cols=26  Identities=31%  Similarity=0.304  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|.|.|++|+||||+|+.+...+.
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            56899999999999999999988653

>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=95.29  E-value=0.012  Score=52.07  Aligned_cols=26  Identities=15%  Similarity=0.268  Sum_probs=23.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+++|.|+.|+|||||.+.+.....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            45899999999999999999988664

>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=95.29  E-value=0.04  Score=51.00  Aligned_cols=28  Identities=25%  Similarity=0.195  Sum_probs=23.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...+++|+|.+|+||||++..++..+..
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~  124 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKG  124 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3568999999999999999999876543

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.29  E-value=0.013  Score=51.63  Aligned_cols=39  Identities=31%  Similarity=0.292  Sum_probs=28.5

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+.+...+..  .....|+|+|.+|+|||||+..+.....
T Consensus        25 ~a~~~r~~~~~--~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           25 LADKNRKLLNK--HGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             HHHHHHHHHHH--TTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHh--CCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            34444444432  2467889999999999999999987643

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=95.27  E-value=0.064  Score=52.17  Aligned_cols=29  Identities=24%  Similarity=0.202  Sum_probs=24.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...+++|+|++|+||||++..++..+...
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~  125 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            35789999999999999999998876543

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.27  E-value=0.008  Score=54.24  Aligned_cols=25  Identities=32%  Similarity=0.468  Sum_probs=22.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..|+|.|++|+||||+++.++..+.
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4799999999999999999998654

>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=95.25  E-value=0.0059  Score=53.41  Aligned_cols=24  Identities=33%  Similarity=0.461  Sum_probs=21.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +|+|.|+.|+||||+|+.+...+.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999987653

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.24  E-value=0.013  Score=51.45  Aligned_cols=43  Identities=23%  Similarity=0.212  Sum_probs=30.9

Q ss_pred             chhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       120 ~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +...+.+...+..  ...++|+|+|.+|+|||||+..+.......
T Consensus        15 ~~~~~~~~~~~~~--~~~~~i~i~G~~g~GKTTl~~~l~~~~~~~   57 (221)
T 2wsm_A           15 KRLAEKNREALRE--SGTVAVNIMGAIGSGKTLLIERTIERIGNE   57 (221)
T ss_dssp             HHHHHHHHHHHHH--HTCEEEEEEECTTSCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhhcc--cCceEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            3445555555442  246799999999999999999998765433

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.23  E-value=0.0098  Score=55.81  Aligned_cols=26  Identities=19%  Similarity=0.280  Sum_probs=23.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .++|.|.|+.|+||||||..++.++.
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            36899999999999999999998753

>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=95.22  E-value=0.017  Score=52.24  Aligned_cols=38  Identities=18%  Similarity=0.065  Sum_probs=29.0

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...+..+|....+...-+.|+|++|.|||.+|.++++.
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            44566677654233456889999999999999999985

>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=0.0095  Score=52.44  Aligned_cols=24  Identities=21%  Similarity=0.209  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..|.|.|++|+||||+|+.++..+
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999998865

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.20  E-value=0.012  Score=52.94  Aligned_cols=25  Identities=28%  Similarity=0.462  Sum_probs=22.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|+|.|+.|.|||||++.+...+
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998754

>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=95.17  E-value=0.012  Score=51.20  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +|+|.|+.|+||||+|+.++..+.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            899999999999999999988653

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.17  E-value=0.011  Score=55.49  Aligned_cols=25  Identities=32%  Similarity=0.226  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|+|.|++|+||||||..++..+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            5899999999999999999998653

>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=95.15  E-value=0.012  Score=55.02  Aligned_cols=27  Identities=37%  Similarity=0.491  Sum_probs=23.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...+|+|.|+.|+|||||++.+...+.
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            457999999999999999999987653

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.14  E-value=0.1  Score=51.87  Aligned_cols=27  Identities=26%  Similarity=0.263  Sum_probs=22.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..++|+|+|.+|+||||++..++..+.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~  126 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQ  126 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            467999999999999999999987654

>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=95.13  E-value=0.011  Score=51.64  Aligned_cols=25  Identities=24%  Similarity=0.441  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|+.|+|||||++.+...+
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3589999999999999999998765

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.12  E-value=0.038  Score=52.99  Aligned_cols=91  Identities=16%  Similarity=0.143  Sum_probs=49.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccce-eeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASS-FLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR  215 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~-~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~  215 (445)
                      ..+++|+|+.|.|||||++.+...+.....+.+ ++....+.......         .+....... .+.......+...
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~---------~~v~Q~~~g-~~~~~~~~~l~~~  205 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKK---------SIVNQREVG-EDTKSFADALRAA  205 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSS---------SEEEEEEBT-TTBSCSHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCc---------eEEEeeecC-CCHHHHHHHHHHH
Confidence            468999999999999999999876543212333 22210000000000         000000000 0112234567777


Q ss_pred             HccCcEEEEEcCCCCHHHHHHh
Q 045345          216 LRYRKVLLIVDAAFDLKQLESL  237 (445)
Q Consensus       216 l~~~~~LlVlDdv~~~~~l~~l  237 (445)
                      +...+-+|++|.+.+.+.+...
T Consensus       206 L~~~pd~illdE~~d~e~~~~~  227 (372)
T 2ewv_A          206 LREDPDVIFVGEMRDLETVETA  227 (372)
T ss_dssp             TTSCCSEEEESCCCSHHHHHHH
T ss_pred             hhhCcCEEEECCCCCHHHHHHH
Confidence            7778889999999876655443

>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=52.32  Aligned_cols=24  Identities=21%  Similarity=0.372  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+|+|.|++|+||||+|+.++..+
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998765

>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=95.12  E-value=0.013  Score=53.92  Aligned_cols=24  Identities=29%  Similarity=0.731  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ...+|+|.|++|+||||+|+.+..
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

>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=95.11  E-value=0.013  Score=51.20  Aligned_cols=26  Identities=27%  Similarity=0.204  Sum_probs=22.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|.|.|++|+||||+|+.+...+.
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            46899999999999999999988654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.09  E-value=0.012  Score=55.02  Aligned_cols=25  Identities=32%  Similarity=0.274  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ++|.|+|++|+||||||..++..+.
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5899999999999999999998653

>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=95.03  E-value=0.013  Score=54.22  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ++|+|.|+.|+||||||..++..+
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhC
Confidence            588999999999999999999864

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.01  E-value=0.008  Score=55.61  Aligned_cols=26  Identities=19%  Similarity=0.358  Sum_probs=19.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|+|.|+.|+||||+|+.+...+
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999998754

>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=95.01  E-value=0.016  Score=53.85  Aligned_cols=29  Identities=24%  Similarity=0.307  Sum_probs=24.4

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...+++|+|++|+|||||+..++..+...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            35699999999999999999998766543

>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=95.00  E-value=0.013  Score=51.45  Aligned_cols=23  Identities=26%  Similarity=0.212  Sum_probs=20.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|+|.|++|+||||+|+.++..+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998865

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.00  E-value=0.013  Score=52.42  Aligned_cols=24  Identities=29%  Similarity=0.231  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..++.|.|.+|+|||+||.+++..
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            458999999999999999998755

>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=94.96  E-value=0.016  Score=50.96  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ..+|+|.|+.|+||||+++.+..
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            35899999999999999999976

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.96  E-value=0.01  Score=52.27  Aligned_cols=25  Identities=32%  Similarity=0.561  Sum_probs=22.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|+|+.|+|||||++.+...+
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3589999999999999999998755

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.96  E-value=0.013  Score=51.77  Aligned_cols=23  Identities=39%  Similarity=0.352  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|+|.|++|+||||+|+.++..+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998765

>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=94.95  E-value=0.01  Score=56.61  Aligned_cols=28  Identities=18%  Similarity=-0.025  Sum_probs=23.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...++|+|++|+|||||++.+++.+...
T Consensus       174 GQr~~IvG~sG~GKTtLl~~Iar~i~~~  201 (422)
T 3ice_A          174 GQRGLIVAPPKAGKTMLLQNIAQSIAYN  201 (422)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHHHHHHHH
T ss_pred             CcEEEEecCCCCChhHHHHHHHHHHhhc
Confidence            3588999999999999999988765443

>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=94.95  E-value=0.014  Score=51.92  Aligned_cols=25  Identities=24%  Similarity=0.078  Sum_probs=22.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..|.|.|++|+||||+|+.++..+.
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4788999999999999999998753

>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=94.94  E-value=0.017  Score=48.13  Aligned_cols=26  Identities=35%  Similarity=0.298  Sum_probs=23.1

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+++|.|+.|.|||||++.++..+
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34699999999999999999998866

>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=94.91  E-value=0.015  Score=50.08  Aligned_cols=24  Identities=25%  Similarity=0.254  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.|.|.|++|+||||||.+++.+.
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            568899999999999999998763

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.84  E-value=0.069  Score=61.34  Aligned_cols=100  Identities=18%  Similarity=0.085  Sum_probs=57.4

Q ss_pred             hhHHHHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC
Q 045345          121 SCWNTLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD  199 (445)
Q Consensus       121 ~~l~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~  199 (445)
                      .-...|..+|. .+-....++.|+|++|+||||||.+++......-..++|++    ........  .   ++.++....
T Consensus       366 TG~~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~a~~G~~vlyis----~E~s~~~~--~---a~~lGvd~~  436 (2050)
T 3cmu_A          366 TGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID----AEHALDPI--Y---ARKLGVDID  436 (2050)
T ss_dssp             CSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC----TTSCCCHH--H---HHHTTCCTT
T ss_pred             CCCHHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE----cCCCHHHH--H---HHHcCCCHH
Confidence            33445555554 22223469999999999999999999887654434566765    22222221  1   233332111


Q ss_pred             ----CCCcChhhhHHHHHHHH-ccCcEEEEEcCCC
Q 045345          200 ----TSTWNVYDGLKMIGSRL-RYRKVLLIVDAAF  229 (445)
Q Consensus       200 ----~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~  229 (445)
                          ....+.++....+.... ....-+||+|-+.
T Consensus       437 ~L~I~~~~~~e~il~~~~~lv~~~~~~lIVIDSL~  471 (2050)
T 3cmu_A          437 NLLCSQPDTGEQALEICDALARSGAVDVIVVDSVA  471 (2050)
T ss_dssp             TCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGG
T ss_pred             HeEEeCCCCHHHHHHHHHHHHHhcCCcEEEECCHH
Confidence                12344555555555444 3466799999874

>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=94.79  E-value=0.017  Score=53.44  Aligned_cols=25  Identities=28%  Similarity=0.254  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++|+|.|+.|+||||||..++..+
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC
Confidence            4689999999999999999999864

>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=94.78  E-value=0.018  Score=53.86  Aligned_cols=29  Identities=31%  Similarity=0.488  Sum_probs=23.7

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ++.++|+|+|=|||||||.+..++.-+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~   74 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSI   74 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHH
Confidence            35789999999999999999887765443

>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=94.70  E-value=0.027  Score=54.01  Aligned_cols=26  Identities=35%  Similarity=0.271  Sum_probs=22.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+++|+|++|.|||||++.++...
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            45699999999999999999998754

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.68  E-value=0.01  Score=52.69  Aligned_cols=25  Identities=24%  Similarity=0.294  Sum_probs=16.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHH-hhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVY-DLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~-~~~  161 (445)
                      ..+++|+|+.|+|||||++.+. ..+
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3589999999999999999998 543

>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=94.68  E-value=0.03  Score=63.41  Aligned_cols=98  Identities=18%  Similarity=0.094  Sum_probs=56.1

Q ss_pred             HHHHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC--
Q 045345          123 WNTLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD--  199 (445)
Q Consensus       123 l~~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~--  199 (445)
                      ...|..+|. .+-...+++.|+|++|+||||||.+++......-..++|++    ........     .+..++....  
T Consensus       368 i~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~~~~~G~~vlyis----~E~s~~~~-----~a~~lGvd~~~L  438 (1706)
T 3cmw_A          368 SLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID----AEHALDPI-----YARKLGVDIDNL  438 (1706)
T ss_dssp             CHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC----TTSCCCHH-----HHHHTTCCGGGC
T ss_pred             cHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEE----ccCchHHH-----HHHHcCCCHHHe
Confidence            445555564 22223469999999999999999999877544334567765    22222221     1233321100  


Q ss_pred             --CCCcChhhhHHHHHHHH-ccCcEEEEEcCCC
Q 045345          200 --TSTWNVYDGLKMIGSRL-RYRKVLLIVDAAF  229 (445)
Q Consensus       200 --~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~  229 (445)
                        ....+.++....+.... ..+.-+||+|-+.
T Consensus       439 ~i~~~~~~e~~l~~l~~lv~~~~~~lVVIDSL~  471 (1706)
T 3cmw_A          439 LCSQPDTGEQALEICDALARSGAVDVIVVDSVA  471 (1706)
T ss_dssp             EEECCSSHHHHHHHHHHHHHHTCCSEEEESCST
T ss_pred             EEcCCCCHHHHHHHHHHHHHhcCCCEEEECCHH
Confidence              12234455555555444 3466799999875

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.65  E-value=0.02  Score=53.42  Aligned_cols=27  Identities=41%  Similarity=0.442  Sum_probs=23.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...+|+|.|+.|+|||||++.+...+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            457999999999999999999987654

>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=94.63  E-value=0.018  Score=48.73  Aligned_cols=26  Identities=23%  Similarity=0.405  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .++++|.|+.|+|||||+..+...+.
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            46899999999999999999987653

>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=94.56  E-value=0.02  Score=53.11  Aligned_cols=23  Identities=35%  Similarity=0.397  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+|.|.|++|+||||+|+.+...
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            47899999999999999999874

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.56  E-value=0.012  Score=49.66  Aligned_cols=25  Identities=28%  Similarity=0.391  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ++++|+|..|+|||||++.+...+.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~   27 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILR   27 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4799999999999999999987654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.54  E-value=0.022  Score=51.72  Aligned_cols=90  Identities=16%  Similarity=0.136  Sum_probs=47.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhc-cCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISE-KGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSR  215 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~  215 (445)
                      ..+++|+|+.|.|||||++.+...+...+.+.+++.... +.. .....        .+........ +.......+.+.
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~-i~~~~~~~~--------~~v~q~~~gl-~~~~l~~~la~a   94 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDP-IEYVFKHKK--------SIVNQREVGE-DTKSFADALRAA   94 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESS-CCSCCCCSS--------SEEEEEEBTT-TBSCHHHHHHHH
T ss_pred             CCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCc-ceeecCCcc--------eeeeHHHhCC-CHHHHHHHHHHH
Confidence            469999999999999999998876533223333332100 000 00000        0000000000 001234556677


Q ss_pred             HccCcEEEEEcCCCCHHHHHH
Q 045345          216 LRYRKVLLIVDAAFDLKQLES  236 (445)
Q Consensus       216 l~~~~~LlVlDdv~~~~~l~~  236 (445)
                      |...+=+|++|+..+.+....
T Consensus        95 L~~~p~illlDEp~D~~~~~~  115 (261)
T 2eyu_A           95 LREDPDVIFVGEMRDLETVET  115 (261)
T ss_dssp             HHHCCSEEEESCCCSHHHHHH
T ss_pred             HhhCCCEEEeCCCCCHHHHHH
Confidence            777888899999876655443

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.51  E-value=0.017  Score=49.66  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhhcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +++|+|+.|+|||||++.++..+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            689999999999999999987653

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=94.47  E-value=0.028  Score=56.01  Aligned_cols=48  Identities=10%  Similarity=-0.038  Sum_probs=32.9

Q ss_pred             ccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          116 LVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       116 ~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...|.+..+.+.+..........+|.+.|++|+||||+|+.++.++..
T Consensus       374 ~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          374 WFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            344444455555544321223468899999999999999999998753

>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=94.45  E-value=0.045  Score=48.56  Aligned_cols=27  Identities=33%  Similarity=0.374  Sum_probs=24.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...|+|.|++|+||||+++.+...+..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            468999999999999999999988754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.43  E-value=0.019  Score=50.16  Aligned_cols=23  Identities=30%  Similarity=0.154  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++|.|+.|.|||||++.++..
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            48999999999999999998764

>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=94.42  E-value=0.021  Score=52.78  Aligned_cols=25  Identities=24%  Similarity=0.247  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+++|.|++|+|||||++.++..+.
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~~~~   60 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQALQWG   60 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            5899999999999999999987654

>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=94.41  E-value=0.032  Score=50.35  Aligned_cols=27  Identities=26%  Similarity=0.283  Sum_probs=23.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...++.+.|.||+|||||+..++..+.
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            357889999999999999999986654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.38  E-value=0.036  Score=48.76  Aligned_cols=26  Identities=15%  Similarity=0.098  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .|.+.|.||+||||+|..++.....+
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~   33 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQ   33 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            47789999999999999988875443

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.37  E-value=0.025  Score=52.50  Aligned_cols=26  Identities=31%  Similarity=0.245  Sum_probs=23.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+++|+|+.|+||||+++.++..+.
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l~  125 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            56999999999999999999987654

>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=94.37  E-value=0.026  Score=48.49  Aligned_cols=34  Identities=21%  Similarity=0.047  Sum_probs=22.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ..|.|++-.|.||||+|...+-+...+--.++++
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~v   62 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVV   62 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            4566777777999999988887643332234444

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.32  E-value=0.027  Score=50.23  Aligned_cols=26  Identities=27%  Similarity=0.290  Sum_probs=22.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|+|.|+.|+||||+++.++..+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            35689999999999999999998755

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.32  E-value=0.02  Score=50.66  Aligned_cols=34  Identities=32%  Similarity=0.469  Sum_probs=25.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|.|+.|.|||||.+.++.-+.. ..+.+++.
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl~~p-~~G~i~~~   64 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLLDAP-TEGKVFLE   64 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTSSCC-SEEEEEET
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC-CceEEEEC
Confidence            48999999999999999998765432 23445443

>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=94.31  E-value=0.02  Score=51.06  Aligned_cols=34  Identities=24%  Similarity=0.441  Sum_probs=25.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|.|+.|.|||||.+.++.-+.. ..+.+++.
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~Gl~~p-~~G~I~~~   65 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGCLDKP-TEGEVYID   65 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEET
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCC-CceEEEEC
Confidence            48999999999999999998765433 23445553

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.26  E-value=0.024  Score=50.79  Aligned_cols=25  Identities=16%  Similarity=0.301  Sum_probs=22.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+++|.|+.|.|||||.+.++.-+.
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~~   49 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6899999999999999999987543

>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=94.21  E-value=0.026  Score=50.78  Aligned_cols=33  Identities=27%  Similarity=0.405  Sum_probs=26.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|.|+.|.|||||.+.++.-+...  +.+++.
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl~~p~--G~i~~~   59 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGMTSGK--GSIQFA   59 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCCE--EEEEET
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCCC--eEEEEC
Confidence            489999999999999999998766554  555554

>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=94.20  E-value=0.093  Score=49.32  Aligned_cols=83  Identities=19%  Similarity=0.155  Sum_probs=48.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLR  217 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~  217 (445)
                      ..++|+|+.|.|||||++.+...+.. ..+.+.+....+..... ..       ..+.-..    ..-......+...|.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~-~~g~i~i~~~~e~~~~~-~~-------~~i~~~~----ggg~~~r~~la~aL~  238 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPK-EERIISIEDTEEIVFKH-HK-------NYTQLFF----GGNITSADCLKSCLR  238 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCT-TSCEEEEESSCCCCCSS-CS-------SEEEEEC----BTTBCHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcC-CCcEEEECCeecccccc-ch-------hEEEEEe----CCChhHHHHHHHHhh
Confidence            48999999999999999999876543 23455554321111000 00       0000000    011233455677778


Q ss_pred             cCcEEEEEcCCCCHHH
Q 045345          218 YRKVLLIVDAAFDLKQ  233 (445)
Q Consensus       218 ~~~~LlVlDdv~~~~~  233 (445)
                      ..+=+|++|++.+.+.
T Consensus       239 ~~p~ilildE~~~~e~  254 (330)
T 2pt7_A          239 MRPDRIILGELRSSEA  254 (330)
T ss_dssp             SCCSEEEECCCCSTHH
T ss_pred             hCCCEEEEcCCChHHH
Confidence            8888999999876443

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=94.18  E-value=0.027  Score=54.13  Aligned_cols=24  Identities=29%  Similarity=0.448  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ++|+|.|+.|+||||||..++..+
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            588999999999999999998864

>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=94.17  E-value=0.027  Score=48.29  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=21.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||.+.+...
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            457899999999999999999875

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=94.12  E-value=0.064  Score=54.00  Aligned_cols=38  Identities=21%  Similarity=0.188  Sum_probs=27.0

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+...|..+-....+++|.|++|+|||||++.++....
T Consensus       269 ~ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~  306 (525)
T 1tf7_A          269 RLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENAC  306 (525)
T ss_dssp             HHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            34444442222345899999999999999999987644

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.06  E-value=0.033  Score=45.76  Aligned_cols=23  Identities=22%  Similarity=0.332  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +.|+|.|.+|+|||||...+...
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            46889999999999999999764

>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=94.06  E-value=0.025  Score=50.59  Aligned_cols=24  Identities=21%  Similarity=0.411  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|+|+.|.|||||++.++.-+
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            489999999999999999997643

>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=94.05  E-value=0.027  Score=55.03  Aligned_cols=27  Identities=30%  Similarity=0.342  Sum_probs=23.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .++|+|+|.+|+||||++..++..+..
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~  125 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQK  125 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999876543

>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=94.04  E-value=0.034  Score=46.26  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..|+|.|.+|+|||||...+...
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            57899999999999999999763

>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=94.01  E-value=0.025  Score=51.74  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|+.|.|||||++.++.-+
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            489999999999999999987643

>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=94.01  E-value=0.027  Score=51.56  Aligned_cols=26  Identities=23%  Similarity=0.229  Sum_probs=22.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+++|+|++|+|||||+..++..+.
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            35899999999999999999886543

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.99  E-value=0.025  Score=51.33  Aligned_cols=35  Identities=29%  Similarity=0.368  Sum_probs=26.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+++|.|+.|.|||||.+.++.-+.. ..+.+++.
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl~~p-~~G~i~~~   66 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFLEKP-SEGAIIVN   66 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC-SEEEEEET
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC-CCcEEEEC
Confidence            358999999999999999998875432 23445543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=93.99  E-value=0.03  Score=47.90  Aligned_cols=24  Identities=25%  Similarity=0.144  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++.|+|+.|+||||++..++.+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999997777654

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.93  E-value=0.036  Score=48.12  Aligned_cols=26  Identities=19%  Similarity=0.124  Sum_probs=23.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+|+|.|+.|+||||+|+.++.++.-
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~   32 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNI   32 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            58999999999999999999998743

>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=93.92  E-value=0.03  Score=50.46  Aligned_cols=23  Identities=26%  Similarity=0.470  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++|.|+.|.|||||.+.++.-
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            48999999999999999999874

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.91  E-value=0.042  Score=49.87  Aligned_cols=35  Identities=26%  Similarity=0.309  Sum_probs=25.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ++|+|.|-||+||||+|..++..+...-..++.++
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G~~VlliD   36 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVG   36 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCCCcEEEEc
Confidence            57888999999999999999887654322344443

>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=93.91  E-value=0.027  Score=51.28  Aligned_cols=33  Identities=33%  Similarity=0.466  Sum_probs=25.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      .+++|.|+.|.|||||++.++.-+.. ..+.+++
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl~~p-~~G~I~~   70 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGYLSP-SHGECHL   70 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSSSCC-SSCEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCC-CCcEEEE
Confidence            48999999999999999999865432 2344444

>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=93.90  E-value=0.025  Score=48.09  Aligned_cols=21  Identities=38%  Similarity=0.472  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .|+|+|.+|+|||||...+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999876

