Citrus Sinensis ID: 012671

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------46
Protein Sequence
MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHccccccccccccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHccccccccHHcccccccEEccccHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHcccHHHHHHcccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEccccccccHHHHHHHHHHHHHccHHcccccccccHcccccEEccHHHHHHHHHHHHHHHHHHHcccccHEEEEccccccHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHEEEEc
Coil and Loop (DISEMBL)
MPASKLSSCLAVAAAVASLSTasnrafadapsrfsffssspqptssgndeaeqtadaqksrepeeprgsgfdpEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNrilgqpsliressigkfpwsglLSQAMNKVIRnktsagtagpveaiknngdiilhpSLQRRIQHLAKATAntkihqapfrnmlfygppgtgktMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI
Flexible Loop (DISEMBL)
MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTAdaqksrepeeprgsgfdpEALERAAKALRefnssrhareaFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQaraqglrnedELARKRlqtdheaqrrhntelvkmqeessirkeqarrsteeqiqaqqrltekeraeierETIRVKAmaeaegraheakltedhnrRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATAntkihqapfrnMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI
Low Complexity Region (SEG)
MPasklssclavaaavaslstasNRAFADApsrfsffssspqptssGNDEAEQTADAQKSREPEEPRGSGFDPealeraakalreFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI
Disordered region (IsUnstruct)
*********LAVAAAV***********************************************************************************************VEKVHYE***************************************************************************************************************************MLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVY*
Disordered Region (DISOPRED)
*******************************************************************************************************************************************************************************************************************************************************************************LLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQA**********************NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI
Disordered Region (DISEMBL)
**********AVAAAVASLSTASNRAFADAPSRFSFF*********************************FDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHR****************EDELARKRLQTDHEAQRRHNTEL********************************RAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI
Disordered Region (DISPRO)
**********************************************************************FDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERxxxxxxxxxxxxxxxxxxxxxGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQAxxxxxxxxxxxxxxxxxxxxxxxxxTIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI
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	458	2.2.26 [Sep-21-2011]
Q6PAX2	593	ATPase family AAA domain-	N/A	no	0.700	0.541	0.341	4e-40
Q6NVR9	594	ATPase family AAA domain-	yes	no	0.663	0.511	0.342	1e-39
Q58E76	593	ATPase family AAA domain-	N/A	no	0.668	0.516	0.341	1e-39
Q20748	595	ATPase family AAA domain-	yes	no	0.679	0.522	0.354	6e-39
A7YWC4	586	ATPase family AAA domain-	yes	no	0.700	0.547	0.344	2e-37
Q5T9A4	648	ATPase family AAA domain-	yes	no	0.689	0.487	0.346	1e-36
Q3KRE0	591	ATPase family AAA domain-	yes	no	0.766	0.593	0.324	6e-36
Q925I1	591	ATPase family AAA domain-	yes	no	0.694	0.538	0.341	2e-35
Q9NVI7	634	ATPase family AAA domain-	no	no	0.694	0.501	0.298	6e-29
Q5T2N8	411	ATPase family AAA domain-	no	no	0.344	0.384	0.329	6e-20

>sp|Q6PAX2|ATD3B_XENLA ATPase family AAA domain-containing protein 3-B OS=Xenopus laevis GN=atad3-b PE=2 SV=1

 Score =  166 bits (419), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 119/348 (34%), Positives = 183/348 (52%), Gaps = 27/348 (7%)

Query: 67  RGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDV 126
           + S FDP  LERAAKA RE + SRHA+EA ++ + QE+T   E   +   YEA   Q+  
Sbjct: 42  KWSNFDPTGLERAAKAARELDQSRHAKEALNLAKVQEETLQMEQQAKIKEYEAAVEQIKN 101

Query: 127 ERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEES 183
           E+ R  +EE R  + ++    QARAQ    +D+LAR+R +     Q+  N E ++ QEES
Sbjct: 102 EQIRVQSEEKRKTLNEETKQHQARAQ---YQDKLARQRYEDQLRQQQLQNEENLRRQEES 158

Query: 184 SIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRML 243
             ++E  R++T E              E+  +   ++  AEA  RA   +   D  R  +
Sbjct: 159 VQKQEAMRKATVEH-----------EMELRHKNDMLRIEAEAHARAKVERENADIIREQI 207

Query: 244 IERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVT 303
             +    R+  L +I T  +   EG R+ ++D +K+  TV G T LA G+YT + G  V 
Sbjct: 208 RLKAAEHRQTVLESIKTAGTVFGEGFRTFISDWDKVTATVAGLTLLAVGVYTAKNGTGVA 267

Query: 304 WGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILH 363
             Y+   LG+PSL+R++S      +      ++K I +K      G          +IL 
Sbjct: 268 GRYIEARLGKPSLVRDTSRITVVEAIKHPIKISKRIFSKIQDALEG----------VILS 317

Query: 364 PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           P L+ R++ +A AT NTK ++  +RN+L YGPPGTGKT+ A+++A  S
Sbjct: 318 PRLEERVRDIAIATRNTKANKGLYRNILMYGPPGTGKTLFAKKLAMHS 365

Xenopus laevis (taxid: 8355)

>sp|Q6NVR9|ATAD3_XENTR ATPase family AAA domain-containing protein 3 OS=Xenopus tropicalis GN=atad3 PE=2 SV=1

 Score =  164 bits (416), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 125/365 (34%), Positives = 191/365 (52%), Gaps = 61/365 (16%)

Query: 67  RGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDV 126
           + S FDP  LERAAKA RE + SRHA+EA ++ + QE+T   E   +   YEA   Q+  
Sbjct: 42  KWSNFDPTGLERAAKAARELDQSRHAKEALNLAKVQEETLQLEQQSKIKEYEAAVEQLKN 101

Query: 127 ERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEES 183
           E+ R  AEE R  + ++    QARAQ    +D+LAR+R +     Q+  N E ++ QEES
Sbjct: 102 EQIRVQAEERRKTLNEETKQHQARAQ---YQDKLARQRYEDQLRQQQLQNEENLRRQEES 158

Query: 184 SIRKEQARRSTEE------------QIQAQQRL---TEKERAEIERETIRVKAMAEAEGR 228
             ++E  R++T E            +I+A+ R     E+E A+I RE IR+KA       
Sbjct: 159 VQKQEAMRKATVEHEMELRHKNEMLRIEAEARARAKVERENADIIRENIRLKAA------ 212

Query: 229 AHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATA 288
                   +H            R+  L +I T  +   EG R+ ++D +K+  TV G + 
Sbjct: 213 --------EH------------RQTVLESIKTAGTVFGEGFRAFISDWDKVTATVAGLSL 252

Query: 289 LAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQA--MNKVIRNKTSAG 346
           LA GIYT +    V   Y+   LG+PSL+R++S  +F  +  +     ++K + +K    
Sbjct: 253 LAVGIYTAKNATGVAGRYIEARLGKPSLVRDTS--RFTVAEAVKHPVKISKRLLSKIQDA 310

Query: 347 TAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVARE 406
             G          +IL P L+ R++ +A AT NTK ++  +RN+L YGPPGTGKT+ A++
Sbjct: 311 LEG----------VILSPKLEERVRDIAIATRNTKANKGLYRNILMYGPPGTGKTLFAKK 360

Query: 407 IARKS 411
           +A  S
Sbjct: 361 LAMHS 365

Xenopus tropicalis (taxid: 8364)

>sp|Q58E76|ATD3A_XENLA ATPase family AAA domain-containing protein 3-A OS=Xenopus laevis GN=atad3-a PE=2 SV=1

 Score =  164 bits (415), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 124/363 (34%), Positives = 187/363 (51%), Gaps = 57/363 (15%)

Query: 67  RGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDV 126
           + S FDP  LERAAKA RE + SRHA+EA ++ + QE+T   E   +   YEA   Q+  
Sbjct: 42  KWSNFDPTGLERAAKAARELDQSRHAKEAINLAKVQEETLQMEQQAKIKEYEAAVEQLKN 101

Query: 127 ERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEES 183
           E+ R  AEE R  + ++    QARAQ    +D+LAR+R +     Q+  N E ++ QE+S
Sbjct: 102 EQIRVQAEERRKTLNEETKQHQARAQ---YQDKLARQRYEDQLRQQQLQNEENLRRQEDS 158

Query: 184 SIRKEQARRSTEE------------QIQAQQRL---TEKERAEIERETIRVKAMAEAEGR 228
             ++E  RR+T E            +I+A+ R     E+E A+I RE IR+KA       
Sbjct: 159 VQKQEAMRRATVEHEMELRHKNEMLRIEAEARAQAKVERENADIIREQIRLKAA------ 212

Query: 229 AHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATA 288
                   +H            R+  L +I T  +   EG R+ ++D +K+  TV G T 
Sbjct: 213 --------EH------------RQTVLESIKTAGTVFGEGFRTFISDWDKVTATVAGLTL 252

Query: 289 LAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTA 348
           LA G+YT +    V   Y+   LG+PSL+R++S      +      + K + +K      
Sbjct: 253 LAVGVYTAKNATGVAGRYIEARLGKPSLVRDTSRITVAEAVKHPIKITKRLYSKIQDALE 312

Query: 349 GPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIA 408
           G          +IL P L+ R++ +A AT NTK ++  +RN+L YGPPGTGKT+ A+++A
Sbjct: 313 G----------VILSPRLEERVRDIAIATRNTKANKGLYRNILMYGPPGTGKTLFAKKLA 362

Query: 409 RKS 411
             S
Sbjct: 363 MHS 365

Xenopus laevis (taxid: 8355)

>sp|Q20748|ATAD3_CAEEL ATPase family AAA domain-containing protein 3 OS=Caenorhabditis elegans GN=atad-3 PE=3 SV=2