>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=93.89  E-value=0.028  Score=50.36  Aligned_cols=34  Identities=21%  Similarity=0.346  Sum_probs=25.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|.|+.|.|||||.+.++.-+.. ..+.+++.
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl~~p-~~G~i~~~   66 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGLVRA-QKGKIIFN   66 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEET
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC-CCceEEEC
Confidence            48999999999999999998875432 23445543

>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=93.88  E-value=0.075  Score=46.55  Aligned_cols=28  Identities=18%  Similarity=0.175  Sum_probs=24.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...|+|.|+.|+||||+++.+.+.+...
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~   33 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER   33 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            3588999999999999999999877543

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.86  E-value=0.035  Score=52.75  Aligned_cols=27  Identities=30%  Similarity=0.251  Sum_probs=23.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+++|+|+.|+||||+++.++..+..
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            579999999999999999999886543

>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=93.86  E-value=0.028  Score=50.91  Aligned_cols=34  Identities=26%  Similarity=0.347  Sum_probs=25.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|.|+.|.|||||.+.++.-+.. ..+.+++.
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl~~p-~~G~i~~~   67 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGFLKA-DEGRVYFE   67 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEET
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC-CCcEEEEC
Confidence            48999999999999999999875432 23444443

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.84  E-value=0.038  Score=49.39  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=22.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..|+|.|..|+||||+++.++..+.
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            5789999999999999999998764

>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=93.83  E-value=0.034  Score=47.88  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|.|.+|+|||||...+...
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            356889999999999999999874

>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=93.80  E-value=0.029  Score=50.95  Aligned_cols=35  Identities=23%  Similarity=0.303  Sum_probs=26.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+++|.|+.|.|||||.+.++.-+.. ..+.+++.
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~Gl~~p-~~G~I~~~   84 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNLLEDF-DEGEIIID   84 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC-SEEEEEET
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHcCCCC-CCcEEEEC
Confidence            358999999999999999998865433 23445543

>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=93.80  E-value=0.024  Score=49.73  Aligned_cols=24  Identities=33%  Similarity=0.552  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|+.|.|||||.+.++.-+
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            489999999999999999987654

>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=93.79  E-value=0.032  Score=50.78  Aligned_cols=35  Identities=20%  Similarity=0.226  Sum_probs=25.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc-Cccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS-HEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~-~~f~~~~~~~  172 (445)
                      .+++|.|+.|.|||||.+.++.-.. ....+.+++.
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl~~~~p~~G~I~~~   82 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGREDYEVTGGTVEFK   82 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTCTTCEEEEEEEEET
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCCeEEEEC
Confidence            4899999999999999999987531 1223445543

>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=93.78  E-value=0.032  Score=50.04  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=21.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|+|+.|.|||||.+.++.-+
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999987643

>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=93.77  E-value=0.03  Score=50.38  Aligned_cols=34  Identities=26%  Similarity=0.482  Sum_probs=25.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|.|+.|.|||||.+.++.-+.. ..+.+++.
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl~~p-~~G~I~i~   69 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRFYIP-ENGQVLID   69 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEET
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC-CCcEEEEC
Confidence            48999999999999999998775432 23445543

>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=93.77  E-value=0.03  Score=49.72  Aligned_cols=24  Identities=25%  Similarity=0.497  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|+.|.|||||.+.++.-+
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            489999999999999999998754

>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=93.75  E-value=0.16  Score=44.04  Aligned_cols=29  Identities=31%  Similarity=0.480  Sum_probs=24.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFE  166 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~  166 (445)
                      ..|+|-|.-|+||||+++.+++.+...++
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~~~~   31 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVKDYD   31 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTSC
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHCCCC
Confidence            46889999999999999999988765443

>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=93.74  E-value=0.23  Score=48.68  Aligned_cols=26  Identities=31%  Similarity=0.468  Sum_probs=22.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++|.|.+|+|||+|+..+++.+..
T Consensus       154 Qr~~Ifgg~G~GKT~L~~~i~~~~~~  179 (482)
T 2ck3_D          154 GKIGLFGGAGVGKTVLIMELINNVAK  179 (482)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTT
T ss_pred             CeeeeecCCCCChHHHHHHHHHhhHh
Confidence            47899999999999999999887543

>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=93.71  E-value=0.031  Score=50.56  Aligned_cols=33  Identities=27%  Similarity=0.403  Sum_probs=25.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      .+++|.|+.|.|||||.+.++.-+.. ..+.+++
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl~~p-~~G~I~~   74 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTLIKP-SSGIVTV   74 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCC-SEEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC-CceEEEE
Confidence            48999999999999999998865432 2344444

>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=93.69  E-value=0.036  Score=51.39  Aligned_cols=25  Identities=16%  Similarity=0.258  Sum_probs=22.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|+|+.|.|||||++.+..-+
T Consensus       126 Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          126 KNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhhhc
Confidence            4589999999999999999988654

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.68  E-value=0.043  Score=46.76  Aligned_cols=24  Identities=29%  Similarity=0.225  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
T Consensus        48 ~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           48 QPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            457889999999999999998864

>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=93.67  E-value=0.058  Score=51.01  Aligned_cols=27  Identities=26%  Similarity=0.308  Sum_probs=23.1

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ....+|+|.|.+|+|||||+..+...+
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            356799999999999999999987654

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.65  E-value=0.044  Score=55.29  Aligned_cols=27  Identities=30%  Similarity=0.321  Sum_probs=23.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..+++|+|+.|+|||||++.++..+..
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhhcc
Confidence            468999999999999999999987653

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=93.62  E-value=0.055  Score=53.44  Aligned_cols=26  Identities=27%  Similarity=0.419  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +.+.|.|.+|+|||+++..+...+..
T Consensus        46 ~~~li~G~aGTGKT~ll~~~~~~l~~   71 (459)
T 3upu_A           46 HHVTINGPAGTGATTLTKFIIEALIS   71 (459)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            38899999999999999998887543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.62  E-value=0.033  Score=50.53  Aligned_cols=33  Identities=24%  Similarity=0.464  Sum_probs=25.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|+|+.|.|||||.+.++.-+..  .+.+++.
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl~~~--~G~I~i~   79 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRFYDA--EGDIKIG   79 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC--EEEEEET
T ss_pred             CEEEEECCCCCCHHHHHHHHhccCCC--CeEEEEC
Confidence            48999999999999999999875542  4555553

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=93.60  E-value=0.026  Score=57.69  Aligned_cols=49  Identities=14%  Similarity=0.049  Sum_probs=35.3

Q ss_pred             cccccccchhHHHHHhhhccCCCC---------eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          113 FKDLVGMDSCWNTLRFLMDKEPYG---------VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~~~~~---------~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+.++|.+...+.+...+..+...         ..-|.|+|++|+|||+||+.+++..
T Consensus       294 ~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          294 APSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             SSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             cchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            356899998777776555533100         0147899999999999999998764

>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=93.59  E-value=0.043  Score=50.45  Aligned_cols=27  Identities=33%  Similarity=0.514  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .++|+|.|-||+||||+|..++..+..
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~   28 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAE   28 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHH
Confidence            367888999999999999998876543

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.59  E-value=0.036  Score=48.60  Aligned_cols=24  Identities=29%  Similarity=0.285  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+|+|.|+.|+||||+|+.+...+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            378999999999999999998764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.58  E-value=0.033  Score=50.82  Aligned_cols=34  Identities=24%  Similarity=0.378  Sum_probs=25.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ..+++|+|+.|.|||||++.++.-+.. ..+.+++
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~Gl~~p-~~G~I~~   78 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQNLYQP-TGGKVLL   78 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC-CCCEEEE
Confidence            358999999999999999999875432 2344444

>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=93.58  E-value=0.04  Score=54.40  Aligned_cols=35  Identities=26%  Similarity=0.298  Sum_probs=26.7

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ...+++|+|++|+|||||++.++..+... .+.+++
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~-~G~V~l  326 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ-GKSVML  326 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEE
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc-CCeEEE
Confidence            35699999999999999999998765432 234444

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.57  E-value=0.04  Score=48.73  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      -.++|.|++|+||||+|+.++..+
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998765

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.57  E-value=0.047  Score=46.21  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|.|.+|+|||||...+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999999863

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=93.56  E-value=0.055  Score=51.24  Aligned_cols=37  Identities=27%  Similarity=0.329  Sum_probs=28.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc--Cccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS--HEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~--~~f~~~~~~~  172 (445)
                      ..+++.+.|-||+||||+|..++..+.  ..-..++.++
T Consensus        17 ~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid   55 (348)
T 3io3_A           17 SLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLIS   55 (348)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEE
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            457999999999999999999987765  4433444444

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.54  E-value=0.05  Score=45.63  Aligned_cols=23  Identities=30%  Similarity=0.354  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +-|.|.|.+|+||||||.++..+
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            46789999999999999999874

>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=93.53  E-value=0.044  Score=47.42  Aligned_cols=24  Identities=25%  Similarity=0.196  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            346789999999999999988853

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.51  E-value=0.036  Score=50.06  Aligned_cols=23  Identities=26%  Similarity=0.600  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++|.|+.|.|||||.+.++.-
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            48999999999999999998764

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.49  E-value=0.035  Score=50.50  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|+.|.|||||.+.++.-+
T Consensus        34 e~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            489999999999999999987643

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.47  E-value=0.035  Score=50.86  Aligned_cols=33  Identities=24%  Similarity=0.312  Sum_probs=25.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      .+++|.|+.|.|||||.+.++.-+.. ..+.+++
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl~~p-~~G~I~~   80 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAYEPA-TSGTVNL   80 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCC-SEEEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCC-CCeEEEE
Confidence            48999999999999999999875433 2344444

>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=93.44  E-value=0.054  Score=44.70  Aligned_cols=24  Identities=17%  Similarity=0.307  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|.|.+|+|||||...+...
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            346789999999999999999864

>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=93.44  E-value=0.081  Score=52.01  Aligned_cols=35  Identities=29%  Similarity=0.289  Sum_probs=26.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc-cccceee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFL  171 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~  171 (445)
                      ...++|.|.+|+|||+|+..+.+.+... -+.++|+
T Consensus       165 Gqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~  200 (498)
T 1fx0_B          165 GGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFG  200 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEE
T ss_pred             CCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEE
Confidence            3478999999999999999999876433 2334444

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.42  E-value=0.087  Score=46.42  Aligned_cols=28  Identities=32%  Similarity=0.476  Sum_probs=24.4

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ....|+|.|+.|+||||+++.+.+.+..
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3568999999999999999999987654

>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=93.42  E-value=0.042  Score=45.14  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=19.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|++.|.+|+|||||+..+...
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            4789999999999999999764

>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=93.40  E-value=0.053  Score=45.14  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|.|.+|+|||||...+...
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            346889999999999999998754

>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=93.39  E-value=0.069  Score=50.27  Aligned_cols=37  Identities=27%  Similarity=0.298  Sum_probs=28.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+++.+.|-||+||||+|..++..+...-..++.++
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid   51 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLS   51 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEE
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEE
Confidence            3578889999999999999999887665444455554

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=93.38  E-value=0.066  Score=50.51  Aligned_cols=26  Identities=31%  Similarity=0.465  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+++|.|++|+|||||...+...+
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            45799999999999999999998643

>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=93.37  E-value=0.068  Score=45.16  Aligned_cols=25  Identities=28%  Similarity=0.262  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|.+|+|||||...+...
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            4567889999999999999998764

>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=93.32  E-value=0.036  Score=53.78  Aligned_cols=25  Identities=20%  Similarity=0.416  Sum_probs=22.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...+++|.|+.|+|||||.+.+...
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCC
Confidence            4569999999999999999999873

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=93.30  E-value=0.04  Score=48.85  Aligned_cols=25  Identities=28%  Similarity=0.104  Sum_probs=22.1

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...+|+|.|+.|.|||||++.+...
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3569999999999999999998775

>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=93.28  E-value=0.27  Score=58.49  Aligned_cols=130  Identities=15%  Similarity=0.103  Sum_probs=0.0

Q ss_pred             EEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH---
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL---  216 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l---  216 (445)
                      |.++|++|+|||+||+.+.......-...+-..                            ...+.......+...+   
T Consensus      1270 vLL~GPpGtGKT~la~~~l~~~~~~~~~~infs----------------------------a~ts~~~~~~~i~~~~~~~ 1321 (2695)
T 4akg_A         1270 IILCGPPGSGKTMIMNNALRNSSLYDVVGINFS----------------------------KDTTTEHILSALHRHTNYV 1321 (2695)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCSSCEEEEEECC----------------------------TTCCHHHHHHHHHHHBCCE
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCCCceEEEEee----------------------------cCCCHHHHHHHHHHHhhhc


Q ss_pred             ------------ccCcEEEEEcCCC-----------CHHHHHHhcCCCCCc-----------CcccccccCCC-------
Q 045345          217 ------------RYRKVLLIVDAAF-----------DLKQLESLAGKHEWF-----------DEHLLMTHGVD-------  255 (445)
Q Consensus       217 ------------~~~~~LlVlDdv~-----------~~~~l~~l~~~~~~~-----------~~~vl~t~~~~-------  255 (445)
                                  .+++.+|.+||++           -.+.++.++....+.           +-.++.++...       
T Consensus      1322 ~~~~g~~~~P~~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~ 1401 (2695)
T 4akg_A         1322 TTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIP 1401 (2695)
T ss_dssp             EETTTEEEEEBSSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCC
T ss_pred             cccCCccccCCCCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCcc


Q ss_pred             ---------ceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHh
Q 045345          256 ---------EVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYS  297 (445)
Q Consensus       256 ---------~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~  297 (445)
                               .++.++.++.++-.++|......--...++...++..++..+
T Consensus      1402 l~~rllRrf~vi~i~~P~~~~l~~I~~~il~~~l~~~~~v~~~~~~lv~at 1452 (2695)
T 4akg_A         1402 MSERFTRHAAILYLGYPSGKSLSQIYEIYYKAIFKLVPEFRSYTEPFARAS 1452 (2695)
T ss_dssp             CCHHHHTTEEEEECCCCTTTHHHHHHHHHHHHHTTSSGGGGGGHHHHHHHH
T ss_pred             CChhhhheeeEEEeCCCCHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHH

>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=93.26  E-value=0.052  Score=54.50  Aligned_cols=26  Identities=19%  Similarity=0.289  Sum_probs=22.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|.++|++|.||||+|+.++..+.
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~   60 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLN   60 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            46899999999999999999987653

>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=93.26  E-value=0.063  Score=47.90  Aligned_cols=33  Identities=24%  Similarity=0.536  Sum_probs=24.8

Q ss_pred             EEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      |+|.|-||+||||+|..++..+...-..++.++
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~~VlliD   35 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAVD   35 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCSCEEEEE
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            566999999999999999987665433444444

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=93.25  E-value=0.063  Score=50.21  Aligned_cols=26  Identities=31%  Similarity=0.416  Sum_probs=22.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..++++|+|+.|.|||||.+.+....
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            46899999999999999999998653

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=93.22  E-value=0.09  Score=53.36  Aligned_cols=27  Identities=22%  Similarity=0.121  Sum_probs=23.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...+|.|.|++|+||||+|+.+...+.
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            346899999999999999999998754

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.21  E-value=0.048  Score=49.70  Aligned_cols=23  Identities=30%  Similarity=0.587  Sum_probs=20.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++|+|+.|+|||||.+.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998753

>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=93.16  E-value=0.035  Score=50.33  Aligned_cols=26  Identities=27%  Similarity=0.432  Sum_probs=23.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...|+|.|..|+||||+|+.+.+.+.
T Consensus        24 ~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           24 IKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            56899999999999999999987663

>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=93.13  E-value=0.051  Score=46.01  Aligned_cols=23  Identities=22%  Similarity=0.433  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.+|+|+.|.|||||+.+++.-+
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            88999999999999999987643

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.10  E-value=0.074  Score=45.94  Aligned_cols=27  Identities=22%  Similarity=0.318  Sum_probs=22.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      .|+|-|.-|+||||.++.+++.+....
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g   28 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRG   28 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC
Confidence            477889999999999999998875543

>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=93.09  E-value=0.083  Score=47.02  Aligned_cols=27  Identities=33%  Similarity=0.497  Sum_probs=23.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...|+|.|+.|+||||+++.+...+..
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~   53 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQ   53 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            458999999999999999999987643

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=93.09  E-value=0.049  Score=46.24  Aligned_cols=23  Identities=26%  Similarity=0.482  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|+|.+|+|||||+..+...
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            46789999999999999999864

>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=93.08  E-value=0.074  Score=43.73  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|.|.+|+|||||...+...
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            346789999999999999999864

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=93.08  E-value=0.049  Score=45.70  Aligned_cols=23  Identities=22%  Similarity=0.257  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..|+|+|.+|+|||||...+...
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            46789999999999999999864

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=93.07  E-value=0.082  Score=49.58  Aligned_cols=36  Identities=22%  Similarity=0.313  Sum_probs=26.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..++...|-||+||||+|..++..+...-..++.++
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD   49 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARSGKKTLVIS   49 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEe
Confidence            467778899999999999999877654433444444

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=93.04  E-value=0.059  Score=45.91  Aligned_cols=25  Identities=20%  Similarity=0.488  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +...|+|+|.+|+|||||...+...
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            4567889999999999999999764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.01  E-value=0.047  Score=49.58  Aligned_cols=32  Identities=34%  Similarity=0.508  Sum_probs=24.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      .+++|.|+.|.|||||.+.++.-. . ..+.+++
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl~-p-~~G~I~~   62 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGLL-P-YSGNIFI   62 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS-C-CEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC-C-CCcEEEE
Confidence            489999999999999999998755 2 3344444

>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=93.00  E-value=0.053  Score=44.59  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|.|.+|+|||||...+...
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            35789999999999999998764

>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=92.99  E-value=0.079  Score=44.28  Aligned_cols=25  Identities=24%  Similarity=0.417  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|.+|+|||||...+...
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4567889999999999999998864

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.99  E-value=0.058  Score=45.10  Aligned_cols=25  Identities=28%  Similarity=0.267  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|.|.+|+|||||...+...
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            3567889999999999999999763

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=92.98  E-value=0.087  Score=46.86  Aligned_cols=36  Identities=22%  Similarity=0.148  Sum_probs=25.5

Q ss_pred             eEEEEEE-ccCCCchhHHHHHHHhhccCc-cccceeee
Q 045345          137 VRMIGIC-GMGGIGKTTLARVVYDLSSHE-FEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~-G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~  172 (445)
                      .++|+|+ +-||+||||+|..++..+... -..++.++
T Consensus         4 ~~vI~v~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD   41 (245)
T 3ea0_A            4 KRVFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVD   41 (245)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHTTSTTCCEEEEE
T ss_pred             CeEEEEECCCCCcchHHHHHHHHHHHHhCcCCCEEEEE
Confidence            4677777 568999999999999877654 23344443

>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=92.96  E-value=0.053  Score=45.89  Aligned_cols=24  Identities=29%  Similarity=0.203  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            446789999999999999999864

>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=92.94  E-value=0.055  Score=44.61  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|.|.+|+|||||...+...
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            5789999999999999999864

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=92.93  E-value=0.08  Score=46.83  Aligned_cols=28  Identities=29%  Similarity=0.341  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...|+|.|+.|+||||+++.+++.+...
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            4589999999999999999999887543

>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=92.91  E-value=0.06  Score=46.91  Aligned_cols=25  Identities=28%  Similarity=0.163  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|++|+|||||...+...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3567889999999999999999875

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.90  E-value=0.054  Score=44.85  Aligned_cols=23  Identities=26%  Similarity=0.470  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|+|.+|+|||||...+...
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            35789999999999999999863

>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=92.89  E-value=0.056  Score=44.75  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            346889999999999999998864

>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=92.86  E-value=0.055  Score=44.73  Aligned_cols=23  Identities=17%  Similarity=0.291  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|.|.+|+|||||...+...
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            46789999999999999999864

>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=92.85  E-value=0.066  Score=45.53  Aligned_cols=26  Identities=31%  Similarity=0.216  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .--|+|+|.+|+|||||.+.+.....
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~~   39 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKVP   39 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhcc
Confidence            34678999999999999977765543

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=92.85  E-value=0.47  Score=48.95  Aligned_cols=37  Identities=24%  Similarity=0.226  Sum_probs=25.5

Q ss_pred             chhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       120 ~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +.+.+.+...|...    .+..|+||||.|||+.+.++...
T Consensus       192 ~~Q~~AV~~al~~~----~~~lI~GPPGTGKT~ti~~~I~~  228 (646)
T 4b3f_X          192 TSQKEAVLFALSQK----ELAIIHGPPGTGKTTTVVEIILQ  228 (646)
T ss_dssp             HHHHHHHHHHHHCS----SEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC----CceEEECCCCCCHHHHHHHHHHH
Confidence            34566777777522    37789999999999765554443

>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=92.84  E-value=0.059  Score=44.35  Aligned_cols=22  Identities=27%  Similarity=0.211  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|.|.+|+|||||...+...
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            3789999999999999999764

>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=92.84  E-value=0.055  Score=51.36  Aligned_cols=22  Identities=41%  Similarity=0.564  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+++|.|+.|.|||||.+.++-
T Consensus        31 e~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCchHHHHHHHHhc
Confidence            4899999999999999999976

>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=92.84  E-value=0.052  Score=44.77  Aligned_cols=21  Identities=33%  Similarity=0.555  Sum_probs=18.7

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .|+|+|.+|+|||||...+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999998864

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=92.83  E-value=0.07  Score=47.07  Aligned_cols=26  Identities=15%  Similarity=0.074  Sum_probs=23.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|+|.|+.|+||||+|+.++..+.
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            46999999999999999999998764

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=92.82  E-value=0.092  Score=49.78  Aligned_cols=38  Identities=24%  Similarity=0.288  Sum_probs=26.6

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ....++.+.|-||+||||+|..++..+...-..++.++
T Consensus        24 ~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD   61 (349)
T 3ug7_A           24 DGTKYIMFGGKGGVGKTTMSAATGVYLAEKGLKVVIVS   61 (349)
T ss_dssp             CSCEEEEEECSSSTTHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEe
Confidence            34567778899999999999998876544322334443

>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=92.81  E-value=0.074  Score=43.99  Aligned_cols=22  Identities=32%  Similarity=0.424  Sum_probs=19.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      --|+|.|.+|+|||||...+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3578999999999999999864

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=92.81  E-value=0.088  Score=53.10  Aligned_cols=41  Identities=15%  Similarity=0.085  Sum_probs=28.2

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+.+.+..........+|.|.|++|+||||+|+.+...+.
T Consensus       357 V~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~  397 (546)
T 2gks_A          357 VAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQ  397 (546)
T ss_dssp             HHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhh
Confidence            33444444421122346899999999999999999988653

>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=92.80  E-value=0.059  Score=44.53  Aligned_cols=22  Identities=14%  Similarity=0.246  Sum_probs=19.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|.|.+|+|||||...+...
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            5789999999999999998764

>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=92.78  E-value=0.058  Score=45.79  Aligned_cols=24  Identities=25%  Similarity=0.223  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999888764

>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=92.76  E-value=1.1  Score=42.01  Aligned_cols=143  Identities=12%  Similarity=0.001  Sum_probs=79.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc-CccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHH-H
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS-HEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIG-S  214 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~-~  214 (445)
                      .++..++|+.|.||++.+..+...+. ..|+....+.    .....++..+..                      .+. .
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~----~~~~~~~~~l~~----------------------~~~~~   71 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFS----IDPNTDWNAIFS----------------------LCQAM   71 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEE----CCTTCCHHHHHH----------------------HHHHH
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEE----ecCCCCHHHHHH----------------------HhcCc
Confidence            46889999999999999999987643 2232211111    111122222221                      111 1


Q ss_pred             HHccCcEEEEEcCCCC-H--H---HHHHhcCCCCCcC---------------ccccccc-CCCceEEcCCCCHHHHHHHH
Q 045345          215 RLRYRKVLLIVDAAFD-L--K---QLESLAGKHEWFD---------------EHLLMTH-GVDEVHKLKVLHDDEALQLF  272 (445)
Q Consensus       215 ~l~~~~~LlVlDdv~~-~--~---~l~~l~~~~~~~~---------------~~vl~t~-~~~~~~~l~~L~~~ea~~Lf  272 (445)
                      -+-+.+-++|+|+++. .  +   .+..++..++...               ..+..+. .....++..+++.++..+++
T Consensus        72 plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l  151 (343)
T 1jr3_D           72 SLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWV  151 (343)
T ss_dssp             HHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHH
T ss_pred             CCccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHH
Confidence            1234566778888754 2  2   2333333222111               1222221 12356899999999999888


Q ss_pred             HHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHH
Q 045345          273 CKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVL  307 (445)
Q Consensus       273 ~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  307 (445)
                      ...+-..+..  -..+.+..+++.++|.+..+...
T Consensus       152 ~~~~~~~g~~--i~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          152 AARAKQLNLE--LDDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHHHHHTTCE--ECHHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHHHHHcCCC--CCHHHHHHHHHHhchHHHHHHHH
Confidence            7766332211  12356788999999998877643

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.75  E-value=0.063  Score=44.85  Aligned_cols=24  Identities=29%  Similarity=0.284  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|.|.+|+|||||...+...
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            346789999999999999998764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=92.74  E-value=0.11  Score=47.02  Aligned_cols=36  Identities=14%  Similarity=0.230  Sum_probs=25.8

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ++...+.........|+|+|.+|+|||||...+...
T Consensus        24 ~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           24 EFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             HHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             HHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            333333333334567889999999999999999864

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=92.73  E-value=0.068  Score=50.72  Aligned_cols=26  Identities=23%  Similarity=0.301  Sum_probs=22.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|+|+|.+|+|||||...+....
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999998643

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=92.71  E-value=0.092  Score=51.69  Aligned_cols=24  Identities=29%  Similarity=0.242  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCchhHHHH-HHHhhc
Q 045345          138 RMIGICGMGGIGKTTLAR-VVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~-~~~~~~  161 (445)
                      ..++|.|.+|+|||+||. .+++..
T Consensus       163 QR~~Ifg~~g~GKT~Lal~~I~~~~  187 (502)
T 2qe7_A          163 QRELIIGDRQTGKTTIAIDTIINQK  187 (502)
T ss_dssp             CBCEEEECSSSCHHHHHHHHHHGGG
T ss_pred             CEEEEECCCCCCchHHHHHHHHHhh
Confidence            477899999999999964 666654

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.68  E-value=0.071  Score=45.27  Aligned_cols=24  Identities=17%  Similarity=0.440  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|.|.+|+|||||...+...
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            457889999999999999999865

>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=92.67  E-value=0.043  Score=51.00  Aligned_cols=25  Identities=24%  Similarity=0.570  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|+|+.|.|||||++.+..-+
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHHcCC
Confidence            3589999999999999999987643

>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=92.66  E-value=0.081  Score=44.27  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|.+|+|||||...+...
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            3557889999999999999998764

>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=92.62  E-value=0.054  Score=45.38  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      --|+|.|.+|+|||+|...+...
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            45789999999999999999864

>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=92.62  E-value=0.056  Score=49.82  Aligned_cols=25  Identities=24%  Similarity=0.433  Sum_probs=21.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|+.|.|||||.+.++.-+
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            3589999999999999999997643

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.61  E-value=0.074  Score=44.47  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=21.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|.|.+|+|||||...+...
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            4567889999999999999998753

>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=92.61  E-value=0.064  Score=44.79  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|.|.+|+|||||...+...
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            456889999999999999999764

>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=92.59  E-value=0.064  Score=45.62  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .--|+|+|.+|+|||||...+...
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            346789999999999999998764

>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=92.58  E-value=0.063  Score=45.79  Aligned_cols=23  Identities=26%  Similarity=0.325  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..|+|.|.+|+|||||...+...
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            46789999999999999999864

>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=92.58  E-value=0.065  Score=44.22  Aligned_cols=23  Identities=17%  Similarity=0.184  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|+|.+|+|||||...+...
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            46789999999999999999863

>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=92.57  E-value=0.063  Score=51.03  Aligned_cols=24  Identities=42%  Similarity=0.617  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+++|.|+.|.|||||.+.+..-
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            358999999999999999998763

>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=92.55  E-value=0.1  Score=48.42  Aligned_cols=33  Identities=15%  Similarity=0.196  Sum_probs=26.0

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +++|...+.     ..+++|.|++|+|||||.+.+. ..
T Consensus       156 i~~L~~~l~-----G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLE-----GFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTT-----TCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhcc-----CcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            556666554     2488999999999999999998 54

>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=92.51  E-value=0.061  Score=45.49  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=19.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|+|.|.+|+|||||...+...
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            4789999999999999998864

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=92.51  E-value=0.29  Score=50.26  Aligned_cols=38  Identities=18%  Similarity=0.145  Sum_probs=27.4

Q ss_pred             chhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       120 ~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +.+.+.+...+.     .++..|+|++|.|||+++..+...+.
T Consensus       183 ~~Q~~av~~~l~-----~~~~li~GppGTGKT~~~~~~i~~l~  220 (624)
T 2gk6_A          183 HSQVYAVKTVLQ-----RPLSLIQGPPGTGKTVTSATIVYHLA  220 (624)
T ss_dssp             HHHHHHHHHHHT-----CSEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc-----CCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            445566666554     23678999999999998887776543

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=92.51  E-value=0.065  Score=50.82  Aligned_cols=23  Identities=43%  Similarity=0.768  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++|.|+.|+|||||.+.++--
T Consensus        42 e~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            48999999999999999999763

>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=92.50  E-value=0.082  Score=45.56  Aligned_cols=35  Identities=23%  Similarity=0.183  Sum_probs=25.2

Q ss_pred             EEEEEE-ccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGIC-GMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~-G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ++|+|+ +-||+||||+|..++..+...-..++.++
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~~vlliD   37 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGYNIAVVD   37 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEE
Confidence            567777 77999999999999887654333445554

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=92.43  E-value=0.076  Score=52.60  Aligned_cols=26  Identities=19%  Similarity=0.304  Sum_probs=22.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|.++|++|+||||+++.++..+.
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45788999999999999999987654

>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=92.42  E-value=0.068  Score=44.99  Aligned_cols=24  Identities=25%  Similarity=0.499  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            456789999999999999999864

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=92.41  E-value=0.13  Score=46.80  Aligned_cols=26  Identities=23%  Similarity=0.378  Sum_probs=22.1

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .....|+++|.+|+|||||...++..
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            34567889999999999999999864

>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=92.39  E-value=0.068  Score=45.75  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .--|+|+|.+|+|||||...+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34688999999999999999874

>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=92.38  E-value=0.068  Score=51.11  Aligned_cols=22  Identities=32%  Similarity=0.558  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+++|.|+.|.|||||.+.++-
T Consensus        30 e~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEEcCCCchHHHHHHHHHc
Confidence            4899999999999999999976

>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=92.36  E-value=0.066  Score=51.12  Aligned_cols=26  Identities=19%  Similarity=0.289  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...++|+|+.|.|||||++.++..+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999987654

>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=92.33  E-value=0.07  Score=50.69  Aligned_cols=23  Identities=26%  Similarity=0.453  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++|.|+.|.|||||.+.++--
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHHCC
Confidence            58999999999999999999763

>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=92.32  E-value=0.085  Score=53.85  Aligned_cols=26  Identities=23%  Similarity=0.331  Sum_probs=23.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...+|.|.|++|+||||+|+.+.+.+
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999998876

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=92.31  E-value=0.13  Score=44.92  Aligned_cols=26  Identities=38%  Similarity=0.492  Sum_probs=22.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..|+|-|+.|+||||+++.+.+.+..
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~   29 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQ   29 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            47899999999999999999987644

>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=92.30  E-value=0.097  Score=43.20  Aligned_cols=23  Identities=26%  Similarity=0.280  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      --|+|+|.+|+|||||...+...
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            45789999999999999998754

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=92.28  E-value=0.33  Score=43.05  Aligned_cols=39  Identities=21%  Similarity=-0.038  Sum_probs=28.0

Q ss_pred             ccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          118 GMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       118 Gr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      =|+.+.+.+..++..   +  -+.|+|+.|.|||.+|..++...
T Consensus        94 l~~~Q~~ai~~~~~~---~--~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           94 LRDYQEKALERWLVD---K--RGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CCHHHHHHHHHHTTT---S--EEEEEESSSTTHHHHHHHHHHHS
T ss_pred             cCHHHHHHHHHHHhC---C--CEEEEeCCCCCHHHHHHHHHHHc
Confidence            345556666666542   1  27789999999999998887765

>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=92.28  E-value=0.073  Score=45.06  Aligned_cols=24  Identities=25%  Similarity=0.202  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            456889999999999999999864

>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=92.27  E-value=0.074  Score=44.88  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|.|.+|+|||||...+...
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            35789999999999999999864

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=92.25  E-value=0.072  Score=50.65  Aligned_cols=24  Identities=25%  Similarity=0.432  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+++|.|+.|.|||||.+.++.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            358999999999999999999763

>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=92.24  E-value=0.1  Score=43.54  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
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            457889999999999999999864

>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=92.23  E-value=0.075  Score=45.25  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            456889999999999999998864

>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=92.23  E-value=0.15  Score=50.20  Aligned_cols=24  Identities=25%  Similarity=0.216  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCchhHHHH-HHHhhc
Q 045345          138 RMIGICGMGGIGKTTLAR-VVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~-~~~~~~  161 (445)
                      ..++|.|.+|+|||+||. .+++..
T Consensus       176 QR~~I~g~~g~GKT~Lal~~I~~~~  200 (515)
T 2r9v_A          176 QRELIIGDRQTGKTAIAIDTIINQK  200 (515)
T ss_dssp             CBEEEEEETTSSHHHHHHHHHHTTT
T ss_pred             CEEEEEcCCCCCccHHHHHHHHHhh
Confidence            478899999999999964 666654

>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=92.22  E-value=0.099  Score=43.23  Aligned_cols=24  Identities=33%  Similarity=0.245  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|.|.+|+|||||...+...
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            356889999999999999999764

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=92.22  E-value=0.44  Score=46.37  Aligned_cols=39  Identities=23%  Similarity=0.263  Sum_probs=28.5

Q ss_pred             hhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHh
Q 045345          121 SCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       121 ~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ..++.|...+..   .....++..|.|.+|.||||+....+.
T Consensus       142 ~~l~~l~~~~~~~~~~~~~~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          142 AKLRTLRRLLKDGEPHVSSAKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             HHHHHHHTTCBTTBCCCCCSEEEEEEECTTSCHHHHHHHHCC
T ss_pred             HHHHHHHHHHhhhccccccccEEEEEcCCCCCHHHHHHHHhc
Confidence            345566665432   234578999999999999999988775

>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=92.18  E-value=0.074  Score=50.81  Aligned_cols=23  Identities=35%  Similarity=0.508  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++|.|+.|+|||||.+.++.-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCcHHHHHHHHHHcC
Confidence            48999999999999999999763

>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=92.16  E-value=0.078  Score=44.23  Aligned_cols=23  Identities=22%  Similarity=0.138  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|+|.+|+|||||...+...
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            45789999999999999998753

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=92.16  E-value=0.087  Score=44.21  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ...|+|.|.+|+|||||...+..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHHc
Confidence            45788999999999999999985

>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=92.15  E-value=0.066  Score=46.06  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ..|+|+|.+|+|||||...+..
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4678999999999999999875

>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=92.13  E-value=0.079  Score=44.43  Aligned_cols=23  Identities=26%  Similarity=0.157  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999998764

>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=92.12  E-value=0.076  Score=50.70  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ..+++|.|+.|.|||||.+.++.
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            35899999999999999999976

>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=92.11  E-value=0.079  Score=45.31  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .--|+|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346789999999999999998864

>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=92.09  E-value=0.11  Score=43.83  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|.|.+|+|||||...+...
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            456889999999999999999864

>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=92.07  E-value=0.081  Score=44.49  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
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            456889999999999999999864

>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=92.04  E-value=0.11  Score=43.65  Aligned_cols=23  Identities=26%  Similarity=0.203  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      --|+|.|.+|+|||||...+...
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            46789999999999999998753

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=92.04  E-value=0.08  Score=45.87  Aligned_cols=24  Identities=29%  Similarity=0.203  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            456789999999999999999864

>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=92.04  E-value=0.082  Score=44.27  Aligned_cols=24  Identities=21%  Similarity=0.153  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346889999999999999998764

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.03  E-value=0.083  Score=44.93  Aligned_cols=23  Identities=26%  Similarity=0.173  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|+|.+|+|||||...+...
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            46789999999999999998864

>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=92.01  E-value=0.12  Score=50.28  Aligned_cols=28  Identities=21%  Similarity=0.154  Sum_probs=24.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..+++|.|+.|.|||||.+.+...+...
T Consensus       167 ggii~I~GpnGSGKTTlL~allg~l~~~  194 (418)
T 1p9r_A          167 HGIILVTGPTGSGKSTTLYAGLQELNSS  194 (418)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhhcCCC
Confidence            4689999999999999999998876443

>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=92.01  E-value=0.082  Score=45.68  Aligned_cols=24  Identities=33%  Similarity=0.383  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
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            457889999999999999998764

>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=92.00  E-value=0.078  Score=45.40  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..-|+|+|.+|+|||+|...+.+.
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            346789999999999999877664

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=92.00  E-value=0.11  Score=44.75  Aligned_cols=25  Identities=28%  Similarity=0.315  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|.+|+|||||...+...
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            3457889999999999999998764

>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=91.96  E-value=0.085  Score=44.12  Aligned_cols=24  Identities=29%  Similarity=0.286  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|.|.+|+|||||...+...
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            446789999999999999998764

>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=91.95  E-value=0.064  Score=50.75  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++|.|+.|.|||||.+.++--
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCccHHHHHHHHHcC
Confidence            48999999999999999999863

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=91.94  E-value=0.23  Score=46.95  Aligned_cols=26  Identities=35%  Similarity=0.524  Sum_probs=23.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+++|.|+.|+|||||.+.++.....
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            58999999999999999999987654

>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=91.93  E-value=0.084  Score=45.26  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ...|+|+|.+|+|||||...+..
T Consensus        23 ~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           23 IFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHTCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHHh
Confidence            45788999999999999999853

>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=91.92  E-value=0.055  Score=46.81  Aligned_cols=24  Identities=13%  Similarity=0.190  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999887653

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=91.90  E-value=0.085  Score=45.33  Aligned_cols=24  Identities=33%  Similarity=0.385  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
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            457889999999999999999864

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.89  E-value=0.086  Score=45.00  Aligned_cols=24  Identities=13%  Similarity=0.135  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            346789999999999999999875

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=91.86  E-value=0.089  Score=44.88  Aligned_cols=25  Identities=28%  Similarity=0.413  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|.+|+|||||...+...
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            4568899999999999999998764

>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=91.85  E-value=0.088  Score=44.88  Aligned_cols=24  Identities=17%  Similarity=0.231  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            346889999999999999999764

>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=91.84  E-value=0.11  Score=46.22  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=21.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|.+|+|||||...+...
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            4567899999999999999999864

>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=91.80  E-value=0.09  Score=44.62  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            346789999999999999999864

>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=91.80  E-value=0.13  Score=44.19  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|.|.+|+|||||...+...
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            457889999999999999998754

>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=91.78  E-value=0.089  Score=45.65  Aligned_cols=24  Identities=25%  Similarity=0.196  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
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            456889999999999999999864

>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=91.78  E-value=0.1  Score=48.28  Aligned_cols=24  Identities=29%  Similarity=0.437  Sum_probs=21.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            468999999999999999999864

>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=91.78  E-value=0.087  Score=46.01  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ...|+|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35688999999999999999874

>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=91.77  E-value=0.088  Score=45.20  Aligned_cols=24  Identities=29%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .--|+|+|.+|+|||||...+...
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            456889999999999999998764

>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=91.75  E-value=0.092  Score=44.76  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            346789999999999999999864

>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=91.72  E-value=0.061  Score=51.06  Aligned_cols=22  Identities=41%  Similarity=0.668  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+++|.|+.|.|||||.+.++-
T Consensus        32 e~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4899999999999999999976

>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=91.71  E-value=0.094  Score=44.48  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            457889999999999999998764

>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=91.71  E-value=0.09  Score=50.55  Aligned_cols=24  Identities=33%  Similarity=0.506  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+++|.|+.|+|||||.+.++.-
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCChHHHHHHHHhCC
Confidence            358999999999999999999763

>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=91.69  E-value=0.08  Score=49.07  Aligned_cols=21  Identities=29%  Similarity=0.563  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      -|+|+|.+|+|||||.+.++.
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            458999999999999999775

>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=91.68  E-value=0.12  Score=49.51  Aligned_cols=38  Identities=16%  Similarity=0.171  Sum_probs=27.9

Q ss_pred             CCeEEEEEEc-cCCCchhHHHHHHHhhccCccccceeee
Q 045345          135 YGVRMIGICG-MGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       135 ~~~~vv~I~G-~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ...++|+|+| -||+||||+|..++..+...-..++.++
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD  179 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLN  179 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEE
Confidence            3478888875 8999999999999887654433455554

>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=91.68  E-value=0.094  Score=44.59  Aligned_cols=24  Identities=29%  Similarity=0.249  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .--|+|+|.+|+|||||...+...
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            346789999999999999998864

>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=91.59  E-value=0.11  Score=45.68  Aligned_cols=25  Identities=20%  Similarity=0.357  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|.+|+|||||...+...
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            3467889999999999999999764

>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=91.58  E-value=0.16  Score=42.60  Aligned_cols=24  Identities=33%  Similarity=0.271  Sum_probs=20.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ....|+|.|.+|+|||||...+..
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            346788999999999999988874

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=91.57  E-value=0.12  Score=45.22  Aligned_cols=27  Identities=30%  Similarity=0.406  Sum_probs=24.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...|+|-|+.|+||||++..+.+.+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            358999999999999999999998765

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=91.57  E-value=0.08  Score=50.46  Aligned_cols=34  Identities=26%  Similarity=0.308  Sum_probs=26.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..++|+|+.|.|||||++.+...+.. ..+.+.+.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~~-~~g~I~ie  209 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIPF-DQRLITIE  209 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSCT-TSCEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCCC-CceEEEEC
Confidence            48999999999999999999876543 23444444

>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=91.55  E-value=0.098  Score=44.84  Aligned_cols=24  Identities=17%  Similarity=0.242  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|.|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            457889999999999999998764

>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=91.55  E-value=0.092  Score=44.20  Aligned_cols=24  Identities=25%  Similarity=0.200  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999999864

>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=91.55  E-value=0.099  Score=44.31  Aligned_cols=24  Identities=25%  Similarity=0.210  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
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            457889999999999999998753

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.53  E-value=0.14  Score=43.58  Aligned_cols=24  Identities=25%  Similarity=0.266  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            456889999999999999999864

>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=91.52  E-value=0.099  Score=45.84  Aligned_cols=22  Identities=23%  Similarity=0.193  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|...+...
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            4679999999999999998753

>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=91.51  E-value=0.088  Score=44.43  Aligned_cols=25  Identities=20%  Similarity=0.203  Sum_probs=21.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|.|.+|+|||||...+...
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3457889999999999999999864

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=91.48  E-value=0.094  Score=44.95  Aligned_cols=24  Identities=25%  Similarity=0.202  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            346789999999999999998753

>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=91.48  E-value=0.1  Score=44.22  Aligned_cols=25  Identities=24%  Similarity=0.179  Sum_probs=21.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|.+|+|||||...+...
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3457889999999999999999853

>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=91.46  E-value=0.094  Score=45.08  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .--|+|.|.+|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456889999999999999998753

>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=91.41  E-value=0.1  Score=44.21  Aligned_cols=23  Identities=35%  Similarity=0.348  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|+|.+|+|||||...+...
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            46889999999999999999864

>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=91.38  E-value=0.031  Score=54.46  Aligned_cols=26  Identities=12%  Similarity=0.171  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++|.|.+|+|||+|+..+++....
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~~~  177 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQATV  177 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHHHh
Confidence            35789999999999999999887543

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=91.37  E-value=0.13  Score=42.15  Aligned_cols=22  Identities=27%  Similarity=0.359  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+.+|+|+.|.|||||..+++.
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            5889999999999999988865

>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=91.35  E-value=0.15  Score=44.02  Aligned_cols=25  Identities=12%  Similarity=0.069  Sum_probs=21.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+|+|+|++|+||+++|..+.+.+
T Consensus        11 ~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B           11 RLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHc
Confidence            4699999999999999998887654

>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=91.35  E-value=0.12  Score=47.04  Aligned_cols=24  Identities=25%  Similarity=0.505  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|.|.+|+|||||...+...
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            357899999999999999999764

>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=91.33  E-value=0.15  Score=43.49  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            346789999999999999999763

>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=91.32  E-value=0.11  Score=44.83  Aligned_cols=24  Identities=25%  Similarity=0.281  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
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            457889999999999999998764

>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=91.29  E-value=0.1  Score=44.60  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .-.|+|.|.+|+|||||...+..
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            34688999999999999999865

>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=91.27  E-value=0.091  Score=44.54  Aligned_cols=21  Identities=24%  Similarity=0.197  Sum_probs=19.2

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +.|+|.+|+|||++|.+++..
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            679999999999999999865

>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=91.26  E-value=0.21  Score=47.39  Aligned_cols=36  Identities=22%  Similarity=0.247  Sum_probs=26.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc--Cccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS--HEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~--~~f~~~~~~~  172 (445)
                      ..++...|-||+||||+|..++..+.  ..-..++.++
T Consensus        18 ~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLLvD   55 (354)
T 2woj_A           18 HKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLIS   55 (354)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEEEE
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            45777789999999999999887766  4433445554

>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=91.26  E-value=0.1  Score=45.48  Aligned_cols=24  Identities=38%  Similarity=0.423  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
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            446889999999999999998753

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=91.25  E-value=0.19  Score=46.50  Aligned_cols=38  Identities=16%  Similarity=0.187  Sum_probs=27.8

Q ss_pred             CCeEEEEEEcc-CCCchhHHHHHHHhhccCccccceeee
Q 045345          135 YGVRMIGICGM-GGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       135 ~~~~vv~I~G~-gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ...++|.|+|. ||+||||+|..++..+...-..++.++
T Consensus       102 ~~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID  140 (299)
T 3cio_A          102 TENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFID  140 (299)
T ss_dssp             CSCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEE
Confidence            34678999986 899999999999887654333445554

>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=91.20  E-value=0.11  Score=44.15  Aligned_cols=24  Identities=25%  Similarity=0.242  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|.|.+|+|||+|...+...
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346889999999999999999864

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=91.19  E-value=0.19  Score=45.66  Aligned_cols=51  Identities=18%  Similarity=0.076  Sum_probs=33.0

Q ss_pred             hHHHHHhhhcc--CCCCeEEEEEEcc-CCCchhHHHHHHHhhccCccccceeee
Q 045345          122 CWNTLRFLMDK--EPYGVRMIGICGM-GGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       122 ~l~~l~~~L~~--~~~~~~vv~I~G~-gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .++.|...|..  .....++|+|+|. ||+||||+|..++..+...-..++.++
T Consensus        65 a~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID  118 (271)
T 3bfv_A           65 KFRGIRSNIMFANPDSAVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVD  118 (271)
T ss_dssp             HHHHHHHHHHHSSTTCCCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHHHHHhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEe
Confidence            34455444432  2234678989875 899999999998887654333455554