 Score =  162 bits (409), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 124/350 (35%), Positives = 187/350 (53%), Gaps = 39/350 (11%)

Query: 71  FDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQR 130
           FD  ALERAAKA R+     +A+EA ++ R QE TR  E++ E    EA  + +  E  R
Sbjct: 47  FDSTALERAAKAARDLEKFPNAKEALELSRMQEVTRQKEVENETKKIEAQLANMKSEHIR 106

Query: 131 KLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQA 190
              EE R  + ++ +        +D+LARKR + +   + R   E ++ QEES  ++EQ 
Sbjct: 107 VAEEERRKTLGEETKHAHSRAEYQDQLARKRAEEELAMKARMQEESLRKQEESVKKQEQL 166

Query: 191 RRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGR---AHEAKLTEDHNRRMLIERI 247
           R+ T E   A +   E E+  I+ ET R +A A  + R     + KL E+ NR+ +IE+ 
Sbjct: 167 RKQTIEHELALKHKYELEK--IDAET-RARAKAARDNRDVNLEQMKLHEEENRKTVIEK- 222

Query: 248 NGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYV 307
                     I T+   I  G+   L D+ K+   VGG TALA G YT + G  VT  Y+
Sbjct: 223 ----------IKTSGELIGSGLNQFLNDKTKIAAAVGGLTALAVGWYTAKRGTGVTARYI 272

Query: 308 NRILGQPSLIRESS------IGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDII 361
              LG+PSL+RE+S      + K P      +++  + R K       P+     NG ++
Sbjct: 273 ESRLGKPSLVRETSRITPLEVLKHP-----IKSVQMMTRQKKD-----PL-----NG-VV 316

Query: 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           L P+L+RR++ +A  T+NTK +   FRN++FYGPPGTGKT+ A+ +A+ S
Sbjct: 317 LPPALERRLRDIAITTSNTKRNNGLFRNVMFYGPPGTGKTLFAKSLAQHS 366

Essential for mitochondrial network organization, mitochondrial metabolism and cell growth at organism and cellular level. Important during development for the up-regulation of mitochondrial activity during the transition to higher larval stages. May play an important in mitochondrial protein synthesis. May also participate in mitochondrial DNA replication. May bind to mitochondrial DNA D-loops and contribute to nucleoid stability.

Caenorhabditis elegans (taxid: 6239)

>sp|A7YWC4|ATAD3_BOVIN ATPase family AAA domain-containing protein 3 OS=Bos taurus GN=ATAD3 PE=2 SV=1

 Score =  157 bits (396), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 120/348 (34%), Positives = 186/348 (53%), Gaps = 27/348 (7%)

Query: 67  RGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDV 126
           + S FDP  LERAAKA RE   SRHA+EA  + + QEQT   E   +   YEA   Q+  
Sbjct: 45  KWSNFDPTGLERAAKAARELEHSRHAKEALSLAQMQEQTLQLEHQAKLKEYEAAVEQLKG 104

Query: 127 ERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEES 183
           ++ R  AEE R  + ++    QARAQ    +D+LAR+R +   + Q+  N E ++ QEES
Sbjct: 105 DQIRVQAEERRKTLSEETRQHQARAQ---YQDKLARQRYEDQLKQQQLLNEENLRKQEES 161

Query: 184 SIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRML 243
             ++E  RR+T E+    +   E  R E E           A+    + +L    +R+ +
Sbjct: 162 VQKQEALRRATVEREMELRHKNEMLRVEAEARARAKAERENADIIREQIRLKAAEHRQTI 221

Query: 244 IERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVT 303
           +E           +I T  +   EG R+ +TD +K+  TV G T LA GIY+ +    V 
Sbjct: 222 LE-----------SIRTAGTLFGEGFRAFVTDWDKVTATVAGLTLLAVGIYSAKNATSVA 270

Query: 304 WGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILH 363
             Y+   LG+PSL+RE+S         + +A+   I+       + P +A++    ++L 
Sbjct: 271 GRYIEARLGKPSLVRETS------RITVLEALRHPIQVSRRL-LSKPQDALEG---VVLS 320

Query: 364 PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           PSL+ R++ +A AT NTK +++ +RN+L YGPPGTGKT+ A+++A  S
Sbjct: 321 PSLEARVRDIAIATRNTKKNKSLYRNVLMYGPPGTGKTLFAKKLALHS 368

Bos taurus (taxid: 9913)

>sp|Q5T9A4|ATD3B_HUMAN ATPase family AAA domain-containing protein 3B OS=Homo sapiens GN=ATAD3B PE=1 SV=1

 Score =  154 bits (390), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 121/349 (34%), Positives = 190/349 (54%), Gaps = 33/349 (9%)

Query: 69  SGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVER 128
           S FDP  LERAAKA RE   SR+A+EA ++ + QEQT   E   +   YEA   Q+  E+
Sbjct: 48  SNFDPTGLERAAKAARELEHSRYAKEALNLAQMQEQTLQLEQQSKLKEYEAAVEQLKSEQ 107