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=91.18  E-value=0.11  Score=49.19  Aligned_cols=24  Identities=29%  Similarity=0.559  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|++|+|||||...+....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            488999999999999999988644

>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=91.17  E-value=0.11  Score=44.82  Aligned_cols=24  Identities=29%  Similarity=0.304  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            346889999999999999998764

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=91.17  E-value=0.11  Score=44.91  Aligned_cols=24  Identities=21%  Similarity=0.149  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .--|+|.|.+|+|||||...+...
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            346789999999999999998764

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=91.17  E-value=0.12  Score=47.98  Aligned_cols=25  Identities=16%  Similarity=0.243  Sum_probs=22.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+.|+|+|.+|+|||||..++...
T Consensus        23 ~~~~I~vvG~~~~GKSTlln~l~g~   47 (315)
T 1jwy_B           23 DLPQIVVVGSQSSGKSSVLENIVGR   47 (315)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHTS
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHCC
Confidence            4678999999999999999999764

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=91.13  E-value=0.13  Score=44.83  Aligned_cols=23  Identities=39%  Similarity=0.486  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ...|||+|..|+||||+++.+..
T Consensus         9 ~~~iglTGgigsGKStv~~~l~~   31 (210)
T 4i1u_A            9 MYAIGLTGGIGSGKTTVADLFAA   31 (210)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998865

>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=91.08  E-value=0.12  Score=44.54  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            456889999999999999998764

>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=91.05  E-value=0.17  Score=49.12  Aligned_cols=36  Identities=19%  Similarity=0.134  Sum_probs=25.2

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ++.+.-.+.  .+...-++|+|+.|+|||||.+.++..
T Consensus        30 L~~vsl~i~--~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           30 DQLVNKSVS--QGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             HHHHHHSCC---CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             cCCCceEec--CCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            555544343  222233999999999999999999764

>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=91.01  E-value=0.12  Score=44.41  Aligned_cols=24  Identities=33%  Similarity=0.317  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346889999999999999998864

>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=90.99  E-value=0.12  Score=44.63  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
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            356889999999999999998853

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=90.96  E-value=0.2  Score=47.01  Aligned_cols=37  Identities=24%  Similarity=0.284  Sum_probs=27.1

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+++...|-||+||||+|..++..+...-..+..++
T Consensus        18 ~~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllvD   54 (329)
T 2woo_A           18 SLKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLIS   54 (329)
T ss_dssp             TCCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEEE
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            3467778999999999999999887655433344443

>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=90.89  E-value=0.14  Score=47.54  Aligned_cols=25  Identities=28%  Similarity=0.416  Sum_probs=22.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ....|+|+|.+|+|||||..++...
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            4678999999999999999999864

>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=90.85  E-value=0.18  Score=46.60  Aligned_cols=34  Identities=18%  Similarity=0.365  Sum_probs=25.9

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ++++...+.     ..+++|.|++|+|||||.+.+....
T Consensus       160 v~~lf~~l~-----geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhc-----CCeEEEECCCCCcHHHHHHHhcccc
Confidence            455555554     2488999999999999999987643

>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=90.85  E-value=0.13  Score=44.88  Aligned_cols=23  Identities=22%  Similarity=0.182  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      --|+|+|.+|+|||||...+...
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            45779999999999999998764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=90.82  E-value=0.12  Score=44.06  Aligned_cols=24  Identities=33%  Similarity=0.347  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|.+|+|||||...+...
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999998753

>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=90.81  E-value=0.074  Score=44.76  Aligned_cols=24  Identities=21%  Similarity=0.211  Sum_probs=10.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||...+...
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            456889999999999999988753

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=90.79  E-value=0.11  Score=47.88  Aligned_cols=48  Identities=21%  Similarity=0.264  Sum_probs=29.6

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEc---cCCCchhHHHHHHHhhccCccccceeee
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICG---MGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G---~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+.++.+.+..   ..++|+|++   -||+||||+|..++..+...-..++.++
T Consensus        22 ~~~~~~r~~~~---~~~~i~v~~~s~KGGvGKTT~a~nLA~~la~~G~rVlliD   72 (298)
T 2oze_A           22 ILEELRRILSN---KNEAIVILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMID   72 (298)
T ss_dssp             HHHHHHHHHHH---HCSCEEEEECCSSSSSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHHHhcC---CCcEEEEEeccCCCCchHHHHHHHHHHHHHhCCCeEEEEe
Confidence            34555555542   234666665   8999999999999876543322344443

>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=90.76  E-value=0.09  Score=44.64  Aligned_cols=23  Identities=22%  Similarity=0.193  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|+|.|.+|+|||||...+...
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            46789999999999999998764

---

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	445
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-36

>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 =  131 bits (331), Expect = 6e-36
 Identities = 36/263 (13%), Positives = 76/263 (28%), Gaps = 19/263 (7%)

Query: 106 IPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYD----LS 161
           +P +   +     +D     L  + D +      + + G  G GK+ +A         L 
Sbjct: 16  VPKQMTCYIREYHVDRVIKKLDEMCDLD---SFFLFLHGRAGSGKSVIASQALSKSDQLI 72

Query: 162 SHEFEASSFLANVREISEKGGL----ICLQKQLLSELLKLP-DTSTWNVYDGLKMIGSRL 216
              +++  +L +     +        I L  +   +LL  P      +V     +  + +
Sbjct: 73  GINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALI 132

Query: 217 RYRKVLLIVDAAFDLKQLESLAGKH------EWFDEHLLMTHGVDEVHKLKVLHDDEALQ 270
                L + D     + +                 E         E  ++  L  DE   
Sbjct: 133 DRPNTLFVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYD 192

Query: 271 LFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERES 330
                        ++ E +    ++ S G P  L +       KT ++      +LE   
Sbjct: 193 FLEAYGMPMPVG-EKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRG 251

Query: 331 ENEILDILKISFDGLRETEKKIF 353
              +  I   S+  L    ++  
Sbjct: 252 LVGVECITPYSYKSLAMALQRCV 274

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	445
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.49
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.95
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.89
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.71
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.71
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.66
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.64
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.58
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.55
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.53
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.51
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.44
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.44
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.41
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.39
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.38
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.33
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.28
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.19
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.01
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.99
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.89
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.38
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.34
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.31
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.26
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.25
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.16
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.16
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.15
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.14
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.13
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.13
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.11
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.11
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.09
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.03
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.98
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.96
d1okkd2	207	GTPase domain of the signal recognition particle r	96.95
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.93
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.93
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.93
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.92
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.9
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.88
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.88
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.82
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.8
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	96.78
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.77
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.72
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.71
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.68
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.67
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.67
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.67
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.66
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.62
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.57
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.54
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.44
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.4
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.39
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.36
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.35
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.35
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.31
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.3
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.3
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.3
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.23
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.2
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.17
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.16
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.16
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.15
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.11
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.11
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.1
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.1
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.07
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.05
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.04
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.97
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.93
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.92
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.88
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.8
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.75
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.71
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.7
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.7
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.67
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.54
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.53
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.43
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.32
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.26
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.23
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.22
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.2
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.1
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.06
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	94.98
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.93
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.69
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.65
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.6
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.52
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.52
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.48
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.48
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.46
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.42
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.42
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.39
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.36
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.27
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.27
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.26
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.22
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.18
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.12
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	94.09
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.07
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.06
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.05
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.05
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.04
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.99
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.89
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.89
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.87
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.86
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.85
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.8
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.8
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.75
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.73
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.67
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.6
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.56
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.55
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.55
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.53
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.52
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.51
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.49
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.44
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.43
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.42
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.42
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.41
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	93.41
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.39
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.39
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.37
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.36
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.33
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	93.32
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.31
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.31
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	93.28
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.27
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.27
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.23
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.23
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	93.2
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.14
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.14
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.11
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.06
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.02
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	93.01
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	92.99
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.97
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.92
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.9
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.89
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.87
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.85
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.82
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	92.78
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.78
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.78
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.74
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.63
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.6
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.59
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.58
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	92.56
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.55
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.55
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.54
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.54
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.52
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	92.49
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.49
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.48
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.38
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.28
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.21
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.19
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.13
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.03
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.01
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.99
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	91.96
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.93
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.83
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.78
d1tuea_	205	Replication protein E1 helicase domain {Human papi	91.76
d1fyxa_	149	Toll-like receptor 2, TLR2 {Human (Homo sapiens) [	91.72
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.67
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.64
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.63
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	91.4
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	91.15
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.09
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.77
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	90.49
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.09
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	89.76
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	89.31
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.26
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	88.25
d1fyva_	161	Toll-like receptor 1, TLR1 {Human (Homo sapiens) [	87.77
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	86.64
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	86.3
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	86.17
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	86.06
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	84.89
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	84.86
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	84.84
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	84.41
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	84.3
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	84.26
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	84.24
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	83.93
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.8
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	83.5
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	83.34
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	82.64
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	82.58
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	81.5

>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=1.5e-36  Score=281.98  Aligned_cols=234  Identities=13%  Similarity=0.058  Sum_probs=181.0

Q ss_pred             ccccccchhHHHHHhhhcc-CCCCeEEEEEEccCCCchhHHHHHHHhh----ccCccccceeeehhhhhhccCCHHHHHH
Q 045345          114 KDLVGMDSCWNTLRFLMDK-EPYGVRMIGICGMGGIGKTTLARVVYDL----SSHEFEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~----~~~~f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ..++||+.+++.|.++|.. .+.+.++|+|+|||||||||||+++|++    ....|++++|+.    ++...+...+..
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~----vs~~~~~~~l~~   95 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK----DSGTAPKSTFDL   95 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE----CCCCSTTHHHHH
T ss_pred             CceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEE----ecCCCCHHHHHH
Confidence            4578999999999998865 4456789999999999999999999986    455688999998    444344343333


Q ss_pred             H---HHHHHhCCCCCC------CcChhhhHHHHHHHHccCcEEEEEcCCCCHHHHHHhcCCCCCcCcccccccCC-----
Q 045345          189 Q---LLSELLKLPDTS------TWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLAGKHEWFDEHLLMTHGV-----  254 (445)
Q Consensus       189 ~---il~~l~~~~~~~------~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~l~~l~~~~~~~~~~vl~t~~~-----  254 (445)
                      .   ++..+.......      ..........+.+.+.++++|+||||||+.++++.+...    ..++++|++.     
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~~----~srilvTTR~~~v~~  171 (277)
T d2a5yb3          96 FTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQEL----RLRCLVTTRDVEISN  171 (277)
T ss_dssp             HHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHHT----TCEEEEEESBGGGGG
T ss_pred             HHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhccc----CceEEEEeehHHHHH
Confidence            3   333333221111      112222344567788999999999999999999877543    2344544441     


Q ss_pred             ----C-ceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHHHHHHHhhCCCCHHHHHHHHHHHhcC
Q 045345          255 ----D-EVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLALKVLGSFLYGKTTKEWESAPKRLERE  329 (445)
Q Consensus       255 ----~-~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~l~~~  329 (445)
                          . ..|+|++|+.+||++||++++|....+ +..++++.+|+++|+|+||||+++|+.|+.++.+.|.+..+.|...
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~-~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~  250 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG-EKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESR  250 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHH
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCccCc-hhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcC
Confidence                2 468999999999999999999766544 3567889999999999999999999999999999999999999877


Q ss_pred             CchhHHHHHHHhhcCCcHhHHHHHhhh
Q 045345          330 SENEILDILKISFDGLRETEKKIFLDI  356 (445)
Q Consensus       330 ~~~~i~~~l~~s~~~L~~~~k~~~~~l  356 (445)
                      ....+..++..||+.||++.|.||.++
T Consensus       251 ~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         251 GLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             CSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             cHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            778899999999999999999999764

>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=99.49  E-value=5e-13  Score=122.14  Aligned_cols=193  Identities=15%  Similarity=0.160  Sum_probs=108.5

Q ss_pred             CCCCccccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhh-hccCCHH
Q 045345          106 IPAKSEIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREI-SEKGGLI  184 (445)
Q Consensus       106 ~~~~~~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~-~~~~~~~  184 (445)
                      .+.|...+..||||+.++++|.+..      .+.+.|+|++|+|||+|++++++.....+.   |+...... .......
T Consensus         4 ~~~p~~~~~~f~GR~~el~~l~~~~------~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~---~i~~~~~~~~~~~~~~   74 (283)
T d2fnaa2           4 DTSPKDNRKDFFDREKEIEKLKGLR------APITLVLGLRRTGKSSIIKIGINELNLPYI---YLDLRKFEERNYISYK   74 (283)
T ss_dssp             CSSCCCSGGGSCCCHHHHHHHHHTC------SSEEEEEESTTSSHHHHHHHHHHHHTCCEE---EEEGGGGTTCSCCCHH
T ss_pred             CCCCCCChhhCCChHHHHHHHHhcc------CCEEEEEcCCCCcHHHHHHHHHHHCCCCeE---EEEeccccccccccHH
Confidence            3445456789999999999998742      257889999999999999999987655433   22211111 1122233


Q ss_pred             HHHHHHHHHHh--------------CC--------------CCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH-----
Q 045345          185 CLQKQLLSELL--------------KL--------------PDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL-----  231 (445)
Q Consensus       185 ~l~~~il~~l~--------------~~--------------~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-----  231 (445)
                      .+...+.....              ..              ......++......+ ....++++++|+|+++..     
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~~~~~~~~i~id~~~~~~~~~~  153 (283)
T d2fnaa2          75 DFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESF-EQASKDNVIIVLDEAQELVKLRG  153 (283)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHH-HHTCSSCEEEEEETGGGGGGCTT
T ss_pred             HHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHH-Hhhcccccccccchhhhhcccch
Confidence            33333322211              00              000011122222221 123468899999987532     


Q ss_pred             ----HHHHHhcCCCCCc-------Ccc----cccc--------cCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHH
Q 045345          232 ----KQLESLAGKHEWF-------DEH----LLMT--------HGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQ  288 (445)
Q Consensus       232 ----~~l~~l~~~~~~~-------~~~----vl~t--------~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~  288 (445)
                          ..+..+.......       ...    +...        .+....+.|++|+.+++.+++.+..-......+.   
T Consensus       154 ~~~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~---  230 (283)
T d2fnaa2         154 VNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD---  230 (283)
T ss_dssp             CCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC---
T ss_pred             HHHHHHHHHHHHhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHHH---
Confidence                1222221111111       000    0000        0123468899999999999998765322222222   


Q ss_pred             HHHHHHHHhCCChHHHHHHHHhhC
Q 045345          289 LSKYVVKYSGGLPLALKVLGSFLY  312 (445)
Q Consensus       289 ~~~~i~~~~~GlPLal~~~~~~L~  312 (445)
                       ..+|++.++|+|..|..++..+.
T Consensus       231 -~~~i~~~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         231 -YEVVYEKIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             -HHHHHHHHCSCHHHHHHHHHHHH
T ss_pred             -HHHHHHHhCCCHHHHHHHHHHHH
Confidence             56899999999999999987654

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.95  E-value=1.1e-08  Score=92.21  Aligned_cols=161  Identities=17%  Similarity=0.171  Sum_probs=98.1

Q ss_pred             ccccccccchhHHHHHhhhcc----CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccc-eeeehhhhhhccCCHHHH
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK----EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEAS-SFLANVREISEKGGLICL  186 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~-~~~~~~~~~~~~~~~~~l  186 (445)
                      .|..++||+.++++|.++|..    .....+.+.|+|++|+|||++|+.+++.+....... +++.    ..........
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~----~~~~~~~~~~   89 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN----GFIYRNFTAI   89 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE----TTTCCSHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEec----chhhhhhhhh
Confidence            456799999999999998863    223456889999999999999999999876554333 2333    3334556666


Q ss_pred             HHHHHHHHhCCCCCCCcChhhhHHHHHHHHc--cCcEEEEEcCCCCHHH-----HHHhcCCC---CCcCccccccc----
Q 045345          187 QKQLLSELLKLPDTSTWNVYDGLKMIGSRLR--YRKVLLIVDAAFDLKQ-----LESLAGKH---EWFDEHLLMTH----  252 (445)
Q Consensus       187 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~~-----l~~l~~~~---~~~~~~vl~t~----  252 (445)
                      ...+.....................+...+.  ....++++|++++...     ...+....   ......++...    
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~  169 (276)
T d1fnna2          90 IGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDA  169 (276)
T ss_dssp             HHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTH
T ss_pred             hhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchh
Confidence            6677776654444344444555555555443  3567777887764321     12221110   00001111110    


Q ss_pred             ------------CCCceEEcCCCCHHHHHHHHHHhh
Q 045345          253 ------------GVDEVHKLKVLHDDEALQLFCKQA  276 (445)
Q Consensus       253 ------------~~~~~~~l~~L~~~ea~~Lf~~~a  276 (445)
                                  .....+.+.+++.++..+.+.+++
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                        112457899999999999887765

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.89  E-value=2.3e-08  Score=90.60  Aligned_cols=161  Identities=18%  Similarity=0.116  Sum_probs=95.0

Q ss_pred             ccccccccchhHHHHHhhhcc----C---CCCeEEEEEEccCCCchhHHHHHHHhhccCcc------ccceeeehhhhhh
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK----E---PYGVRMIGICGMGGIGKTTLARVVYDLSSHEF------EASSFLANVREIS  178 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~----~---~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f------~~~~~~~~~~~~~  178 (445)
                      .|+.++||+.++++|.+.+..    +   ++...++.|+|++|+|||++++++++.+....      ....++.    ..
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~----~~   89 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN----AF   89 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE----GG
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeec----cc
Confidence            567899999999999886631    1   11133566789999999999999998764332      1223333    33


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHH--ccCcEEEEEcCCCCHH--------HHHHh------c-CCC
Q 045345          179 EKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRL--RYRKVLLIVDAAFDLK--------QLESL------A-GKH  241 (445)
Q Consensus       179 ~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~~--------~l~~l------~-~~~  241 (445)
                      .................................+....  .+...++++|.++...        ....+      . ...
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~  169 (287)
T d1w5sa2          90 NAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRD  169 (287)
T ss_dssp             GCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTT
T ss_pred             cccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhh
Confidence            34455566666666665444433444444455554444  3467788888775331        11111      1 111


Q ss_pred             CCcCcc-cc-----------------cccCCCceEEcCCCCHHHHHHHHHHhh
Q 045345          242 EWFDEH-LL-----------------MTHGVDEVHKLKVLHDDEALQLFCKQA  276 (445)
Q Consensus       242 ~~~~~~-vl-----------------~t~~~~~~~~l~~L~~~ea~~Lf~~~a  276 (445)
                      ...... +.                 ...+....+.+++++.++..+++...+
T Consensus       170 ~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         170 GVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             SCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             cccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            111000 11                 111234678899999999999998765

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.71  E-value=6.3e-08  Score=84.75  Aligned_cols=171  Identities=16%  Similarity=0.170  Sum_probs=98.2

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcc-ccceeeehhhhhhccCCHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF-EASSFLANVREISEKGGLICLQKQ  189 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~l~~~  189 (445)
                      ....++||.+..++.|..++..+  ..+.+.++|++|+||||+|+.+++.+...+ ...++..+   .+...+...+...
T Consensus        12 ~~~~d~ig~~~~~~~L~~~~~~~--~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n---~~~~~~~~~i~~~   86 (224)
T d1sxjb2          12 QVLSDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELN---ASDDRGIDVVRNQ   86 (224)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC---TTSCCSHHHHHTH
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcC--CCCeEEEECCCCCCchhhHHHHHHHHhcccccccccccc---ccccCCceehhhH
Confidence            45578999999999999999854  344577999999999999999998754332 11222221   2222333332222


Q ss_pred             HHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH--HHHHh---cC-CCCC--c------Cccccccc-CC
Q 045345          190 LLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK--QLESL---AG-KHEW--F------DEHLLMTH-GV  254 (445)
Q Consensus       190 il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~l~~l---~~-~~~~--~------~~~vl~t~-~~  254 (445)
                      +..........               ..++.-++|+|+++...  ....+   .. ....  +      ...+..+. ..
T Consensus        87 ~~~~~~~~~~~---------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr  151 (224)
T d1sxjb2          87 IKHFAQKKLHL---------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQ  151 (224)
T ss_dssp             HHHHHHBCCCC---------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             HHHHHHhhccC---------------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHH
Confidence            22211111000               02355688899997432  11111   11 1110  0      11111111 12


Q ss_pred             CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHH
Q 045345          255 DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLA  303 (445)
Q Consensus       255 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLa  303 (445)
                      ...+++++++.++-...+...+.......  ..+....|++.++|-+.-
T Consensus       152 ~~~i~~~~~~~~~i~~~l~~i~~~e~~~i--~~~~l~~I~~~s~Gd~R~  198 (224)
T d1sxjb2         152 CAILRYSKLSDEDVLKRLLQIIKLEDVKY--TNDGLEAIIFTAEGDMRQ  198 (224)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHTCCB--CHHHHHHHHHHHTTCHHH
T ss_pred             HHHhhhcccchhhhHHHHHHHHHhcccCC--CHHHHHHHHHHcCCcHHH
Confidence            35689999999999999887764322221  135578899999998753

>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=98.71  E-value=8.3e-08  Score=85.50  Aligned_cols=142  Identities=11%  Similarity=0.075  Sum_probs=86.3

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-----c-ccceeeehhhhhhccCCHHHHHH
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-----F-EASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-----f-~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      ..+||+.++++|...|....  ..-+.++|++|+|||+|+..+++++...     . ...+|..+....-          
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~--k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~li----------   86 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL----------   86 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------------
T ss_pred             cccChHHHHHHHHHHHhcCc--cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHh----------
Confidence            48999999999999998533  2356699999999999999999874321     1 2334443222111          


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHH-ccCcEEEEEcCCCCH----------HHHHHhc-CCCCCcCcccccccC---
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRL-RYRKVLLIVDAAFDL----------KQLESLA-GKHEWFDEHLLMTHG---  253 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------~~l~~l~-~~~~~~~~~vl~t~~---  253 (445)
                              .........++....+...+ ...++++++|++...          .++..++ +.....+-+++.++.   
T Consensus        87 --------ag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~vIgatT~ee  158 (268)
T d1r6bx2          87 --------AGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQE  158 (268)
T ss_dssp             --------CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHH
T ss_pred             --------ccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHHH
Confidence                    11112344455554444444 456799999998643          2233333 333332233332221   


Q ss_pred             -------------CCceEEcCCCCHHHHHHHHHHhh
Q 045345          254 -------------VDEVHKLKVLHDDEALQLFCKQA  276 (445)
Q Consensus       254 -------------~~~~~~l~~L~~~ea~~Lf~~~a  276 (445)
                                   .-..+.|++++.+++.+++....
T Consensus       159 y~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         159 FSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             HHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence                         12568899999999999987544

>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=98.66  E-value=1.8e-07  Score=82.29  Aligned_cols=176  Identities=12%  Similarity=0.083  Sum_probs=97.0

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCcc---ccceeeehhhhhhccCCHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEF---EASSFLANVREISEKGGLICLQ  187 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f---~~~~~~~~~~~~~~~~~~~~l~  187 (445)
                      ....+++|.+..++.|..++...  ..+.+.++|++|+||||+|+.+++++....   .....+.    .+...+.....
T Consensus         9 ~~~~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~----~~~~~~~~~~~   82 (237)
T d1sxjd2           9 KNLDEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELN----ASDERGISIVR   82 (237)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEEC----SSSCCCHHHHT
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhhee----ccccccchHHH
Confidence            34567999999999999999743  344578999999999999999998753221   1111121    12222332222


Q ss_pred             HHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HH---HHHhcCCCCCcCccccccc-C--------
Q 045345          188 KQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQ---LESLAGKHEWFDEHLLMTH-G--------  253 (445)
Q Consensus       188 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~---l~~l~~~~~~~~~~vl~t~-~--------  253 (445)
                      ..+ ........... .    ...+......+.-++|+|+++..  ..   +..+...... ...++.+. .        
T Consensus        83 ~~~-~~~~~~~~~~~-~----~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~-~~~~i~~~~~~~~~~~~l  155 (237)
T d1sxjd2          83 EKV-KNFARLTVSKP-S----KHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSG-VTRFCLICNYVTRIIDPL  155 (237)
T ss_dssp             THH-HHHHHSCCCCC-C----TTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTT-TEEEEEEESCGGGSCHHH
T ss_pred             HHH-HHHhhhhhhhh-h----HHHHhhccccCceEEEEecccccCHHHHHHHhhccccccc-cccccccccccccccccc
Confidence            221 11111111110 0    11122233344557999999743  22   2222211111 11111111 1        


Q ss_pred             --CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCCh
Q 045345          254 --VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       254 --~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlP  301 (445)
                        ....+++.+++.++..+++...+.......  ..+..+.|++.++|-+
T Consensus       156 ~sr~~~i~f~~~~~~~~~~~L~~i~~~e~i~i--~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         156 ASQCSKFRFKALDASNAIDRLRFISEQENVKC--DDGVLERILDISAGDL  203 (237)
T ss_dssp             HHHSEEEECCCCCHHHHHHHHHHHHHTTTCCC--CHHHHHHHHHHTSSCH
T ss_pred             cchhhhhccccccccccchhhhhhhhhhcCcC--CHHHHHHHHHHcCCCH
Confidence              125689999999999999988764433221  2356788888888765

>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=98.64  E-value=1.3e-07  Score=82.79  Aligned_cols=168  Identities=14%  Similarity=0.127  Sum_probs=94.8

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeehhhhhhccCCHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLANVREISEKGGLICLQKQ  189 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~l~~~  189 (445)
                      ....++||.+..++.|..++..+.  .+.+.++|++|+||||+|+.+++.+... +...+...+   .+...+.......
T Consensus        11 ~~~~divg~~~~~~~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~---~~~~~~~~~~~~~   85 (227)
T d1sxjc2          11 ETLDEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELN---ASDDRGIDVVRNQ   85 (227)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEEC---TTSCCSHHHHHTH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEec---ccccCCeeeeecc
Confidence            345789999999999999998543  4446799999999999999999875322 222222111   1222222221111


Q ss_pred             HHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHHHh---cCCCCCc---------Ccccccc-cCC
Q 045345          190 LLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLESL---AGKHEWF---------DEHLLMT-HGV  254 (445)
Q Consensus       190 il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~~l---~~~~~~~---------~~~vl~t-~~~  254 (445)
                      .........                ...++..++|+|+++..  .....+   +......         ...+..+ ...
T Consensus        86 ~~~~~~~~~----------------~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr  149 (227)
T d1sxjc2          86 IKDFASTRQ----------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQ  149 (227)
T ss_dssp             HHHHHHBCC----------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             hhhcccccc----------------ccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHH
Confidence            111111000                01234568889999743  222222   2111110         1111111 123


Q ss_pred             CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCCh
Q 045345          255 DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       255 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlP  301 (445)
                      ...+++.+++.++-.+.+...+.......+  .+....|++.++|-.
T Consensus       150 ~~~i~~~~~~~~~i~~~l~~I~~~e~i~i~--~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         150 CTRFRFQPLPQEAIERRIANVLVHEKLKLS--PNAEKALIELSNGDM  194 (227)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTCCBC--HHHHHHHHHHHTTCH
T ss_pred             HhhhccccccccccccccccccccccccCC--HHHHHHHHHHcCCcH
Confidence            456899999999999988877644332221  355788999999875

>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=98.58  E-value=8e-08  Score=80.91  Aligned_cols=45  Identities=16%  Similarity=0.195  Sum_probs=38.4

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..|||+.+++++...|....  ..-+.++|.+|+|||+|+..++.++
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~--k~n~lLvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcCcHHHHHHHHHHHhccC--CCCeEEEecCCcccHHHHHHHHHHH
Confidence            47999999999999998533  2356799999999999999999875

>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=98.55  E-value=3.1e-07  Score=80.58  Aligned_cols=169  Identities=14%  Similarity=0.108  Sum_probs=94.5

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeehhhhhhccCCHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLANVREISEKGGLICLQKQ  189 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~l~~~  189 (445)
                      ....+++|.+..++.|..++..+  ..+.+.|+|++|+||||+|+.+++.+... +.......+.   +...+...+...
T Consensus        21 ~~~~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~---s~~~~~~~~~~~   95 (231)
T d1iqpa2          21 QRLDDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNA---SDERGINVIREK   95 (231)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEET---TCHHHHHTTHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEec---CcccchhHHHHH
Confidence            34578999999999999999854  34567899999999999999999875432 2222221111   111011111111


Q ss_pred             HHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--HHHH---HhcCCCCCcCccccccc----------CC
Q 045345          190 LLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--KQLE---SLAGKHEWFDEHLLMTH----------GV  254 (445)
Q Consensus       190 il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~l~---~l~~~~~~~~~~vl~t~----------~~  254 (445)
                      +.......                .....++.++++|+++..  ....   .+.........-++.+.          ..
T Consensus        96 ~~~~~~~~----------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR  159 (231)
T d1iqpa2          96 VKEFARTK----------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR  159 (231)
T ss_dssp             HHHHHHSC----------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHHHhhh----------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCc
Confidence            11110000                011246678999998632  2222   22211111011111111          12


Q ss_pred             CceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH
Q 045345          255 DEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL  302 (445)
Q Consensus       255 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL  302 (445)
                      ...+.+.+.+.++....+...+......  -..+..+.|++.++|-..
T Consensus       160 ~~~i~~~~~~~~~~~~~l~~~~~~e~i~--i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         160 CAIFRFRPLRDEDIAKRLRYIAENEGLE--LTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHTTTCE--ECHHHHHHHHHHHTTCHH
T ss_pred             cccccccccchhhHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHH
Confidence            3568899999999999888777443322  123557889999988754

>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=98.53  E-value=1e-06  Score=77.63  Aligned_cols=183  Identities=17%  Similarity=0.123  Sum_probs=96.8

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHH
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQL  190 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~i  190 (445)
                      ....+++|.+..++.|..++..+. -...+.|+|++|+||||+|+.+++.+......  ..       ...........+
T Consensus         9 ~~~~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~--~~-------~~~~~~~~~~~i   78 (239)
T d1njfa_           9 QTFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGI--TA-------TPCGVCDNCREI   78 (239)
T ss_dssp             SSGGGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCS--CS-------SCCSCSHHHHHH
T ss_pred             CCHHHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCcccc--cc-------CccccchHHHHH
Confidence            345789999999999999987532 23457899999999999999998865322110  00       000000001111


Q ss_pred             HHHH----hCCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HH---HHHhcCCCCCcCcccccccC---
Q 045345          191 LSEL----LKLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQ---LESLAGKHEWFDEHLLMTHG---  253 (445)
Q Consensus       191 l~~l----~~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~---l~~l~~~~~~~~~~vl~t~~---  253 (445)
                      ....    ...........+.. ..+.+..     .++..++|||+++..  +.   +...+........-++++..   
T Consensus        79 ~~~~~~~~~~~~~~~~~~i~~i-r~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~  157 (239)
T d1njfa_          79 EQGRFVDLIEIDAASRTKVEDT-RDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  157 (239)
T ss_dssp             HHTCCTTEEEEETTCSSSHHHH-HHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGG
T ss_pred             HcCCCCeEEEecchhcCCHHHH-HHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccc
Confidence            1100    00000001111111 1111111     235568999999853  22   22222222111112222221   


Q ss_pred             -------CCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH-HHHH
Q 045345          254 -------VDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL-ALKV  306 (445)
Q Consensus       254 -------~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL-al~~  306 (445)
                             ....+.+.+++.++-.+.+...+-......  .++.+..|+..++|.+. ||..
T Consensus       158 i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~--~~~~l~~i~~~s~Gd~R~ain~  216 (239)
T d1njfa_         158 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAH--EPRALQLLARAAEGSLRDALSL  216 (239)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCB--CHHHHHHHHHHTTTCHHHHHHH
T ss_pred             cChhHhhhhcccccccCcHHHhhhHHHHHHhhhccCC--CHHHHHHHHHHcCCCHHHHHHH
Confidence                   235689999999999888877663322221  23557789999999885 4443

>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=98.51  E-value=4.6e-07  Score=80.39  Aligned_cols=50  Identities=20%  Similarity=0.220  Sum_probs=40.6

Q ss_pred             cccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ...++++|.+...+.|..++.... ..+.+.|+|++|+||||+|+.+++.+
T Consensus         8 ~~~~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           8 KSLNALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            345789999999999998887533 24456799999999999999999864

>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=98.44  E-value=2.3e-06  Score=76.21  Aligned_cols=163  Identities=19%  Similarity=0.144  Sum_probs=92.2

Q ss_pred             ccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCC
Q 045345          114 KDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGG  182 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~  182 (445)
                      .+++|.+...++|.+.+..           +-...+-+.++|++|+|||+||+++++.....|    +..........  
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~----~~i~~~~l~~~--   77 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF----FLINGPEIMSK--   77 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEE----EEECHHHHTTS--
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeE----EEEEchhhccc--
Confidence            4688999998888775321           212345688999999999999999998754432    22111111100  


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH----------------HHHHhc-CCCCC--
Q 045345          183 LICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK----------------QLESLA-GKHEW--  243 (445)
Q Consensus       183 ~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~l~~l~-~~~~~--  243 (445)
                                       ............+...-..+|.+|+|||++...                .+.... .....  
T Consensus        78 -----------------~~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (258)
T d1e32a2          78 -----------------LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  140 (258)
T ss_dssp             -----------------CTTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSC
T ss_pred             -----------------ccccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCC
Confidence                             000111112222333345789999999997431                111111 11110  


Q ss_pred             -c-----------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChH
Q 045345          244 -F-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPL  302 (445)
Q Consensus       244 -~-----------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL  302 (445)
                       +           +..++...+.+..+.++..+.++-.++|.....+..... +  .....|++.+.|+--
T Consensus       141 vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~-~--~~~~~la~~t~G~s~  208 (258)
T d1e32a2         141 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLAD-D--VDLEQVANETHGHVG  208 (258)
T ss_dssp             EEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCT-T--CCHHHHHHHCTTCCH
T ss_pred             ccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCccccc-c--cchhhhhhcccCCCH
Confidence             0           222222224668899999999999999987763322111 1  114568888888643

>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=98.44  E-value=1.3e-06  Score=77.42  Aligned_cols=180  Identities=13%  Similarity=0.046  Sum_probs=94.7

Q ss_pred             cccccccccchhHHHHHhhhcc---------------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhh
Q 045345          111 EIFKDLVGMDSCWNTLRFLMDK---------------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVR  175 (445)
Q Consensus       111 ~~~~~~vGr~~~l~~l~~~L~~---------------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~  175 (445)
                      ....+++|.+..+++|..++..               +....+.+.++|++|+||||+|+++++.+...   .+++.   
T Consensus        11 ~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~---~~~~~---   84 (253)
T d1sxja2          11 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD---ILEQN---   84 (253)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE---EEEEC---
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhh---hhccc---
Confidence            3457899999999999888742               12235688999999999999999999876433   22332   


Q ss_pred             hhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH--------HHHHHhcCCCC-Cc--
Q 045345          176 EISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL--------KQLESLAGKHE-WF--  244 (445)
Q Consensus       176 ~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--------~~l~~l~~~~~-~~--  244 (445)
                       .+...+...+ ............ ......  ..........+..++++|+++..        ..+..+..... .+  
T Consensus        85 -~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~ii~  159 (253)
T d1sxja2          85 -ASDVRSKTLL-NAGVKNALDNMS-VVGYFK--HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLIL  159 (253)
T ss_dssp             -TTSCCCHHHH-HHTGGGGTTBCC-STTTTT--C----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCEEE
T ss_pred             -cccchhhHHH-HHHHHHHhhcch-hhhhhh--hhhhcccccccceEEEeeeccccccchhhhhHHHhhhhccccccccc
Confidence             1111121111 111111111100 000000  00011122456778899987632        11111111111 00  


Q ss_pred             ------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCC-CCchHHHHHHHHHHHHhCCCh-HHH
Q 045345          245 ------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTN-QPWKEYEQLSKYVVKYSGGLP-LAL  304 (445)
Q Consensus       245 ------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~~i~~~~~GlP-Lal  304 (445)
                            ...+-.-.+....+++.+++.++-...+...+-... ..++   +....|++.++|-. -||
T Consensus       160 i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~---~~l~~i~~~s~GDiR~ai  224 (253)
T d1sxja2         160 ICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP---NVIDRLIQTTRGDIRQVI  224 (253)
T ss_dssp             EESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT---THHHHHHHHTTTCHHHHH
T ss_pred             ccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCH---HHHHHHHHhCCCcHHHHH
Confidence                  001111112346789999999998888876552212 1111   34677889999976 443

>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=98.41  E-value=6.2e-07  Score=84.27  Aligned_cols=139  Identities=10%  Similarity=0.073  Sum_probs=77.0

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc------cccceeeehhhhhhccCCHHHHHH
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE------FEASSFLANVREISEKGGLICLQK  188 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~------f~~~~~~~~~~~~~~~~~~~~l~~  188 (445)
                      .+|||+.+++++...|.....  .-+.++|++|+|||+|+..+++++...      ....+|..++...-..        
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~k--~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag--------   92 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRTK--NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG--------   92 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSSC--CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------------
T ss_pred             CCcCcHHHHHHHHHHHhcCCC--CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcc--------
Confidence            479999999999999985332  234578999999999999888764221      2234555433222110        


Q ss_pred             HHHHHHhCCCCCCCcChhhhHHHHHHHH-cc-CcEEEEEcCCCCHHHH-------------HHhcCCCCCcCccccccc-
Q 045345          189 QLLSELLKLPDTSTWNVYDGLKMIGSRL-RY-RKVLLIVDAAFDLKQL-------------ESLAGKHEWFDEHLLMTH-  252 (445)
Q Consensus       189 ~il~~l~~~~~~~~~~~~~~~~~l~~~l-~~-~~~LlVlDdv~~~~~l-------------~~l~~~~~~~~~~vl~t~-  252 (445)
                                .......+..+..+...+ .. .+++|++|++...-..             ...+...   .-+++.++ 
T Consensus        93 ----------~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg---~~~~I~~tT  159 (387)
T d1qvra2          93 ----------AKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG---ELRLIGATT  159 (387)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT---CCCEEEEEC
T ss_pred             ----------cCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC---CcceeeecC
Confidence                      011123333443343333 22 4799999999765211             1111111   11111111 


Q ss_pred             --------------CCCceEEcCCCCHHHHHHHHHHhh
Q 045345          253 --------------GVDEVHKLKVLHDDEALQLFCKQA  276 (445)
Q Consensus       253 --------------~~~~~~~l~~L~~~ea~~Lf~~~a  276 (445)
                                    +.-..+.|++++.+++..++....
T Consensus       160 ~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         160 LDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHHHHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence                          223568999999999999987554

>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=98.39  E-value=1.6e-06  Score=76.24  Aligned_cols=53  Identities=23%  Similarity=0.348  Sum_probs=41.7

Q ss_pred             ccccccccchhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..+++||-+..+++|..++..   .....+-+.++|++|+||||+|+.+++.....
T Consensus         7 ~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~   62 (239)
T d1ixsb2           7 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN   62 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            457899999999998887753   22235667899999999999999999876443

>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=98.38  E-value=2.4e-06  Score=75.41  Aligned_cols=162  Identities=18%  Similarity=0.161  Sum_probs=89.1

Q ss_pred             ccccccccchhHHHHHhhhc---c-------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccC
Q 045345          112 IFKDLVGMDSCWNTLRFLMD---K-------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKG  181 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~---~-------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~  181 (445)
                      ...+++|.+...+.|.+.+.   .       +....+-+.++|++|+|||+||+++++.....|   +.+. ...     
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~---~~i~-~~~-----   77 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPF---ITAS-GSD-----   77 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCE---EEEE-HHH-----
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCE---EEEE-hHH-----
Confidence            44679999988777665432   1       122245688999999999999999998764322   2222 111     


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCcChhhhHHH-HHHHHccCcEEEEEcCCCCHH----------------HHHHhc----C-
Q 045345          182 GLICLQKQLLSELLKLPDTSTWNVYDGLKM-IGSRLRYRKVLLIVDAAFDLK----------------QLESLA----G-  239 (445)
Q Consensus       182 ~~~~l~~~il~~l~~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~~----------------~l~~l~----~-  239 (445)
                              +++.       ........+.. +...-...|.+|+|||++...                .+..++    + 
T Consensus        78 --------l~~~-------~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~  142 (247)
T d1ixza_          78 --------FVEM-------FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGF  142 (247)
T ss_dssp             --------HHHS-------CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTC
T ss_pred             --------hhhc-------cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCC
Confidence                    1110       00011111222 222234678899999986320                122221    1 


Q ss_pred             -CCCC-c-----------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCC-CchHHHHHHHHHHHHhCCCh
Q 045345          240 -KHEW-F-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQ-PWKEYEQLSKYVVKYSGGLP  301 (445)
Q Consensus       240 -~~~~-~-----------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~GlP  301 (445)
                       .... +           +..++...+.+..+++++.+.++-.++|+........ ...+    ...+++.+.|..
T Consensus       143 ~~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~----~~~la~~t~g~s  214 (247)
T d1ixza_         143 EKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFV  214 (247)
T ss_dssp             CTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCC
T ss_pred             CCCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccC----HHHHHHHCCCCC
Confidence             1010 0           2222222345678999999999999999877743221 1112    345666776653

>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=98.33  E-value=7e-07  Score=79.92  Aligned_cols=165  Identities=14%  Similarity=0.160  Sum_probs=90.6

Q ss_pred             cccccccchhHHHHHhhhcc-----------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccC
Q 045345          113 FKDLVGMDSCWNTLRFLMDK-----------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKG  181 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~  181 (445)
                      ..+++|.+...++|.+.+..           +-...+-|.++|++|+|||+||+++++....+|    +.........  
T Consensus         6 f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~----~~~~~~~l~~--   79 (265)
T d1r7ra3           6 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF----ISIKGPELLT--   79 (265)
T ss_dssp             CSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEE----EEECHHHHHT--
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcE----EEEEHHHhhh--
Confidence            35678888887777664421           222245688999999999999999999875443    2221111100  


Q ss_pred             CHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHH----------------HHHHhcCCCCCc-
Q 045345          182 GLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLK----------------QLESLAGKHEWF-  244 (445)
Q Consensus       182 ~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~l~~l~~~~~~~-  244 (445)
                                     ..  ...........+...-...|.+|+|||++...                .+..++.....+ 
T Consensus        80 ---------------~~--~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~  142 (265)
T d1r7ra3          80 ---------------MW--FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  142 (265)
T ss_dssp             ---------------SC--TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC---
T ss_pred             ---------------cc--ccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcC
Confidence                           00  00111112222333345688999999986321                122222111111 


Q ss_pred             -----------------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHH
Q 045345          245 -----------------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLA  303 (445)
Q Consensus       245 -----------------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLa  303 (445)
                                       +..+....+.+..++++..+.++-.++|.....+ .....  .....+|++.+.|...+
T Consensus       143 ~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~-~~~~~--~~~l~~la~~t~g~s~~  215 (265)
T d1r7ra3         143 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK-SPVAK--DVDLEFLAKMTNGFSGA  215 (265)
T ss_dssp             ---CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTC-C------CCCCHHHHHHHCSSCCH
T ss_pred             CCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhcc-CCchh--hhhHHHHHhcCCCCCHH
Confidence                             2222222345677999999999999999876532 11110  01135677788776543

>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=98.28  E-value=2.5e-06  Score=75.56  Aligned_cols=163  Identities=15%  Similarity=0.147  Sum_probs=90.2

Q ss_pred             cccccccchhHHHHHhhhc---c-------CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCC
Q 045345          113 FKDLVGMDSCWNTLRFLMD---K-------EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGG  182 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~---~-------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~  182 (445)
                      -.+++|.+...++|.+.+.   .       +....+-+.++|++|+|||+||+++++.....|   +-+. .......  
T Consensus        11 ~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~---~~i~-~~~l~~~--   84 (256)
T d1lv7a_          11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTIS-GSDFVEM--   84 (256)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCE---EEEC-SCSSTTS--
T ss_pred             HHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCE---EEEE-hHHhhhc--
Confidence            3678999988887765432   1       112246688999999999999999998764332   1111 1100000  


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCH-------------H---HHHHhc---C---C
Q 045345          183 LICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDL-------------K---QLESLA---G---K  240 (445)
Q Consensus       183 ~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~---~l~~l~---~---~  240 (445)
                                       -...........+...-+..|.+|+|||++..             .   .+..++   .   .
T Consensus        85 -----------------~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  147 (256)
T d1lv7a_          85 -----------------FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG  147 (256)
T ss_dssp             -----------------CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS
T ss_pred             -----------------chhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence                             00011122223333334578889999998531             0   112221   1   1


Q ss_pred             CC-Cc-----------CcccccccCCCceEEcCCCCHHHHHHHHHHhhcCCCC-CchHHHHHHHHHHHHhCCChH
Q 045345          241 HE-WF-----------DEHLLMTHGVDEVHKLKVLHDDEALQLFCKQAFKTNQ-PWKEYEQLSKYVVKYSGGLPL  302 (445)
Q Consensus       241 ~~-~~-----------~~~vl~t~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~GlPL  302 (445)
                      .. .+           +..++...+.+..+.++..+.++-.++|....-+... ...+    ...+++.+.|+.-
T Consensus       148 ~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~  218 (256)
T d1lv7a_         148 NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFSG  218 (256)
T ss_dssp             SSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCH
T ss_pred             CCCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccC----HHHHHHhCCCCCH
Confidence            11 00           2333322345678999999999999999877633221 1122    3456777777653

>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=98.19  E-value=5.7e-06  Score=72.50  Aligned_cols=53  Identities=19%  Similarity=0.341  Sum_probs=41.8

Q ss_pred             ccccccccchhHHHHHhhhcc---CCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          112 IFKDLVGMDSCWNTLRFLMDK---EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..+++||.+..++.|..++..   .....+-+.++|++|+|||++|+.+++.+...
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~   62 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN   62 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC
T ss_pred             cHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCC
Confidence            457899999999999888753   12234567799999999999999999876544

>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=98.01  E-value=5.5e-05  Score=64.49  Aligned_cols=166  Identities=15%  Similarity=0.064  Sum_probs=85.7

Q ss_pred             chhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc-cccceeeehhhhhhccCCHHHHHHHHHHHHh---
Q 045345          120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE-FEASSFLANVREISEKGGLICLQKQLLSELL---  195 (445)
Q Consensus       120 ~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~---  195 (445)
                      +...+.+.+.+..+. -...+.++|++|+||||+|+.+++.+-.. ....-..          +...-...+.....   
T Consensus         8 ~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~----------~~~~~~~~i~~~~~~~~   76 (207)
T d1a5ta2           8 RPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSC----------GHCRGCQLMQAGTHPDY   76 (207)
T ss_dssp             HHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCC----------SCSHHHHHHHHTCCTTE
T ss_pred             HHHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHHhcccccccccccc----------cccchhhhhhhcccccc
Confidence            445667777666332 23468899999999999999998864211 1100000          00000001111000   