Query: 129 QRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSI 185
            R  AEE R  + ++    QARAQ    +D+LAR+R +   + Q+  N E ++ QEES  
Sbjct: 108 IRAQAEERRKTLSEETRQHQARAQ---YQDKLARQRYEDQLKQQQLLNEENLRKQEESVQ 164

Query: 186 RKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIE 245
           ++E  RR+T   ++ +  L  K       E +RV+   EA  RA   +   D  R  +  
Sbjct: 165 KQEAMRRAT---VEREMELRHKN------EMLRVE--TEARARAKAERENADIIREQIRL 213

Query: 246 RINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWG 305
           + +  R+  L +I T  +   EG R+ +TDR+K+  TV G T LA G+Y+ +    VT  
Sbjct: 214 KASEHRQTVLESIRTAGTLFGEGFRAFVTDRDKVTATVAGLTLLAVGVYSAKNATAVTGR 273

Query: 306 YVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAG---TAGPVEAIKNNGDIIL 362
           ++   LG+PSL+RE+S             + + +R+         + P + ++    ++L
Sbjct: 274 FIEARLGKPSLVRETS----------RITVLEALRHPIQVSRRLLSRPQDVLEG---VVL 320

Query: 363 HPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
            PSL+ R++ +A AT NTK ++  +R++L YGPPGTGKT+ A+++A  S
Sbjct: 321 SPSLEARVRDIAIATRNTKKNRGLYRHILLYGPPGTGKTLFAKKLALHS 369

Homo sapiens (taxid: 9606)

>sp|Q3KRE0|ATAD3_RAT ATPase family AAA domain-containing protein 3 OS=Rattus norvegicus GN=Atad3 PE=1 SV=1

 Score =  152 bits (384), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 128/395 (32%), Positives = 196/395 (49%), Gaps = 44/395 (11%)

Query: 34  FSFFSSSPQPTSSGNDEAEQTADAQKSREPEEPRGSG-----------FDPEALERAAKA 82
            S+      P   G         AQ   E    RG+G           FDP  LERAAKA
Sbjct: 1   MSWLFGIKGPKGEGTGPPLPLPPAQPGAESGGDRGAGDRPSPKDKWSNFDPTGLERAAKA 60

Query: 83  LREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQ 142
            RE   SRHA+EA ++ + QEQT   E   +   YEA   Q+  E+ R  AEE R  + +
Sbjct: 61  ARELEHSRHAKEALNLAQMQEQTLQLEQQSKLKEYEAAVEQLKSEQIRVQAEERRKTLNE 120

Query: 143 KA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQ 199
           +    QARAQ    +D+LAR+R +   + Q+  N E ++ QEES  ++E  RR+T E+  
Sbjct: 121 ETRQHQARAQ---YQDKLARQRYEDQLKQQQLLNEENLRKQEESVQKQEAIRRATVEREM 177

Query: 200 AQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAIN 259
             +   E  R E E           A+    + +L    +R+ ++E           +I 
Sbjct: 178 ELRHKNEMLRVEAEARARAKADRENADIIREQIRLKAAEHRQTILE-----------SIR 226

Query: 260 TTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRE 319
           T  +   EG R+ +TD +K+  TV G T LA G+Y+ +    V   Y+   LG+PSL+RE
Sbjct: 227 TAGTLFGEGFRAFVTDWDKVTATVAGLTLLAVGVYSAKNATSVAGRYIEARLGKPSLVRE 286

Query: 320 SSIGKFPWSGLLSQAMNKVIRNKTSAG---TAGPVEAIKNNGDIILHPSLQRRIQHLAKA 376
           +S            ++ + +R+         + P +A++    +IL PSL+ R++ +A A
Sbjct: 287 TS----------RISVLEALRHPIQVSRRLVSRPQDALEG---VILSPSLEARVRDIAIA 333

Query: 377 TANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           T NTK +++ +RN+L YGPPGTGKT+ A+++A  S
Sbjct: 334 TRNTKKNKSLYRNVLMYGPPGTGKTLFAKKLALHS 368

Rattus norvegicus (taxid: 10116)

>sp|Q925I1|ATAD3_MOUSE ATPase family AAA domain-containing protein 3 OS=Mus musculus GN=Atad3 PE=1 SV=1

 Score =  150 bits (379), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 120/351 (34%), Positives = 187/351 (53%), Gaps = 33/351 (9%)

Query: 67  RGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDV 126
           + S FDP  LERAAKA RE   SRHA+EA  + + QEQT   E   +   YEA   Q+  
Sbjct: 45  KWSNFDPTGLERAAKAARELEHSRHAKEALSLAQMQEQTLQLEQQSKLKEYEAAVEQLKS 104

Query: 127 ERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEES 183
           E+ R  AEE R  + ++    QARAQ    +D+LAR+R +   + Q+  N E ++ QEES
Sbjct: 105 EQIRVQAEERRKTLTEETRQHQARAQ---YQDKLARQRYEDQLKQQQLLNEENLRKQEES 161