Q ss_pred             ----CCCCCCCcChhhhHHHHHHHH-----ccCcEEEEEcCCCCH--HH---HHHhcCCCCCc---------Cccccccc
Q 045345          196 ----KLPDTSTWNVYDGLKMIGSRL-----RYRKVLLIVDAAFDL--KQ---LESLAGKHEWF---------DEHLLMTH  252 (445)
Q Consensus       196 ----~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~---l~~l~~~~~~~---------~~~vl~t~  252 (445)
                          .......-..++ +..+.+.+     .+++-++|+||++..  +.   +-.++..+...         -..++.|.
T Consensus        77 ~~~~~~~~~~~i~~~~-ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI  155 (207)
T d1a5ta2          77 YTLAPEKGKNTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATL  155 (207)
T ss_dssp             EEECCCTTCSSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHH
T ss_pred             chhhhhhcccccccch-hhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhh
Confidence                000011111222 22233332     245679999999843  22   33333332221         11222221


Q ss_pred             -CCCceEEcCCCCHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHHhCCChHHH
Q 045345          253 -GVDEVHKLKVLHDDEALQLFCKQAFKTNQPWKEYEQLSKYVVKYSGGLPLAL  304 (445)
Q Consensus       253 -~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  304 (445)
                       .....+.+.+++.++....+....   .. +   .+.+..+++.++|.|...
T Consensus       156 ~SRc~~i~~~~~~~~~~~~~L~~~~---~~-~---~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         156 RSRCRLHYLAPPPEQYAVTWLSREV---TM-S---QDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHC---CC-C---HHHHHHHHHHTTTCHHHH
T ss_pred             cceeEEEecCCCCHHHHHHHHHHcC---CC-C---HHHHHHHHHHcCCCHHHH
Confidence             123578999999999999887654   11 1   355777889999998643

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.99  E-value=2.8e-05  Score=66.69  Aligned_cols=58  Identities=17%  Similarity=0.084  Sum_probs=39.2

Q ss_pred             cccccchhH--HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          115 DLVGMDSCW--NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       115 ~~vGr~~~l--~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .++|-..++  ..+.++..........+.|+|++|+|||.|+.++++........++++.
T Consensus        12 F~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~   71 (213)
T d1l8qa2          12 FIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS   71 (213)
T ss_dssp             CCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEec
Confidence            345765443  3444444433333445779999999999999999998766656666665

>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=97.89  E-value=1e-05  Score=71.15  Aligned_cols=51  Identities=14%  Similarity=0.041  Sum_probs=36.6

Q ss_pred             ccccccchhHHHHHhhhc-------c-CCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          114 KDLVGMDSCWNTLRFLMD-------K-EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~-------~-~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +.+||..+.++.+.+.+.       . .....+-|.++|++|+|||+||+++++.....
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~   67 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP   67 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccc
Confidence            458888887766644332       1 12235668899999999999999999876543

>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=97.38  E-value=4.1e-05  Score=63.60  Aligned_cols=26  Identities=19%  Similarity=0.289  Sum_probs=23.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ++.|+|.|++|+||||||+.++..+.
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999998753

>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=97.34  E-value=4e-05  Score=62.19  Aligned_cols=26  Identities=31%  Similarity=0.351  Sum_probs=22.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +.|.|.|++|+||||+|+.++.++.-
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~   28 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNM   28 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35788899999999999999998643

>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=97.31  E-value=6.1e-05  Score=62.13  Aligned_cols=29  Identities=21%  Similarity=0.098  Sum_probs=24.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ..+|.|+|++|+||||+|++++.++...|
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~~~~   34 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLNQQG   34 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            46888999999999999999999875443

>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=97.26  E-value=7.7e-05  Score=61.05  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ++|.|.|++|+||||+|+.++..+.
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5899999999999999999987653

>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=97.25  E-value=0.00012  Score=61.29  Aligned_cols=32  Identities=31%  Similarity=0.414  Sum_probs=26.2

Q ss_pred             CCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          133 EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       133 ~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...+.-+|+|.|.+|+||||||+.+...+...
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~   49 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQTLREQ   49 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHhccc
Confidence            34456689999999999999999998865443

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.16  E-value=8.9e-05  Score=60.54  Aligned_cols=28  Identities=21%  Similarity=0.372  Sum_probs=24.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .++++|+|.+|+|||||+..+...+..+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            3689999999999999999999876544

>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=97.16  E-value=0.00056  Score=57.75  Aligned_cols=37  Identities=19%  Similarity=0.172  Sum_probs=27.0

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ....+|.++|+.|+||||.+..++.++..+-..+..+
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~li   43 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLA   43 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            4467999999999999988888887765433333333

>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=97.15  E-value=0.00011  Score=58.91  Aligned_cols=23  Identities=35%  Similarity=0.397  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ++|.|.|++|+||||||+++...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            47889999999999999998764

>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=97.14  E-value=7.6e-05  Score=61.74  Aligned_cols=26  Identities=31%  Similarity=0.428  Sum_probs=22.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +.|.|+|++|+|||||+++++..+..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~   27 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKS   27 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            46899999999999999999987643

>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=97.13  E-value=0.0001  Score=60.27  Aligned_cols=25  Identities=36%  Similarity=0.449  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..|.|.|++|+||||+|+.+++++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            3577999999999999999998763

>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=97.13  E-value=0.00018  Score=63.71  Aligned_cols=29  Identities=21%  Similarity=0.350  Sum_probs=24.7

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..+.|.++|++|+||||||+.++..+...
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~~~~   59 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEETQGN   59 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhhcc
Confidence            35678899999999999999999876543

>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=97.11  E-value=0.00012  Score=60.11  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=23.9

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .++|.|.|++|+||||+|+.+++.+..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~   29 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPE   29 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            468999999999999999999997654

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.11  E-value=8.1e-05  Score=62.36  Aligned_cols=35  Identities=20%  Similarity=0.166  Sum_probs=27.6

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ..+|.|+|++|+||||||+.++..+...+....++
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~   53 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTL   53 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccch
Confidence            46788999999999999999998875555444444

>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=97.09  E-value=0.00016  Score=59.08  Aligned_cols=29  Identities=21%  Similarity=0.245  Sum_probs=25.0

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...+++.|.|++|+||||+|+.++.++..
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l~~   32 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQLHA   32 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34689999999999999999999987643

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.03  E-value=0.00011  Score=59.95  Aligned_cols=26  Identities=23%  Similarity=0.354  Sum_probs=21.4

Q ss_pred             EEEEccCCCchhHHHHHHHhhccCcc
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      |.+.||+|+||||+|+.++.++.-.|
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~f   29 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGL   29 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            44669999999999999998875443

>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=96.98  E-value=0.00019  Score=58.86  Aligned_cols=25  Identities=28%  Similarity=0.468  Sum_probs=22.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++|.|.|++|+||||+|+.+..++
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4799999999999999999998764

>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=96.96  E-value=0.00069  Score=61.04  Aligned_cols=27  Identities=26%  Similarity=0.366  Sum_probs=22.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .++.++|+||+|||.||++++..+..+
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~  150 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGK  150 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTT
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCC
Confidence            356679999999999999999987543

>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=96.95  E-value=0.0013  Score=55.45  Aligned_cols=37  Identities=24%  Similarity=0.251  Sum_probs=27.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +.+++.++|+.|+||||.+..++..+..+-..+.++.
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit   41 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCA   41 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            4579999999999999888777776554433455554

>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=96.93  E-value=0.0002  Score=58.19  Aligned_cols=24  Identities=38%  Similarity=0.386  Sum_probs=21.0

Q ss_pred             EEEEccCCCchhHHHHHHHhhccC
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      |.|.||+|+||||+|+.++.++.-
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            667899999999999999998743

>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=96.93  E-value=0.00084  Score=56.81  Aligned_cols=40  Identities=25%  Similarity=0.248  Sum_probs=28.6

Q ss_pred             CCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          133 EPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       133 ~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+....+|.++|+.|+||||.+..++.++..+-..+..+.
T Consensus         7 ~~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit   46 (213)
T d1vmaa2           7 PPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAA   46 (213)
T ss_dssp             CSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEe
Confidence            3445779999999999999887777776544334445544

>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=96.93  E-value=0.00025  Score=58.64  Aligned_cols=28  Identities=25%  Similarity=0.421  Sum_probs=24.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ++|+|.|++|+||||+++.++..+....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~   29 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEG   29 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            5899999999999999999998865543

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.92  E-value=0.00097  Score=56.32  Aligned_cols=38  Identities=18%  Similarity=0.109  Sum_probs=23.0

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ....+|.++|+.|+||||.+..++.++..+-..+..+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit   47 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVG   47 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEE
Confidence            34689999999999999887777766543322344444

>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=96.90  E-value=0.00029  Score=59.16  Aligned_cols=27  Identities=26%  Similarity=0.160  Sum_probs=24.4

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +..++|.|.|++|+||||+|+.+++.+
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999998865

>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=96.88  E-value=0.00037  Score=61.28  Aligned_cols=96  Identities=19%  Similarity=0.122  Sum_probs=56.0

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC----
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD----  199 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~----  199 (445)
                      .|..+|. .+-...+++-|+|++|+||||||.+++......-..++|++    .....+.     ..+..++...+    
T Consensus        41 ~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyid----tE~~~~~-----~~a~~~Gvd~d~v~~  111 (263)
T d1u94a1          41 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID----AEHALDP-----IYARKLGVDIDNLLC  111 (263)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE----SSCCCCH-----HHHHHTTCCGGGCEE
T ss_pred             HHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEc----cccccCH-----HHHHHhCCCHHHEEE
Confidence            4445554 22223469999999999999999999887655444567776    2222222     22344442211    


Q ss_pred             CCCcChhhhHHHHHHHHcc-CcEEEEEcCCC
Q 045345          200 TSTWNVYDGLKMIGSRLRY-RKVLLIVDAAF  229 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~  229 (445)
                      ....+.++....+....+. ..-|+|+|-+.
T Consensus       112 ~~~~~~E~~~~~i~~l~~~~~~~liViDSi~  142 (263)
T d1u94a1         112 SQPDTGEQALEICDALARSGAVDVIVVDSVA  142 (263)
T ss_dssp             ECCSSHHHHHHHHHHHHHHTCCSEEEEECGG
T ss_pred             ecCCCHHHHHHHHHHHHhcCCCCEEEEECcc
Confidence            1224455555555555543 44588899763

>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=96.88  E-value=0.00031  Score=58.84  Aligned_cols=27  Identities=19%  Similarity=0.065  Sum_probs=23.8

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +...+|.|.|++|+||||+|+.+++.+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999999998865

>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=96.82  E-value=0.00034  Score=57.16  Aligned_cols=26  Identities=31%  Similarity=0.294  Sum_probs=22.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .-.|.|.|++|+||||+|+.+++++.
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            34678999999999999999998753

>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=96.80  E-value=0.00027  Score=63.98  Aligned_cols=50  Identities=20%  Similarity=0.357  Sum_probs=34.5

Q ss_pred             ccccccchhHHHHHhhhc----c--------CCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          114 KDLVGMDSCWNTLRFLMD----K--------EPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~----~--------~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ...+|-+..++.+...+.    .        .....+-+.++||+|+|||.||+++++....
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~   75 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   75 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcccc
Confidence            346788877777754331    0        0012356779999999999999999987543

>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=96.78  E-value=0.0027  Score=53.13  Aligned_cols=38  Identities=16%  Similarity=0.019  Sum_probs=30.8

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +++.+..++..+  ....+.++|++|+|||++|..+.+.+
T Consensus         2 ~~~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i   39 (198)
T d2gnoa2           2 QLETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYV   39 (198)
T ss_dssp             HHHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHH
Confidence            466777777743  46788999999999999999998765

>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=96.77  E-value=0.00032  Score=57.45  Aligned_cols=25  Identities=28%  Similarity=0.252  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .|.|.|++|+||||+|+.+++++.-
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~   28 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGY   28 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3568899999999999999987643

>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=96.72  E-value=0.0013  Score=57.82  Aligned_cols=97  Identities=16%  Similarity=0.085  Sum_probs=58.2

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC----
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD----  199 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~----  199 (445)
                      .|...|. .+-...+++-|+|++|+||||||..++......-..++|++    .....+..     .+..++...+    
T Consensus        47 ~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyID----tE~~~~~e-----~a~~~GvD~d~il~  117 (269)
T d1mo6a1          47 ALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFID----AEHALDPD-----YAKKLGVDTDSLLV  117 (269)
T ss_dssp             HHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEE----SSCCCCHH-----HHHHHTCCGGGCEE
T ss_pred             HHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEE----CCccCCHH-----HHHHhCCCHHHeEE
Confidence            4444553 33344679999999999999999888876544444577876    22222322     2344443211    


Q ss_pred             CCCcChhhhHHHHHHHHcc-CcEEEEEcCCCC
Q 045345          200 TSTWNVYDGLKMIGSRLRY-RKVLLIVDAAFD  230 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~~  230 (445)
                      ......++....+...... +.-|||+|-+-.
T Consensus       118 ~~~~~~E~~~~~~~~l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         118 SQPDTGEQALEIADMLIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             ECCSSHHHHHHHHHHHHHTTCEEEEEEECSTT
T ss_pred             ecCCCHHHHHHHHHHHHhcCCCCEEEEecccc
Confidence            1234556666655555544 567999998743

>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=96.71  E-value=0.00037  Score=56.74  Aligned_cols=27  Identities=26%  Similarity=0.251  Sum_probs=24.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ++++|+|..|+|||||+.++...++.+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            589999999999999999999887654

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.68  E-value=0.00044  Score=56.80  Aligned_cols=25  Identities=20%  Similarity=0.263  Sum_probs=21.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...+|.++|++|+||||+|+.++..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            4679999999999999999988754

>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=96.67  E-value=0.00043  Score=58.52  Aligned_cols=25  Identities=20%  Similarity=0.340  Sum_probs=22.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+|.++|.+|+||||||++++..+.
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5789999999999999999997654

>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=96.67  E-value=0.00044  Score=56.77  Aligned_cols=24  Identities=38%  Similarity=0.515  Sum_probs=21.3

Q ss_pred             EEEEccCCCchhHHHHHHHhhccC
Q 045345          140 IGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      |+|+|++|+|||||++.++..+..
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCC
Confidence            789999999999999999986544

>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=96.67  E-value=0.0019  Score=54.41  Aligned_cols=37  Identities=22%  Similarity=0.151  Sum_probs=27.1

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +.+++.++|++|+||||.+..++..+..+-..+..+.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit   45 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA   45 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            3578999999999999988888776654433444443

>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=96.66  E-value=0.00059  Score=56.49  Aligned_cols=27  Identities=22%  Similarity=0.448  Sum_probs=23.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ++|.|.|++|+||||+++.++..+..+
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            688999999999999999999887554

>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=96.62  E-value=0.0019  Score=56.66  Aligned_cols=96  Identities=19%  Similarity=0.124  Sum_probs=57.4

Q ss_pred             HHHhhhc-cCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCC----
Q 045345          125 TLRFLMD-KEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPD----  199 (445)
Q Consensus       125 ~l~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~----  199 (445)
                      .|..+|. .+-...+++-|+|++|+|||+||..++......-..++|++    .....+.     .+++.++...+    
T Consensus        44 ~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiD----tE~~~~~-----~~a~~~Gvd~d~i~~  114 (268)
T d1xp8a1          44 SLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID----AEHALDP-----VYARALGVNTDELLV  114 (268)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE----SSCCCCH-----HHHHHTTCCGGGCEE
T ss_pred             HHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEE----CCccCCH-----HHHHHhCCCchhEEE
Confidence            3444554 22233569999999999999999998876543334567776    2222222     24455543221    


Q ss_pred             CCCcChhhhHHHHHHHHcc-CcEEEEEcCCC
Q 045345          200 TSTWNVYDGLKMIGSRLRY-RKVLLIVDAAF  229 (445)
Q Consensus       200 ~~~~~~~~~~~~l~~~l~~-~~~LlVlDdv~  229 (445)
                      ....+.++....+....+. ..-|+|+|-+-
T Consensus       115 ~~~~~~E~~~~~~~~l~~~~~~~liIiDSi~  145 (268)
T d1xp8a1         115 SQPDNGEQALEIMELLVRSGAIDVVVVDSVA  145 (268)
T ss_dssp             ECCSSHHHHHHHHHHHHTTTCCSEEEEECTT
T ss_pred             EcCCCHHHHHHHHHHHHhcCCCcEEEEeccc
Confidence            1234566666666555544 45689999763

>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=96.57  E-value=0.00053  Score=58.52  Aligned_cols=25  Identities=32%  Similarity=0.430  Sum_probs=22.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++|+|.||+|+||||+|+.+++++
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            3599999999999999999999876

>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=96.54  E-value=0.0012  Score=59.74  Aligned_cols=48  Identities=25%  Similarity=0.371  Sum_probs=34.8

Q ss_pred             ccccccchhHHHHHhhhcc------CCCC-eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          114 KDLVGMDSCWNTLRFLMDK------EPYG-VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~~------~~~~-~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..++|.+..++.+...+..      ..+. ..++.++|++|+|||.||+.+++.+
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            4577888777777554431      1122 3478899999999999999999876

>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=96.44  E-value=0.00099  Score=57.62  Aligned_cols=47  Identities=21%  Similarity=0.193  Sum_probs=35.8

Q ss_pred             HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          126 LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       126 l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      |.+.|..+-....++.|+|.+|+|||+||.+++.....+...++|+.
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            44455533334569999999999999999999988766666777775

>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=96.40  E-value=0.00091  Score=55.62  Aligned_cols=25  Identities=36%  Similarity=0.408  Sum_probs=21.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.++| |.|++|+||||+|+.+++++
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45666 78999999999999999865

>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=96.39  E-value=0.00084  Score=56.95  Aligned_cols=26  Identities=23%  Similarity=0.428  Sum_probs=22.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      -+|+|.|.+|+||||||+.+...+..
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhch
Confidence            48999999999999999999887643

>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=96.36  E-value=0.00092  Score=55.74  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+|.|.|++|+||||+|+.+++.+
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999999865

>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=96.35  E-value=0.00076  Score=56.04  Aligned_cols=29  Identities=34%  Similarity=0.511  Sum_probs=24.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFE  166 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~  166 (445)
                      +.|+|+|++|+|||||++.++++....|.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~~   30 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSFG   30 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCccee
Confidence            35789999999999999999887655554

>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=96.35  E-value=0.0011  Score=56.03  Aligned_cols=29  Identities=24%  Similarity=0.159  Sum_probs=24.6

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ....+|.|.|++|.||||||+++...+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~   50 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVR   50 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            34579999999999999999999887643

>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=96.31  E-value=0.00079  Score=56.14  Aligned_cols=27  Identities=30%  Similarity=0.487  Sum_probs=22.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      .|+|.|++|+|||||++.++......|
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            467999999999999999988655444

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.30  E-value=0.0062  Score=53.65  Aligned_cols=30  Identities=20%  Similarity=0.256  Sum_probs=25.1

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ..-+|||.|..|+||||||..+...+...+
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~   55 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLMEKY   55 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHHHh
Confidence            356899999999999999999988765544

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=96.30  E-value=0.0015  Score=60.12  Aligned_cols=49  Identities=29%  Similarity=0.131  Sum_probs=33.3

Q ss_pred             ccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          116 LVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       116 ~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      +.|-+..+.+..+.+..+.+..+.+.++||+|+|||++|..+++.+...
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             ccchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            3444444433333333344556789999999999999999999876543

>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=96.30  E-value=0.0016  Score=57.65  Aligned_cols=49  Identities=20%  Similarity=0.142  Sum_probs=34.7

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ++..+.+.+.  .++.++|.+.|=||+||||+|..++..+...-..+..++
T Consensus         7 ~~~~~~~~~~--~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD   55 (279)
T d1ihua2           7 SLSALVDDIA--RNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTT   55 (279)
T ss_dssp             CHHHHHHHHH--TTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cHHHHHHHhh--cCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            4566666666  457899999999999999998888776544322344443

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.23  E-value=0.0013  Score=54.23  Aligned_cols=31  Identities=13%  Similarity=0.365  Sum_probs=25.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEAS  168 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~  168 (445)
                      +.|.|+|++|+|||||++.+..+....|..+
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~~   34 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPDRFAYP   34 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTEECC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCcCeeec
Confidence            5788999999999999999988765555433

>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=96.20  E-value=0.002  Score=58.33  Aligned_cols=39  Identities=23%  Similarity=0.247  Sum_probs=29.0

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .++...+.....+..+|+|.|+||+|||||..++...+.
T Consensus        38 ~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~   76 (323)
T d2qm8a1          38 RDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLT   76 (323)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHh
Confidence            344444433445678999999999999999999987643

>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=96.17  E-value=0.0013  Score=56.01  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=21.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +|+|-|++|+||||+|+.++.++
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999876

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.16  E-value=0.0021  Score=58.16  Aligned_cols=32  Identities=25%  Similarity=0.225  Sum_probs=26.4

Q ss_pred             CCCCeEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          133 EPYGVRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       133 ~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      .+++..+|+|+|+||+|||||..++...+...
T Consensus        50 ~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~   81 (327)
T d2p67a1          50 YCGNTLRLGVTGTPGAGKSTFLEAFGMLLIRE   81 (327)
T ss_dssp             GCSCSEEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             ccCCceEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            34567899999999999999999998765443

>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=96.16  E-value=0.0014  Score=53.88  Aligned_cols=22  Identities=27%  Similarity=0.369  Sum_probs=20.0

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |.|.|++|+||||+|+.++..+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999998865

>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=96.15  E-value=0.0013  Score=54.88  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=22.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++|.|.|++|+||||+|+.+++.+
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998864

>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=96.11  E-value=0.0012  Score=54.70  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=20.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|.|.|++|+||||+|+.+++.+
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57799999999999999998865

>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=96.11  E-value=0.0031  Score=56.89  Aligned_cols=49  Identities=20%  Similarity=0.197  Sum_probs=36.5

Q ss_pred             ccccccchhHHHHHhhhc-------cCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          114 KDLVGMDSCWNTLRFLMD-------KEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       114 ~~~vGr~~~l~~l~~~L~-------~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...+|-+..++.|...+.       .......++.++|++|+|||.||+.++..+.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~   77 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG   77 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc
Confidence            357888888888766542       1122245788999999999999999998654

>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=96.10  E-value=0.0015  Score=59.56  Aligned_cols=47  Identities=26%  Similarity=0.316  Sum_probs=33.4

Q ss_pred             ccccccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          112 IFKDLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       112 ~~~~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +....+|.+.....|.-....  .+..-|.|.|.+|+|||+||+.+..-
T Consensus         5 ~f~~I~Gq~~~kral~laa~~--~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVD--PGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHC--GGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhc--cCCCeEEEECCCCccHHHHHHHHHHh
Confidence            456789998777655433321  11235789999999999999999763

>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=96.10  E-value=0.0017  Score=53.97  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=20.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|.|.|++|+||||+|+.++.++
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            45577999999999999999865

>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=96.07  E-value=0.0014  Score=54.01  Aligned_cols=22  Identities=27%  Similarity=0.226  Sum_probs=20.0

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |.|.|++|+||||+|+.+++.+
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999999875

>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=96.05  E-value=0.0015  Score=53.76  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=20.1

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |.|.|++|+||||+|+.++.++
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999999875

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.04  E-value=0.0021  Score=56.76  Aligned_cols=28  Identities=18%  Similarity=0.337  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ..++|+|.|.+|.||||+|+.+.+.+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~   30 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRR   30 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            4679999999999999999998876543

>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=95.97  E-value=0.0028  Score=55.00  Aligned_cols=46  Identities=22%  Similarity=0.229  Sum_probs=35.6

Q ss_pred             cccccchhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          115 DLVGMDSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       115 ~~vGr~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +|||....++.+.+.+..-.....-|.|+|..|+|||++|+.+...
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            4899999999888877652222234679999999999999999764

>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=95.93  E-value=0.0055  Score=52.17  Aligned_cols=35  Identities=17%  Similarity=0.024  Sum_probs=24.8

Q ss_pred             HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          126 LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       126 l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |.+.|..+-....++.|.|.+|+|||+||.+++..
T Consensus        15 LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          15 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            34444432223468999999999999999887654

>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=95.92  E-value=0.0024  Score=56.11  Aligned_cols=35  Identities=26%  Similarity=0.309  Sum_probs=27.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +.|+|+|=||+||||+|..++..+...-..+..++
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID   36 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVG   36 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            68899999999999999999887655433444444

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.88  E-value=0.002  Score=53.06  Aligned_cols=24  Identities=25%  Similarity=0.505  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ++|.|+|++|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            588999999999999999988764

>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=95.80  E-value=0.0025  Score=52.35  Aligned_cols=24  Identities=33%  Similarity=0.445  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++| |.|++|+||||+|+.++..+
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHHHh
Confidence            3444 77999999999999999865

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.75  E-value=0.0046  Score=55.19  Aligned_cols=39  Identities=28%  Similarity=0.257  Sum_probs=29.0

Q ss_pred             HhhhccC-CCCeEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          127 RFLMDKE-PYGVRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       127 ~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      ...|... ....-+|||.|.+|+||||+|+.+...+...+
T Consensus        69 ~~fl~~~~~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~  108 (308)
T d1sq5a_          69 EQFLGTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRWP  108 (308)
T ss_dssp             HHHHTCC-CCCCEEEEEEECTTSSHHHHHHHHHHHHTTST
T ss_pred             HHHhcccCCCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhc
Confidence            3344432 23367999999999999999999988776443

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.71  E-value=0.0033  Score=52.90  Aligned_cols=38  Identities=16%  Similarity=0.063  Sum_probs=27.1

Q ss_pred             HHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          126 LRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       126 l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      |..+|..+=....++.|.|++|+|||+||.+++.....
T Consensus        12 LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~   49 (242)
T d1n0wa_          12 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQL   49 (242)
T ss_dssp             HHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTS
T ss_pred             HHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            34444422223469999999999999999999876433

>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=95.70  E-value=0.0024  Score=52.93  Aligned_cols=22  Identities=41%  Similarity=0.551  Sum_probs=19.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHH
Q 045345          137 VRMIGICGMGGIGKTTLARVVY  158 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~  158 (445)
                      .-+|||+|+.|+||||+|..+.
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3488999999999999998874

>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=95.70  E-value=0.0029  Score=51.78  Aligned_cols=22  Identities=27%  Similarity=0.247  Sum_probs=19.6

Q ss_pred             EEEEccCCCchhHHHHHHHhhc
Q 045345          140 IGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      |.|.|++|+||||+|+.++.++
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999998764

>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=95.67  E-value=0.0034  Score=54.28  Aligned_cols=36  Identities=22%  Similarity=0.173  Sum_probs=27.1

Q ss_pred             HhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          127 RFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       127 ~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+|..+-...+++.|+|++|+|||+||.+++....
T Consensus        26 D~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          26 DKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            344443333457999999999999999999987643

>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=95.54  E-value=0.01  Score=51.73  Aligned_cols=25  Identities=32%  Similarity=0.478  Sum_probs=21.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      +.++|.|.+|+|||+|+..+++...
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~~   93 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNVA   93 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            3689999999999999999987743

>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=95.53  E-value=0.014  Score=49.02  Aligned_cols=27  Identities=22%  Similarity=0.309  Sum_probs=23.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ..|+|-|+-|+||||+++.+.+.+..+
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            578999999999999999999876544

>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=95.43  E-value=0.0074  Score=51.98  Aligned_cols=37  Identities=16%  Similarity=0.118  Sum_probs=28.2

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|..+|..+-...+++.|+|++|+|||++|.+++...
T Consensus        25 ~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          25 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             HHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445555444446799999999999999999998754

>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=95.32  E-value=0.0053  Score=54.46  Aligned_cols=37  Identities=16%  Similarity=0.163  Sum_probs=27.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      -.++|.+.|=||+||||+|..++..+..+-..+..++
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD   43 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEe
Confidence            3678889999999999999888877644433344443

>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=95.26  E-value=0.0061  Score=52.31  Aligned_cols=37  Identities=16%  Similarity=0.100  Sum_probs=27.0

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .|..+|..+-....++.|.|.+|+|||++|.+++...
T Consensus        22 ~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          22 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3444444322234799999999999999999998764

>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=95.23  E-value=0.0073  Score=55.43  Aligned_cols=49  Identities=16%  Similarity=0.154  Sum_probs=34.9

Q ss_pred             cccccccchhHHHHHhhhc----------------------------cCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          113 FKDLVGMDSCWNTLRFLMD----------------------------KEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       113 ~~~~vGr~~~l~~l~~~L~----------------------------~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ....||-+..++.+...+.                            ...-....+...||.|+|||.||+.++...
T Consensus        16 ~~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          16 DNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             HTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            3568888888777754441                            011123457889999999999999998754

>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=95.22  E-value=0.0053  Score=52.63  Aligned_cols=25  Identities=28%  Similarity=0.340  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      ||+|.|+.|.|||||..++.+....
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~   26 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLED   26 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Confidence            7899999999999999999865443

>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=95.20  E-value=0.0036  Score=53.77  Aligned_cols=36  Identities=17%  Similarity=0.100  Sum_probs=26.4

Q ss_pred             HHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          125 TLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       125 ~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|..+|..+=...+++.|+|++|+|||+||.+++..
T Consensus        22 ~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          22 NLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             HHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             HHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            344445432233569999999999999999998765

>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=95.10  E-value=0.0056  Score=51.38  Aligned_cols=24  Identities=17%  Similarity=0.330  Sum_probs=21.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .++.|+||+|+|||||.+.+....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            588899999999999999998764

>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=95.06  E-value=0.0057  Score=50.72  Aligned_cols=26  Identities=27%  Similarity=0.101  Sum_probs=22.5

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..-+|+|-|.-|+||||+++.+.+.+
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999987754

>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=94.98  E-value=0.0065  Score=53.86  Aligned_cols=35  Identities=26%  Similarity=0.330  Sum_probs=25.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +.|+|+|=||+||||+|..++..+...-..+..++
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID   37 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVG   37 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEe
Confidence            67889999999999999888776544322344443

>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=94.93  E-value=0.0056  Score=53.84  Aligned_cols=28  Identities=18%  Similarity=-0.025  Sum_probs=23.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      ...++|.|.+|+|||+|+..+++....+
T Consensus        43 GQr~~I~g~~g~GKT~l~~~i~~~~~~~   70 (289)
T d1xpua3          43 GQRGLIVAPPKAGKTMLLQNIAQSIAYN   70 (289)
T ss_dssp             TCEEEEEECSSSSHHHHHHHHHHHHHHH
T ss_pred             CCeeeEeCCCCCCHHHHHHHHHHHHhhc
Confidence            3578899999999999999998865443

>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=94.69  E-value=0.008  Score=47.55  Aligned_cols=21  Identities=29%  Similarity=0.248  Sum_probs=18.7

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |.|+|.+|+|||||...+...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            569999999999999998754

>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=94.65  E-value=0.0072  Score=50.42  Aligned_cols=33  Identities=24%  Similarity=0.423  Sum_probs=25.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      .+++|.|+.|+|||||.+.++..+.. ..+.+.+
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl~~p-~~G~I~~   60 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTYLKP-LKGEIIY   60 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSSCC-SEEEEEE
T ss_pred             CEEEEECCCCChHHHHHHHHhccccc-CCCEEEE
Confidence            48999999999999999999875543 2344444

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.60  E-value=0.011  Score=50.70  Aligned_cols=28  Identities=25%  Similarity=0.405  Sum_probs=24.2

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +++.|+|-|+-|+||||+++.+.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            3578999999999999999999987543

>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=94.52  E-value=0.011  Score=50.33  Aligned_cols=35  Identities=26%  Similarity=0.314  Sum_probs=27.1

Q ss_pred             EEEEEE-ccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGIC-GMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~-G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ++|+|+ |-||+||||+|..++..+...-..++.++
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD   37 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIVD   37 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEe
Confidence            677777 88999999999999887655544566654

>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=94.52  E-value=0.014  Score=47.26  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ..|+|+|.+|+|||||..++..
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4567999999999999988865

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.48  E-value=0.0098  Score=49.65  Aligned_cols=25  Identities=32%  Similarity=0.432  Sum_probs=22.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccC
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .|+|-|+-|+||||+++.+.+.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~   26 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5889999999999999999987644

>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=94.48  E-value=0.0095  Score=50.98  Aligned_cols=24  Identities=33%  Similarity=0.490  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|+.|.|||||++.++.-.
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC
Confidence            489999999999999999997643

>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=94.46  E-value=0.0091  Score=50.11  Aligned_cols=20  Identities=30%  Similarity=0.469  Sum_probs=18.3

Q ss_pred             EEEEEccCCCchhHHHHHHH
Q 045345          139 MIGICGMGGIGKTTLARVVY  158 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~  158 (445)
                      +|||+|+.|+||||+|+.+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998764

>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=94.42  E-value=0.0089  Score=50.84  Aligned_cols=34  Identities=24%  Similarity=0.447  Sum_probs=24.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|.|+.|+|||||.+.++.-.. .-.+.+++.
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~gl~~-p~sG~I~~~   65 (230)
T d1l2ta_          32 EFVSIMGPSGSGKSTMLNIIGCLDK-PTEGEVYID   65 (230)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC-CSEEEEEET
T ss_pred             CEEEEECCCCCCcchhhHhccCCCC-CCcceeEEC
Confidence            4899999999999999987765332 223445543

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=94.42  E-value=0.012  Score=48.69  Aligned_cols=25  Identities=20%  Similarity=0.464  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHh
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ++.+.|+|+|.+|+|||||...+..
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            3466899999999999999999975

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.39  E-value=0.043  Score=45.68  Aligned_cols=26  Identities=38%  Similarity=0.492  Sum_probs=22.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      +.|+|-|+.|+||||+++.+.+.+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~   28 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQ   28 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47889999999999999999887643

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=94.36  E-value=0.0093  Score=51.04  Aligned_cols=25  Identities=40%  Similarity=0.595  Sum_probs=21.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      ..+++|.|+.|.|||||++.++--.
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCc
Confidence            3599999999999999999987644

>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=94.27  E-value=0.011  Score=50.23  Aligned_cols=34  Identities=26%  Similarity=0.467  Sum_probs=25.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      .+++|.|+.|.|||||.+.++--... -.+.+++.
T Consensus        27 ei~~liGpsGsGKSTLl~~i~Gl~~p-~sG~I~i~   60 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAGLETI-TSGDLFIG   60 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSCC-SEEEEEES
T ss_pred             CEEEEECCCCChHHHHHHHHhcCCCC-CCCEEEEC
Confidence            48999999999999999988764433 23445543

>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=94.27  E-value=0.0082  Score=51.36  Aligned_cols=27  Identities=26%  Similarity=0.421  Sum_probs=23.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccC
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSH  163 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~  163 (445)
                      .+.|+|-|+-|+||||+|+.+.+.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            478999999999999999998887643

>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=94.26  E-value=0.011  Score=47.14  Aligned_cols=22  Identities=36%  Similarity=0.321  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|+|+|.+|+|||||..++...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999998764

>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=94.22  E-value=0.011  Score=49.43  Aligned_cols=21  Identities=38%  Similarity=0.578  Sum_probs=18.7

Q ss_pred             EEEEEEccCCCchhHHHHHHH
Q 045345          138 RMIGICGMGGIGKTTLARVVY  158 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~  158 (445)
                      -+|||+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998764

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.18  E-value=0.011  Score=51.43  Aligned_cols=35  Identities=29%  Similarity=0.368  Sum_probs=26.0

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ..+++|.|+.|.|||||++.+..-... -.+.+++.
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl~~p-~~G~I~~~   62 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFLEKP-SEGAIIVN   62 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCC-SEEEEEET
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCccC-CCCCEEEC
Confidence            359999999999999999999764332 34455553

>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=94.12  E-value=0.013  Score=50.13  Aligned_cols=25  Identities=32%  Similarity=0.493  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+++|.|+.|.|||||.+.+..-..
T Consensus        33 e~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCC
Confidence            4899999999999999999877543

>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=94.09  E-value=0.011  Score=50.64  Aligned_cols=23  Identities=39%  Similarity=0.764  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..++|+|+.|.|||||++.+..-
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            48999999999999999999764

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.07  E-value=0.011  Score=51.09  Aligned_cols=23  Identities=26%  Similarity=0.611  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..++|+|+.|.|||||++.+..-
T Consensus        42 e~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCChHHHHHHHHhcc
Confidence            48999999999999999998653

>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=94.06  E-value=0.015  Score=49.44  Aligned_cols=35  Identities=29%  Similarity=0.321  Sum_probs=26.7

Q ss_pred             EEEEEE-ccCCCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGIC-GMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~-G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      ++|+|+ +-||+||||+|..++..+...-..++.++
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD   38 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVD   38 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEe
Confidence            688888 77999999999999887655444455554

>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=94.05  E-value=0.013  Score=49.95  Aligned_cols=33  Identities=15%  Similarity=0.182  Sum_probs=24.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCccccceeee
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +++|.|+.|.|||||.+.++.-+.. ..+.+++.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~~p-~~G~I~~~   58 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIVKP-DRGEVRLN   58 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCC-SEEEEEET
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCC-CceEEEEC
Confidence            7889999999999999999875432 23444443

>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=94.05  E-value=0.013  Score=46.87  Aligned_cols=20  Identities=20%  Similarity=0.503  Sum_probs=18.2

Q ss_pred             EEEEccCCCchhHHHHHHHh
Q 045345          140 IGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~  159 (445)
                      |+++|.+|+|||||+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999998875

>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=94.04  E-value=0.021  Score=46.08  Aligned_cols=25  Identities=28%  Similarity=0.262  Sum_probs=20.3

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..--|+|+|.+|+|||||..++...
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhcC
Confidence            3345779999999999999988653

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=93.99  E-value=0.06  Score=46.83  Aligned_cols=53  Identities=13%  Similarity=0.050  Sum_probs=33.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc-CccccceeeehhhhhhccCCHHHHHHHHHHHHhC
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS-HEFEASSFLANVREISEKGGLICLQKQLLSELLK  196 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~  196 (445)
                      .++.|.|.+|+|||+++..++..+. .+-..++++.      -..+...+...++....+
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s------~E~~~~~~~~r~~~~~~~   89 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM------LEESVEETAEDLIGLHNR   89 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEE------SSSCHHHHHHHHHHHHTT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEee------eccchhhHHhHHHHHhhc
Confidence            4888999999999999999987642 2222334433      234455555666655443

>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=93.89  E-value=0.018  Score=48.46  Aligned_cols=29  Identities=28%  Similarity=0.379  Sum_probs=25.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      .+.|+|-|+-|+||||+++.+.+.+..++
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~~~~   31 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQPNC   31 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTTTSE
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHhCC
Confidence            46899999999999999999998876643

>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=93.89  E-value=0.015  Score=46.53  Aligned_cols=22  Identities=27%  Similarity=0.231  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|.+.|.+|+|||+|..++...
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999998863

>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=93.87  E-value=0.014  Score=50.05  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ...++|+|+.|.|||||++.+..
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999999865

>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=93.86  E-value=0.015  Score=47.04  Aligned_cols=22  Identities=32%  Similarity=0.292  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|+.++.+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3678999999999999998754

>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=93.85  E-value=0.013  Score=50.56  Aligned_cols=24  Identities=29%  Similarity=0.505  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...++|+|+.|.|||||++.+..-
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            358999999999999999998753

>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=93.80  E-value=0.015  Score=46.58  Aligned_cols=22  Identities=27%  Similarity=0.268  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|+.++.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999998763

>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=93.80  E-value=0.015  Score=51.12  Aligned_cols=24  Identities=33%  Similarity=0.476  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+++|+|+.|.|||||++.++..
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            358999999999999999999764

>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=93.75  E-value=0.012  Score=49.81  Aligned_cols=24  Identities=25%  Similarity=0.364  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|+.|.|||||.+.+..-.
T Consensus        27 e~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          27 EYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCc
Confidence            489999999999999999998743

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.73  E-value=0.021  Score=46.17  Aligned_cols=25  Identities=28%  Similarity=0.367  Sum_probs=21.9

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -...|+|.|.+|+|||||..++...
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            3567999999999999999999863

>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=93.67  E-value=0.016  Score=46.57  Aligned_cols=21  Identities=29%  Similarity=0.570  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |+|.|.+|+|||||...+...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999988763

>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=93.60  E-value=0.018  Score=46.21  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|+..+...
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4679999999999999998763

>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=93.56  E-value=0.018  Score=46.18  Aligned_cols=22  Identities=27%  Similarity=0.442  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|.|+|.+|+|||+|..++...
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4679999999999999998764

>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=93.55  E-value=0.018  Score=46.36  Aligned_cols=22  Identities=36%  Similarity=0.439  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|.|+|.+|+|||+|...+...
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999998863

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.55  E-value=0.018  Score=45.92  Aligned_cols=21  Identities=24%  Similarity=0.224  Sum_probs=18.7

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |+|+|.+|+|||+|+.++.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998753

>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=93.53  E-value=0.019  Score=46.14  Aligned_cols=21  Identities=29%  Similarity=0.385  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .|+|.|.+|+|||||..++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999999875

>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=93.52  E-value=0.018  Score=46.21  Aligned_cols=22  Identities=32%  Similarity=0.247  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+++|.+|+|||||...+...
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3779999999999999988753

>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=93.51  E-value=0.022  Score=48.14  Aligned_cols=25  Identities=32%  Similarity=0.430  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++..|.|.-|.|||||.+.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4789999999999999999998875

>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=93.49  E-value=0.017  Score=46.06  Aligned_cols=22  Identities=23%  Similarity=0.308  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||||...+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3679999999999999998764

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.44  E-value=0.019  Score=46.12  Aligned_cols=22  Identities=32%  Similarity=0.557  Sum_probs=18.9

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|+..+...
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            3678999999999999988753

>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=93.43  E-value=0.02  Score=47.62  Aligned_cols=23  Identities=30%  Similarity=0.257  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +.|+|+|.+|+|||||..++...
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            57899999999999999999764

>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=93.42  E-value=0.022  Score=48.65  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+|||+|..|+||||+|..+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999998764

>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=93.42  E-value=0.02  Score=46.01  Aligned_cols=21  Identities=29%  Similarity=0.502  Sum_probs=18.7

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |+++|.+|+|||+|...+.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999999874

>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=93.41  E-value=0.018  Score=47.08  Aligned_cols=22  Identities=32%  Similarity=0.288  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3678999999999999998753

>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=93.41  E-value=0.025  Score=45.79  Aligned_cols=24  Identities=25%  Similarity=0.455  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...|+|+|.+|+|||||..+++..
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            458999999999999999999864

>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=93.39  E-value=0.092  Score=48.47  Aligned_cols=106  Identities=16%  Similarity=0.126  Sum_probs=60.3

Q ss_pred             cccc-hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHh
Q 045345          117 VGMD-SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELL  195 (445)
Q Consensus       117 vGr~-~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~  195 (445)
                      .|.. ..++.+.+++..   ...+|.|.|+.|.||||....+.+.+......++-+.+--+... .+..        +. 
T Consensus       140 LG~~~~~~~~l~~l~~~---~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~-~~~~--------q~-  206 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKR---PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDI-DGIG--------QT-  206 (401)
T ss_dssp             SCCCHHHHHHHHHHHTS---SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCC-SSSE--------EE-
T ss_pred             hcccHHHHHHHHHHHhh---hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCccccc-CCCC--------ee-
Confidence            3444 445566666653   34699999999999999999988865332222222221111000 0000        00 


Q ss_pred             CCCCCCCcChhhhHHHHHHHHccCcEEEEEcCCCCHHHHHHhc
Q 045345          196 KLPDTSTWNVYDGLKMIGSRLRYRKVLLIVDAAFDLKQLESLA  238 (445)
Q Consensus       196 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~l~~l~  238 (445)
                         .............++..|+.-|=+|++.++.+.+.....+
T Consensus       207 ---~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta~~a~  246 (401)
T d1p9ra_         207 ---QVNPRVDMTFARGLRAILRQDPDVVMVGEIRDLETAQIAV  246 (401)
T ss_dssp             ---ECBGGGTBCHHHHHHHHGGGCCSEEEESCCCSHHHHHHHH
T ss_pred             ---eecCCcCCCHHHHHHHHHhhcCCEEEecCcCChHHHHHHH
Confidence               0001111234566788888888899999998887655443

>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=93.39  E-value=0.02  Score=46.02  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|+..+...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4679999999999999998853

>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=93.37  E-value=0.021  Score=46.22  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-|.|.|.+|+||||||.++..+
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            45789999999999999998764

>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=93.36  E-value=0.02  Score=53.80  Aligned_cols=24  Identities=38%  Similarity=0.551  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .-|.+.||+|+|||-||+.++..+
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999865

>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=93.33  E-value=0.025  Score=45.66  Aligned_cols=23  Identities=26%  Similarity=0.260  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-|.|.|.+|+||||||.++..+
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            46789999999999999998764

>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=93.32  E-value=0.017  Score=49.43  Aligned_cols=24  Identities=42%  Similarity=0.675  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+++|.|+.|.|||||.+.+..-.
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCc
Confidence            499999999999999999997643

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.31  E-value=0.021  Score=45.74  Aligned_cols=22  Identities=18%  Similarity=0.338  Sum_probs=18.9

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|..++.+.
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3668899999999999998763

>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=93.31  E-value=0.021  Score=46.08  Aligned_cols=21  Identities=33%  Similarity=0.463  Sum_probs=18.8

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      -|+|+|.+|+|||||...+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            477999999999999999875

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=93.28  E-value=0.043  Score=43.34  Aligned_cols=25  Identities=36%  Similarity=0.324  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .-+|.+.|.=|.||||+++.+++.+
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhc
Confidence            4589999999999999999999864

>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=93.27  E-value=0.021  Score=45.91  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|...+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4679999999999999998764

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=93.27  E-value=0.019  Score=49.14  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=22.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+++|.|+.|.|||||.+.++--+.
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCC
Confidence            4999999999999999999987543

>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=93.23  E-value=0.022  Score=45.54  Aligned_cols=22  Identities=27%  Similarity=0.318  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|.++|.+|+|||||..++...
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999998764

>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=93.23  E-value=0.022  Score=44.88  Aligned_cols=22  Identities=27%  Similarity=0.354  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||||...+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4779999999999999998764

>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=93.20  E-value=0.02  Score=48.94  Aligned_cols=26  Identities=35%  Similarity=0.551  Sum_probs=22.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ..+++|.|+.|.|||||.+.++..+.
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35999999999999999999987543

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.14  E-value=0.023  Score=45.47  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|...+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3679999999999999998764

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.14  E-value=0.029  Score=44.78  Aligned_cols=24  Identities=29%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..-|+|.|.+|+|||+|...+.+.
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhC
Confidence            346778999999999999998753

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.11  E-value=0.023  Score=45.78  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=18.7

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      -|++.|.+|+|||+|+..+..
T Consensus         7 KI~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            377999999999999998875