Query: 184 SIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRML 243
             ++E  RR+T E+    +   E  R E E           A+    + +L    +R+ +
Sbjct: 162 VQKQEAIRRATVEREMELRHKNEMLRVEAEARARAKADRENADIIREQIRLKAAEHRQTI 221

Query: 244 IERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVT 303
           +E           +I T  + + EG R+ +TD +K+  TV G T LA G+Y+ +    V 
Sbjct: 222 LE-----------SIRTAGTLLGEGFRAFVTDWDKVTATVAGLTLLAVGVYSAKNATSVA 270

Query: 304 WGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAG---TAGPVEAIKNNGDI 360
             Y+   LG+PSL+RE+S            ++ + +R+         + P +A++    +
Sbjct: 271 GRYIEARLGKPSLVRETS----------RISVLEALRHPIQVSRRLVSRPQDALEG---V 317

Query: 361 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           IL PSL+ R++ +A AT NTK +++ +RN+L YGPPGTGKT+ A+++A  S
Sbjct: 318 ILSPSLEARVRDIAIATRNTKKNKSLYRNVLMYGPPGTGKTLFAKKLALHS 368

Mus musculus (taxid: 10090)

>sp|Q9NVI7|ATD3A_HUMAN ATPase family AAA domain-containing protein 3A OS=Homo sapiens GN=ATAD3A PE=1 SV=2

 Score =  129 bits (323), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 119/399 (29%), Positives = 189/399 (47%), Gaps = 81/399 (20%)

Query: 67  RGSGFDPEALERAAKALREFNSSRHAREAFDI-----------------MR--------- 100
           + S FDP  LERAAKA RE   SR+A++A ++                 MR         
Sbjct: 46  KWSNFDPTGLERAAKAARELEHSRYAKDALNLAQMQEQTLQLEQQSKLKMRLEALSLLHT 105

Query: 101 ------------KQEQTRLA-ELDVEKV---------HYEAIQSQVDVERQRKLAEEHRN 138
                        Q Q RL+     E+V          YEA   Q+  E+ R  AEE R 
Sbjct: 106 LVWAWSLCRAGAVQTQERLSGSASPEQVPAGECCALQEYEAAVEQLKSEQIRAQAEERRK 165

Query: 139 LVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTE 195
            + ++    QARAQ    +D+LAR+R +   + Q+  N E ++ QEES  ++E  RR+T 
Sbjct: 166 TLSEETRQHQARAQ---YQDKLARQRYEDQLKQQQLLNEENLRKQEESVQKQEAMRRATV 222

Query: 196 EQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWL 255
           E+    +   E  R E E           A+    + +L    +R+ ++E          
Sbjct: 223 EREMELRHKNEMLRVEAEARARAKAERENADIIREQIRLKAAEHRQTVLE---------- 272

Query: 256 AAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPS 315
            +I T  +   EG R+ +TD +K+  TV G T LA G+Y+ +    V   ++   LG+PS
Sbjct: 273 -SIRTAGTLFGEGFRAFVTDWDKVTATVAGLTLLAVGVYSAKNATLVAGRFIEARLGKPS 331

Query: 316 LIRESSIGKFPWSGLLSQAMNKVIRNKTSAG---TAGPVEAIKNNGDIILHPSLQRRIQH 372
           L+RE+S             + + +R+         + P +A++    ++L PSL+ R++ 
Sbjct: 332 LVRETS----------RITVLEALRHPIQVSRRLLSRPQDALEG---VVLSPSLEARVRD 378

Query: 373 LAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           +A AT NTK +++ +RN+L YGPPGTGKT+ A+++A  S
Sbjct: 379 IAIATRNTKKNRSLYRNILMYGPPGTGKTLFAKKLALHS 417

Homo sapiens (taxid: 9606)

>sp|Q5T2N8|ATD3C_HUMAN ATPase family AAA domain-containing protein 3C OS=Homo sapiens GN=ATAD3C PE=2 SV=2

 Score = 99.0 bits (245), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 55/167 (32%), Positives = 95/167 (56%), Gaps = 9/167 (5%)

Query: 245 ERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTW 304
           E +    + +L +I    +   EG R+ +TDR+K+  TV G T LA G+Y+ +    VT 
Sbjct: 37  ESVQKHHQTFLESIRAAGTLFGEGFRAFVTDRDKVTATVAGLTLLAVGVYSAKNATAVTG 96

Query: 305 GYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHP 364
            Y+   LG+PSL+RE+S         + +A+   I+  +    + P + ++    ++L P
Sbjct: 97  RYIEARLGKPSLVRETS------RITVLEALRHPIQQVSRRLLSRPQDVLEG---VVLSP 147

Query: 365 SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           SL+ R++ +A  T N K ++  +R++L YGPPGTGKT+ A+++A  S
Sbjct: 148 SLEARVRDIAIMTRNIKKNRGLYRHILLYGPPGTGKTLFAKKLALHS 194