>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=93.06  E-value=0.024  Score=47.13  Aligned_cols=23  Identities=26%  Similarity=0.226  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +-|+|.|.+|+|||||..++...
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            36899999999999999998763

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.02  E-value=0.036  Score=44.60  Aligned_cols=23  Identities=26%  Similarity=0.465  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      --|+|+|.+|+|||+|...+.+.
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35679999999999999998763

>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=93.01  E-value=0.053  Score=47.19  Aligned_cols=34  Identities=18%  Similarity=0.040  Sum_probs=24.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCccccceee
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHEFEASSFL  171 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~  171 (445)
                      ..++|.|.+|+|||+|+.........+...+++.
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~  101 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQQGQNVICVYV  101 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEE
T ss_pred             ceEeeccCCCCChHHHHHHHHhhhcccCceeeee
Confidence            3578999999999999988665544444444444

>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=92.99  E-value=0.026  Score=45.33  Aligned_cols=23  Identities=30%  Similarity=0.276  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-|.|.|.+|+||||||.++..+
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            46789999999999999998775

>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=92.97  E-value=0.029  Score=45.30  Aligned_cols=22  Identities=36%  Similarity=0.300  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|.|+|.+|+|||+|...+...
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678899999999999988764

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=92.92  E-value=0.028  Score=48.59  Aligned_cols=25  Identities=32%  Similarity=0.409  Sum_probs=21.9

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      .+++|.|+.|.|||||++.++--+.
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHHCCCc
Confidence            4899999999999999999987543

>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=92.90  E-value=0.026  Score=45.57  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||||+..+...
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999988763

>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=92.89  E-value=0.026  Score=45.06  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|..++...
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3678999999999999998764

>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=92.87  E-value=0.026  Score=45.21  Aligned_cols=22  Identities=14%  Similarity=0.246  Sum_probs=18.8

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|...+...
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3568999999999999998764

>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=92.85  E-value=0.024  Score=46.01  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=19.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||||..++..+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999864

>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=92.82  E-value=0.035  Score=45.09  Aligned_cols=22  Identities=27%  Similarity=0.249  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|.|+|.+|+|||+|..++...
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4779999999999999998764

>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=92.78  E-value=0.032  Score=46.62  Aligned_cols=35  Identities=11%  Similarity=0.065  Sum_probs=25.8

Q ss_pred             EEEEEEccC-CCchhHHHHHHHhhccCccccceeee
Q 045345          138 RMIGICGMG-GIGKTTLARVVYDLSSHEFEASSFLA  172 (445)
Q Consensus       138 ~vv~I~G~g-GiGKTtLA~~~~~~~~~~f~~~~~~~  172 (445)
                      +.+-|.|-| |+||||++..++..+..+-..+..+.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEC
Confidence            467899998 99999999999887655433344443

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.78  E-value=0.022  Score=46.27  Aligned_cols=20  Identities=25%  Similarity=0.524  Sum_probs=18.6

Q ss_pred             EEEEccCCCchhHHHHHHHh
Q 045345          140 IGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~  159 (445)
                      |+|+|.+|+|||||..++..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            88999999999999999875

>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=92.78  E-value=0.028  Score=45.11  Aligned_cols=22  Identities=32%  Similarity=0.359  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|+.++...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988663

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=92.74  E-value=0.027  Score=45.27  Aligned_cols=23  Identities=26%  Similarity=0.236  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -.|.|+|.+|+|||||..++...
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34669999999999999988753

>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=92.63  E-value=0.053  Score=46.82  Aligned_cols=40  Identities=20%  Similarity=0.215  Sum_probs=28.4

Q ss_pred             hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       121 ~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+.++...+.......-.|+|+|.+|+|||||...++.+
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            3444555555544334456779999999999999999864

>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=92.60  E-value=0.039  Score=46.40  Aligned_cols=32  Identities=19%  Similarity=0.478  Sum_probs=25.5

Q ss_pred             HHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHh
Q 045345          123 WNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       123 l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      +++|..+|..     +..++.|.+|+|||||..++..
T Consensus        86 ~~~L~~~l~~-----kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          86 IEELKEYLKG-----KISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             HHHHHHHHSS-----SEEEEECSTTSSHHHHHHHHST
T ss_pred             HhhHHHHhcC-----CeEEEECCCCCCHHHHHHhhcc
Confidence            6677777752     3667999999999999998864

>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=92.59  E-value=0.031  Score=44.53  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=18.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|.|.+|+|||||..++...
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            3568899999999999988654

>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=92.58  E-value=0.03  Score=45.11  Aligned_cols=21  Identities=33%  Similarity=0.552  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      -|.+.|.+|+|||+|+..+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477999999999999998875

>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=92.56  E-value=0.031  Score=50.17  Aligned_cols=84  Identities=21%  Similarity=0.249  Sum_probs=45.9

Q ss_pred             EEEEEccCCCchhHHHHHHHhhccCccccceeeehhhhhhccCCHHHHHHHHHHHHhCCCCCCCcChhhhHHHHHHHHcc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLSSHEFEASSFLANVREISEKGGLICLQKQLLSELLKLPDTSTWNVYDGLKMIGSRLRY  218 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~l~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~  218 (445)
                      -|.|.|..|.||||+..+++..+-.. ..++-+.+..+..-.....     + .++.   ....   -.....++..|+.
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~~~-~rivtiEd~~El~l~~~~~-----~-~~~~---~~~~---~~~~~ll~~~lR~  234 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIPKE-ERIISIEDTEEIVFKHHKN-----Y-TQLF---FGGN---ITSADCLKSCLRM  234 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCTT-CCEEEEESSCCCCCSSCSS-----E-EEEE---CBTT---BCHHHHHHHHTTS
T ss_pred             CEEEEeeccccchHHHHHHhhhcccc-cceeeccchhhhhcccccc-----c-ceec---cccc---hhHHHHHHHHhcc
Confidence            47899999999999999998865432 2333333222221100000     0 0000   0000   1234456667777


Q ss_pred             CcEEEEEcCCCCHHHHH
Q 045345          219 RKVLLIVDAAFDLKQLE  235 (445)
Q Consensus       219 ~~~LlVlDdv~~~~~l~  235 (445)
                      .+=.||+..+.+.+.+.
T Consensus       235 ~pd~iivgEiR~~ea~~  251 (323)
T d1g6oa_         235 RPDRIILGELRSSEAYD  251 (323)
T ss_dssp             CCSEEEESCCCSTHHHH
T ss_pred             CCCcccCCccCchhHHH
Confidence            77778888887665544

>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=92.55  E-value=0.028  Score=45.91  Aligned_cols=21  Identities=24%  Similarity=0.347  Sum_probs=18.1

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      -|.+.|.+|+|||+|..++..
T Consensus         4 KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            356999999999999998754

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.55  E-value=0.03  Score=45.64  Aligned_cols=22  Identities=27%  Similarity=0.273  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|.|+|.+|+|||+|...+.+.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999998764

>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=92.54  E-value=0.031  Score=45.37  Aligned_cols=22  Identities=32%  Similarity=0.280  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|++.|.+|+|||+|+..+.+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999988764

>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=92.54  E-value=0.03  Score=46.04  Aligned_cols=22  Identities=27%  Similarity=0.327  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|.|.+|+|||||...+...
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4779999999999999998763

>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=92.52  E-value=0.031  Score=45.46  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+++|.+|+|||||+..+.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999998763

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=92.49  E-value=0.024  Score=48.21  Aligned_cols=23  Identities=26%  Similarity=0.491  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .+++|.|+.|.|||||.+.++.-
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            49999999999999999988763

>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=92.49  E-value=0.031  Score=44.22  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999999753

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.48  E-value=0.029  Score=46.17  Aligned_cols=19  Identities=32%  Similarity=0.471  Sum_probs=17.2

Q ss_pred             EEEEEccCCCchhHHHHHH
Q 045345          139 MIGICGMGGIGKTTLARVV  157 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~  157 (445)
                      -|.|.|.+|+|||+|..++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999988

>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=92.38  E-value=0.034  Score=44.55  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|..++...
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5779999999999999998753

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=92.28  E-value=0.025  Score=46.10  Aligned_cols=21  Identities=38%  Similarity=0.657  Sum_probs=18.9

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      -|+|+|.+|+|||||..++..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999864

>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=92.21  E-value=0.036  Score=44.59  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|...+.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999888753

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.19  E-value=0.036  Score=45.44  Aligned_cols=21  Identities=29%  Similarity=0.283  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |++.|.+|+|||+|..++...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            668999999999999888764

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=92.13  E-value=0.061  Score=43.47  Aligned_cols=22  Identities=36%  Similarity=0.341  Sum_probs=18.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      --|.|+|.+|+|||||..++..
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3456999999999999998754

>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=92.03  E-value=0.038  Score=48.04  Aligned_cols=24  Identities=25%  Similarity=0.278  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .+..|+|.+|+||||||.+++..+
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            377899999999999999887654

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.01  E-value=0.022  Score=45.87  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=17.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|+|.+|+|||+|..++.+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678899999999999887653

>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=91.99  E-value=0.04  Score=44.49  Aligned_cols=20  Identities=40%  Similarity=0.526  Sum_probs=18.3

Q ss_pred             EEEEccCCCchhHHHHHHHh
Q 045345          140 IGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~  159 (445)
                      |.++|.+|+|||+|..++..
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999998875

>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=91.96  E-value=0.029  Score=48.44  Aligned_cols=22  Identities=32%  Similarity=0.555  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ..++|+|+.|.|||||++.+..
T Consensus        45 e~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHh
Confidence            4899999999999999988764

>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=91.93  E-value=0.041  Score=44.06  Aligned_cols=21  Identities=29%  Similarity=0.621  Sum_probs=18.5

Q ss_pred             EEEEccCCCchhHHHHHHHhh
Q 045345          140 IGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       140 v~I~G~gGiGKTtLA~~~~~~  160 (445)
                      |.++|.+|+|||+|...+.+.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999998864

>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=91.83  E-value=0.041  Score=45.00  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|.|.|.+|+|||+|..++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999998664

>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=91.78  E-value=0.028  Score=45.28  Aligned_cols=24  Identities=29%  Similarity=0.272  Sum_probs=19.8

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHhh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..+ |.|+|.+|+|||||..++.+.
T Consensus        12 ~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          12 EMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhcC
Confidence            355 568999999999999998753

>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=91.76  E-value=0.064  Score=44.00  Aligned_cols=40  Identities=13%  Similarity=0.238  Sum_probs=31.2

Q ss_pred             hhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          121 SCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       121 ~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      .-+..+..+|.. .+....+.|+|+++.|||.+|..+.+-+
T Consensus        38 ~Fl~~l~~~l~~-~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          38 TFLGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC-CCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            446677777753 4556788899999999999999887754

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.72  E-value=0.012  Score=46.52  Aligned_cols=37  Identities=24%  Similarity=0.253  Sum_probs=26.7

Q ss_pred             CCCCChhhHHHHHHHHh-chhcCCCccEEEeeeccCCCcc
Q 045345            1 NYAYSTWCLDELVEIVE-LKSTNGHQQLIFPIFYDVEPTV   39 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~-~~~~~~~~~~v~Pvfy~v~ps~   39 (445)
                      +|..|.||..|+...+. ..++++  ..|||||++--|.+
T Consensus        71 ~~l~s~wc~~E~~~a~~~~~~~~~--~~iIpV~l~~~~~~  108 (149)
T d1fyxa_          71 NFVKSEWCKYELDFSHFRLFDENN--DAAILILLEPIEKK  108 (149)
T ss_dssp             HHHHHHTHHHHSCCSCCTTCGGGT--TCCEEEESSCCCTT
T ss_pred             ccccccchHHHHHHHHHHHHHcCC--ceEEEEEeccCchh
Confidence            47789999999976554 334555  78999999744433

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=91.67  E-value=0.032  Score=45.13  Aligned_cols=24  Identities=13%  Similarity=0.196  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      +...|+|+|.+++|||||..++..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            456799999999999999988754

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.64  E-value=0.045  Score=44.19  Aligned_cols=22  Identities=23%  Similarity=0.318  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|++.|.+|+|||+|...+...
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4679999999999999988764

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=91.63  E-value=0.043  Score=44.50  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|+|.|.+|+|||||..++...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999998753

>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=91.40  E-value=0.07  Score=48.46  Aligned_cols=36  Identities=22%  Similarity=0.137  Sum_probs=25.5

Q ss_pred             chhHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          120 DSCWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       120 ~~~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      +.....+...+.     .+++.|+|++|.||||++..+...
T Consensus       151 ~~Q~~A~~~al~-----~~~~vI~G~pGTGKTt~i~~~l~~  186 (359)
T d1w36d1         151 NWQKVAAAVALT-----RRISVISGGPGTGKTTTVAKLLAA  186 (359)
T ss_dssp             CHHHHHHHHHHT-----BSEEEEECCTTSTHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHc-----CCeEEEEcCCCCCceehHHHHHHH
Confidence            345555555553     358999999999999988665443

>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=91.15  E-value=0.025  Score=44.71  Aligned_cols=22  Identities=27%  Similarity=0.376  Sum_probs=19.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|+|.|.+|+|||||..++...
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999764

>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=91.09  E-value=0.26  Score=42.79  Aligned_cols=23  Identities=26%  Similarity=0.043  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ..++|.|.+|+|||+|+..+...
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEeecCCCCChHHHHHHHHHh
Confidence            46789999999999999887754

>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=91.00  E-value=0.051  Score=45.69  Aligned_cols=22  Identities=23%  Similarity=0.341  Sum_probs=18.8

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .-|.|.|.+|+|||||...+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3567999999999999988854

>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=90.77  E-value=0.035  Score=44.63  Aligned_cols=21  Identities=24%  Similarity=0.327  Sum_probs=8.6

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      -|.|+|.+|+|||||..++..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367899999999999988765

>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=90.49  E-value=0.12  Score=44.68  Aligned_cols=40  Identities=18%  Similarity=0.058  Sum_probs=30.9

Q ss_pred             hHHHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHhhc
Q 045345          122 CWNTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       122 ~l~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      -+..+..+|....+....+.++|+|+.|||+++..+..-+
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3455666675554566788999999999999999988755

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=90.09  E-value=0.11  Score=46.46  Aligned_cols=29  Identities=34%  Similarity=0.368  Sum_probs=24.2

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhccCcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSSHEF  165 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~~~f  165 (445)
                      +-.|.|-|.-|+||||+++.+.+.+..+.
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~~   34 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGGS   34 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCSS
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccCC
Confidence            45678899999999999999998765543

>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=89.76  E-value=0.094  Score=45.58  Aligned_cols=25  Identities=32%  Similarity=0.309  Sum_probs=22.0

Q ss_pred             CCeEEEEEEccCCCchhHHHHHHHh
Q 045345          135 YGVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       135 ~~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .+.|-|+|+|-+|.|||||+.++..
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHH
Confidence            3578899999999999999988865

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=89.31  E-value=0.13  Score=45.90  Aligned_cols=27  Identities=33%  Similarity=0.215  Sum_probs=23.0

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhccCc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSSHE  164 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~~~  164 (445)
                      -.|.|-|.=|+||||+++.+.+.+..+
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~~~   32 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFAIT   32 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTTTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            357899999999999999999876554

>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=88.25  E-value=0.15  Score=43.97  Aligned_cols=23  Identities=35%  Similarity=0.625  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCchhHHHHHHHh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      .|-|+|.|..|.|||||+.++..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHH
Confidence            47899999999999999998854

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.77  E-value=0.027  Score=44.99  Aligned_cols=36  Identities=25%  Similarity=0.386  Sum_probs=27.4

Q ss_pred             CCCCChhhHHHHHHHHhchhcCCCccEEEeeeccCCC
Q 045345            1 NYAYSTWCLDELVEIVELKSTNGHQQLIFPIFYDVEP   37 (445)
Q Consensus         1 ~ya~s~wcl~el~~i~~~~~~~~~~~~v~Pvfy~v~p   37 (445)
                      +|..|.||..|+...+.+..+.+. ..||||+++--|
T Consensus        76 ~~~~s~w~~~E~~~a~~~~~~~~~-~~lIpV~l~~~~  111 (161)
T d1fyva_          76 NFVQSEWCHYELYFAHHNLFHEGS-NSLILILLEPIP  111 (161)
T ss_dssp             HHHHHTSHHHHHHTTSCCCSCSSC-SSEEEEESSCCC
T ss_pred             ccccChHHHHHHHHHHHHHHHcCC-CceeEEEEecCc
Confidence            477899999999999887643331 689999997433

>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator IclR, N-terminal domain
domain: Transcriptional regulator IclR, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.64  E-value=0.48  Score=31.86  Aligned_cols=65  Identities=14%  Similarity=0.047  Sum_probs=51.2

Q ss_pred             HHHhhhhccCCCCCHHHHHHHHHhCCCCchhcHHHHhhcCceEEccCCeEEccHHHHHHHHHHHh
Q 045345          351 KIFLDIACFYRGEDRDYVTKIIDYCDFDPVIGIRVLIDKSLIEISNGNRLRMHNLLQEMGQQIVK  415 (445)
Q Consensus       351 ~~~~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~~~~~~mHdlvr~~ar~~~~  415 (445)
                      +++..++--+.+.+...+....+.........+..|.+.++++.+++++|.+=+-+-++|...++
T Consensus         9 ~IL~~~a~~~~~~s~~eia~~~~~~~st~~rll~tL~~~g~l~~~~~g~y~lG~~l~~lg~~~l~   73 (75)
T d1mkma1           9 EILDFIVKNPGDVSVSEIAEKFNMSVSNAYKYMVVLEEKGFVLRKKDKRYVPGYKLIEYGSFVLR   73 (75)
T ss_dssp             HHHHHHHHCSSCBCHHHHHHHTTCCHHHHHHHHHHHHHTTSEEECTTSCEEECTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEECCCCCEeecHHHHHHHHHHHh
Confidence            44555566667788888888776655556778999999999998888999998888888887765

>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=86.30  E-value=0.09  Score=44.26  Aligned_cols=21  Identities=24%  Similarity=0.464  Sum_probs=17.8

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      ..++.|.+|+|||||..++..
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC
T ss_pred             eEEEECCCCccHHHHHHhhcc
Confidence            446889999999999988854

>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=86.17  E-value=0.2  Score=42.08  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCchhHHHHHHHhh
Q 045345          138 RMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ++|+|.|-++.|||||+.++...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhh
Confidence            57999999999999999888653

>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=86.06  E-value=0.19  Score=40.28  Aligned_cols=21  Identities=43%  Similarity=0.599  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHh
Q 045345          139 MIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      -|+|.|.++.|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999999875

>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=84.89  E-value=0.2  Score=44.48  Aligned_cols=26  Identities=35%  Similarity=0.438  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhhcc
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      ...|.|=|.=|+||||+++.+.+...
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC---
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHhC
Confidence            34688999999999999999987543

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.86  E-value=0.4  Score=41.47  Aligned_cols=27  Identities=19%  Similarity=0.228  Sum_probs=23.8

Q ss_pred             CCCeEEEEEEccCCCchhHHHHHHHhh
Q 045345          134 PYGVRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       134 ~~~~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      ...+.+|+|.|+.+.|||+|+..++..
T Consensus        29 ~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          29 TQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            345899999999999999999998864

>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=84.84  E-value=0.3  Score=36.96  Aligned_cols=24  Identities=21%  Similarity=0.325  Sum_probs=20.0

Q ss_pred             CeEEEEEEccCCCchhHHHHHHHh
Q 045345          136 GVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       136 ~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      +.++..|+++.|.|||+++..++.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            467888999999999998866654

>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=84.30  E-value=0.21  Score=43.96  Aligned_cols=22  Identities=5%  Similarity=0.223  Sum_probs=17.6

Q ss_pred             CCeEEccHHHHHHHHHHHhhcC
Q 045345          397 GNRLRMHNLLQEMGQQIVKRQS  418 (445)
Q Consensus       397 ~~~~~mHdlvr~~ar~~~~~e~  418 (445)
                      +..|+.|.-|.++|..+++...
T Consensus       283 ~~nyRs~~~I~~~an~ll~~~~  304 (318)
T d1pjra1         283 EQNYRSTKRILQAANEVIEHNV  304 (318)
T ss_dssp             CBCSSSCHHHHHHHHHHHTTCS
T ss_pred             CCCCCCcHHHHHHHHHHHHcCc
Confidence            3457899999999999988643

>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=84.26  E-value=0.66  Score=39.87  Aligned_cols=24  Identities=25%  Similarity=0.252  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCchhHHHHHHHhh
Q 045345          137 VRMIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       137 ~~vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .-.|+|+|++.+|||||...+..+
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             ceEEEEEecCccchhhhhhhhhcc
Confidence            456899999999999999998763

>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=84.24  E-value=0.26  Score=42.79  Aligned_cols=22  Identities=32%  Similarity=0.523  Sum_probs=19.7

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      .|||+|+|.+|||||-.++...
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999988764

>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=83.93  E-value=0.23  Score=43.28  Aligned_cols=20  Identities=5%  Similarity=0.140  Sum_probs=16.7

Q ss_pred             CCeEEccHHHHHHHHHHHhh
Q 045345          397 GNRLRMHNLLQEMGQQIVKR  416 (445)
Q Consensus       397 ~~~~~mHdlvr~~ar~~~~~  416 (445)
                      ...|+.|.-|-++|-.+++.
T Consensus       273 ~~nyRs~~~I~~~an~l~~~  292 (306)
T d1uaaa1         273 EQNYRSSGRILKAANILIAN  292 (306)
T ss_dssp             CCBSSSCHHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHc
Confidence            44689999999999998875

>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=83.80  E-value=0.23  Score=45.63  Aligned_cols=22  Identities=18%  Similarity=0.373  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHh
Q 045345          138 RMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      --|+|.|.+|+|||||..++..
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

>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=83.50  E-value=0.37  Score=42.98  Aligned_cols=35  Identities=31%  Similarity=0.412  Sum_probs=27.1

Q ss_pred             HHHHhhhccCCCCeEEEEEEccCCCchhHHHHHHHh
Q 045345          124 NTLRFLMDKEPYGVRMIGICGMGGIGKTTLARVVYD  159 (445)
Q Consensus       124 ~~l~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~~~~  159 (445)
                      +.|.+++.. .+..|-|+|.|-.|.|||||+..+..
T Consensus         5 ~~~~~lm~~-~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2           5 DQMRSLMDK-VTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             HHHHHHHHC-GGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             HHHHHHhcC-cccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            445555543 34688899999999999999988864

>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=82.64  E-value=0.33  Score=42.51  Aligned_cols=22  Identities=36%  Similarity=0.596  Sum_probs=19.9

Q ss_pred             EEEEEccCCCchhHHHHHHHhh
Q 045345          139 MIGICGMGGIGKTTLARVVYDL  160 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~  160 (445)
                      -|||+|.|.+|||||-.++...
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4999999999999999999853

>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=82.58  E-value=0.12  Score=42.00  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=19.5

Q ss_pred             EEEEEccCCCchhHHHHHHHhhc
Q 045345          139 MIGICGMGGIGKTTLARVVYDLS  161 (445)
Q Consensus       139 vv~I~G~gGiGKTtLA~~~~~~~  161 (445)
                      +.+|+|+.|+|||||..++.--+
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            55689999999999999987644

>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=81.50  E-value=0.49  Score=35.02  Aligned_cols=25  Identities=8%  Similarity=-0.059  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCchhHHHHHHHhhcc
Q 045345          138 RMIGICGMGGIGKTTLARVVYDLSS  162 (445)
Q Consensus       138 ~vv~I~G~gGiGKTtLA~~~~~~~~  162 (445)
                      =.|.+.|..|.||+|||.++...+-
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~~l~   31 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLSTFL   31 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            4678999999999999999987653