Homo sapiens (taxid: 9606)

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	458
297735144	649	unnamed protein product [Vitis vinifera]	0.886	0.625	0.760	1e-164
225430736	627	PREDICTED: ATPase family AAA domain-cont	0.886	0.647	0.760	1e-164
224097014	633	predicted protein [Populus trichocarpa]	0.895	0.647	0.740	1e-164
356538198	631	PREDICTED: ATPase family AAA domain-cont	0.890	0.646	0.722	1e-163
255561118	626	Protein MSP1, putative [Ricinus communis	0.884	0.646	0.745	1e-161
356495406	626	PREDICTED: ATPase family AAA domain-cont	0.893	0.653	0.713	1e-159
449451537	626	PREDICTED: ATPase family AAA domain-cont	0.884	0.646	0.731	1e-158
18398708	636	AAA-type ATPase-like protein [Arabidopsi	0.877	0.632	0.705	1e-155
334187222	632	AAA-type ATPase family protein [Arabidop	0.886	0.642	0.688	1e-152
297832492	633	AAA-type ATPase family protein [Arabidop	0.886	0.641	0.703	1e-150

>gi|297735144|emb|CBI17506.3| unnamed protein product [Vitis vinifera]

 Score =  584 bits (1506), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 314/413 (76%), Positives = 353/413 (85%), Gaps = 7/413 (1%)

Query: 1   MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKS 60
           M AS+LSSC+A+AAAVA  S AS+ A+AD P RFS FSSSP  TS  + E      ++  
Sbjct: 23  MAASRLSSCVAMAAAVAFFSKASSGAYADGPFRFSPFSSSPPQTSQSSVE-----KSEDK 77

Query: 61  REPEEPR--GSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYE 118
            E +EPR   SGFDPE+LER AKALRE NSS +A++ F+IMRKQEQTRLAEL  EK H E
Sbjct: 78  SEADEPRVSSSGFDPESLERGAKALREINSSPNAKQVFEIMRKQEQTRLAELAAEKAHQE 137

Query: 119 AIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVK 178
           AIQ+Q D+++QRK+AEE  NLVQQ+AQA+AQ LR EDELARKR+QTDHEAQRRHN ELVK
Sbjct: 138 AIQAQADIDKQRKMAEEQMNLVQQQAQAKAQMLRYEDELARKRMQTDHEAQRRHNVELVK 197

Query: 179 MQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH 238
           MQEESSIRKEQARR+TEEQIQAQQR TEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH
Sbjct: 198 MQEESSIRKEQARRATEEQIQAQQRQTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH 257

Query: 239 NRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTRE 298
           NRRMLIER+NGEREKWLAAINT FSHIE G R LLTDRNKL+M +GGATA+AAG+YTTRE
Sbjct: 258 NRRMLIERMNGEREKWLAAINTMFSHIEGGFRVLLTDRNKLLMAIGGATAVAAGVYTTRE 317

Query: 299 GARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNG 358
           GARVTWGY+NRILGQPSLIRESSI KFPWSG++S+  NKV+   T+AG A P E   + G
Sbjct: 318 GARVTWGYINRILGQPSLIRESSIAKFPWSGMVSRGTNKVLNYSTAAGGARPGENKTSFG 377

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           +IILHPSLQRRI+HLA+AT+NTK HQAPFRNMLFYGPPGTGKTMVAREIARKS
Sbjct: 378 NIILHPSLQRRIEHLARATSNTKSHQAPFRNMLFYGPPGTGKTMVAREIARKS 430

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430736|ref|XP_002266534.1| PREDICTED: ATPase family AAA domain-containing protein 3-A [Vitis vinifera]

 Score =  584 bits (1505), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 314/413 (76%), Positives = 353/413 (85%), Gaps = 7/413 (1%)

Query: 1   MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKS 60
           M AS+LSSC+A+AAAVA  S AS+ A+AD P RFS FSSSP  TS  + E      ++  
Sbjct: 1   MAASRLSSCVAMAAAVAFFSKASSGAYADGPFRFSPFSSSPPQTSQSSVE-----KSEDK 55

Query: 61  REPEEPR--GSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYE 118
            E +EPR   SGFDPE+LER AKALRE NSS +A++ F+IMRKQEQTRLAEL  EK H E
Sbjct: 56  SEADEPRVSSSGFDPESLERGAKALREINSSPNAKQVFEIMRKQEQTRLAELAAEKAHQE 115

Query: 119 AIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVK 178
           AIQ+Q D+++QRK+AEE  NLVQQ+AQA+AQ LR EDELARKR+QTDHEAQRRHN ELVK
Sbjct: 116 AIQAQADIDKQRKMAEEQMNLVQQQAQAKAQMLRYEDELARKRMQTDHEAQRRHNVELVK 175

Query: 179 MQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH 238
           MQEESSIRKEQARR+TEEQIQAQQR TEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH
Sbjct: 176 MQEESSIRKEQARRATEEQIQAQQRQTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH 235

Query: 239 NRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTRE 298
           NRRMLIER+NGEREKWLAAINT FSHIE G R LLTDRNKL+M +GGATA+AAG+YTTRE
Sbjct: 236 NRRMLIERMNGEREKWLAAINTMFSHIEGGFRVLLTDRNKLLMAIGGATAVAAGVYTTRE 295

Query: 299 GARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNG 358
           GARVTWGY+NRILGQPSLIRESSI KFPWSG++S+  NKV+   T+AG A P E   + G
Sbjct: 296 GARVTWGYINRILGQPSLIRESSIAKFPWSGMVSRGTNKVLNYSTAAGGARPGENKTSFG 355

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           +IILHPSLQRRI+HLA+AT+NTK HQAPFRNMLFYGPPGTGKTMVAREIARKS
Sbjct: 356 NIILHPSLQRRIEHLARATSNTKSHQAPFRNMLFYGPPGTGKTMVAREIARKS 408

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224097014|ref|XP_002310811.1| predicted protein [Populus trichocarpa] gi|222853714|gb|EEE91261.1| predicted protein [Populus trichocarpa]

 Score =  583 bits (1503), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 306/413 (74%), Positives = 351/413 (84%), Gaps = 3/413 (0%)

Query: 1   MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKS 60
           M AS+LS     AAA A  ST  +RA+AD+  RF+ FSSSP        E +QTA+ +  
Sbjct: 1   MSASRLSVAAVAAAAAAV-STFQSRAYADSSFRFNPFSSSPSQKQQQQQEEDQTANPKSD 59

Query: 61  R--EPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYE 118
              EPEE +G+GFDPEALER AKALRE NSS HA++ FD+MRKQEQ+RLAE+  EK HYE
Sbjct: 60  AKPEPEETKGAGFDPEALERGAKALREINSSPHAKQVFDVMRKQEQSRLAEVAAEKSHYE 119

Query: 119 AIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVK 178
            IQ+Q+D++RQRKL EE RNL+QQ+AQA+AQ LR EDELARKR+QTDHEAQ+RHN ELVK
Sbjct: 120 VIQAQIDIDRQRKLHEEQRNLIQQQAQAKAQMLRYEDELARKRMQTDHEAQKRHNVELVK 179

Query: 179 MQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH 238
           MQEESSIRKEQARR+TEEQIQAQQR TEKERAEIERETIRVKAMAEAEGRAHEAKLTE+H
Sbjct: 180 MQEESSIRKEQARRATEEQIQAQQRQTEKERAEIERETIRVKAMAEAEGRAHEAKLTEEH 239

Query: 239 NRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTRE 298
           NRRML+ERINGEREKWLAAINTTFSHIE G R+LLTDRNKL+MTVGGATALAAGIYTTRE
Sbjct: 240 NRRMLVERINGEREKWLAAINTTFSHIEGGFRTLLTDRNKLIMTVGGATALAAGIYTTRE 299

Query: 299 GARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNG 358
           G+RV WGY+NRILGQPSLIRESS+ + P+S ++SQA NK ++  T+AGTA P+E+     
Sbjct: 300 GSRVIWGYINRILGQPSLIRESSMSRLPFSRVISQAKNKAMKYSTAAGTASPLESKNGFR 359

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           +IILHPSL RRI+HLA+ATANTK HQAPFRNM+FYGPPGTGKTMVAREIARKS
Sbjct: 360 NIILHPSLHRRIEHLARATANTKTHQAPFRNMMFYGPPGTGKTMVAREIARKS 412

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356538198|ref|XP_003537591.1| PREDICTED: ATPase family AAA domain-containing protein 3-like [Glycine max]

 Score =  582 bits (1500), Expect = e-163,   Method: Compositional matrix adjust.
 Identities = 299/414 (72%), Positives = 355/414 (85%), Gaps = 6/414 (1%)

Query: 1   MPASKLSSCLAV-AAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQ- 58
           M ASKL+SC+AV +AAV S+S  S+RA+AD+  R  FFSS P   S+      QT+D++ 
Sbjct: 1   MAASKLTSCVAVTSAAVVSMSAFSDRAYADSYFRLPFFSSKP---SNEPSPPNQTSDSKS 57

Query: 59  KSREPEEP-RGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHY 117
           +   P+EP +  GFDPE+LER AKALRE NSS ++++ FD+MRKQE+TRLAELD EKVHY
Sbjct: 58  EPPPPDEPNKSGGFDPESLERGAKALREINSSPYSKQLFDLMRKQEETRLAELDAEKVHY 117

Query: 118 EAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELV 177
           E IQSQ D+ERQRK+AEE RNL+Q +AQ +AQ LR EDELARKR+QTDHEAQR+HN ELV
Sbjct: 118 ELIQSQGDIERQRKMAEEQRNLIQDQAQRQAQVLRYEDELARKRMQTDHEAQRQHNVELV 177

Query: 178 KMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTED 237
           KMQE+SS RKEQAR++TEEQIQ+QQR TE+ERAEIERETIRVKAMAEAEGRAHEAKLTED
Sbjct: 178 KMQEQSSFRKEQARQATEEQIQSQQRQTERERAEIERETIRVKAMAEAEGRAHEAKLTED 237

Query: 238 HNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTR 297
           HNRRMLIER+ GER+KWLAAINTTFSHIE G+R+LLTDR+KL+MTVGGATALAAGIYTTR
Sbjct: 238 HNRRMLIERMQGERDKWLAAINTTFSHIEGGLRALLTDRDKLLMTVGGATALAAGIYTTR 297

Query: 298 EGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNN 357
           EG++VTWGY+NRILGQPSLIRESS+ KFP S ++SQA NKV+ N T AG   P+ +    
Sbjct: 298 EGSKVTWGYINRILGQPSLIRESSMAKFPGSEIISQAKNKVLCNSTLAGAEKPIGSKNGL 357

Query: 358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           G++ILHPSLQRRI+HLA+AT+NTK HQAPFRNMLFYGPPGTGKTMVA+E+AR+S
Sbjct: 358 GNVILHPSLQRRIEHLARATSNTKSHQAPFRNMLFYGPPGTGKTMVAKELARRS 411

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561118|ref|XP_002521571.1| Protein MSP1, putative [Ricinus communis] gi|223539249|gb|EEF40842.1| Protein MSP1, putative [Ricinus communis]

 Score =  573 bits (1478), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 308/413 (74%), Positives = 353/413 (85%), Gaps = 8/413 (1%)

Query: 1   MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKS 60
           M AS+L+SC+A AAA A+  T +  ++A+   RF+ FSSS   +SS + + +    +   
Sbjct: 1   MAASRLTSCVAAAAAAAATVT-TKVSYAEGSFRFNPFSSS---SSSTSQQQQSDHSSDDK 56

Query: 61  REPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAI 120
            E EEP+GSGFDPEALER A ALRE NSS  +++ FDIMR+QEQTRLAE+  EKVHYEAI
Sbjct: 57  PESEEPKGSGFDPEALERGAIALREINSSPCSKQVFDIMRRQEQTRLAEVAAEKVHYEAI 116

Query: 121 QSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQ 180
           Q+Q+D++RQRKLAEE RNLVQQ+AQA+AQ LR EDELARKR+QTDHEAQRRHN ELVKMQ
Sbjct: 117 QAQIDIDRQRKLAEEQRNLVQQQAQAKAQMLRYEDELARKRMQTDHEAQRRHNVELVKMQ 176

Query: 181 EESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNR 240
           EESSIRKEQARR+TEEQIQAQQR TEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNR
Sbjct: 177 EESSIRKEQARRATEEQIQAQQRQTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNR 236

Query: 241 RMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGA 300
           RML+ERINGE+EKWLAAINT FSHIE G R LLTDRNKL+MTVGGATALAAG+YTTREGA
Sbjct: 237 RMLVERINGEKEKWLAAINTAFSHIEGGFRILLTDRNKLIMTVGGATALAAGVYTTREGA 296

Query: 301 RVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNG-- 358
           RVTWGY+NRILGQPSLIRESSI +FP SG LS+  + V +  T+AG A P+E+  NNG  
Sbjct: 297 RVTWGYINRILGQPSLIRESSIARFPLSGALSKIRSNVPKYSTAAGAAAPLES--NNGFK 354

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           +IILHPSLQ+RI+HLA+ATANTK HQAPFRNM+FYGPPGTGKTMVAREIARKS
Sbjct: 355 NIILHPSLQKRIEHLARATANTKTHQAPFRNMMFYGPPGTGKTMVAREIARKS 407

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356495406|ref|XP_003516569.1| PREDICTED: ATPase family AAA domain-containing protein 3-like [Glycine max]

 Score =  568 bits (1463), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 294/412 (71%), Positives = 348/412 (84%), Gaps = 3/412 (0%)

Query: 1   MPASKLSSCLAV-AAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQK 59
           M AS+L+SC+AV +AAV S+ST S+RA+AD  S F     S + +S  +   + +    +
Sbjct: 1   MAASRLTSCVAVTSAAVVSMSTFSDRAYAD--SYFRLPFFSSKSSSEPSPPNQPSDSNSE 58

Query: 60  SREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEA 119
              P+EP  SGFDPE+LER AKALRE NSS ++++ FD+MRKQE+TRLAELD EKVHYE 
Sbjct: 59  PPPPDEPNKSGFDPESLERGAKALREINSSPYSKQLFDLMRKQEETRLAELDAEKVHYEL 118

Query: 120 IQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKM 179
           IQSQ D+ERQRK+AEE RNL+Q +AQ +AQ LR EDELARKRLQTDHEAQR+HN ELVKM
Sbjct: 119 IQSQGDIERQRKMAEEQRNLIQDQAQRQAQVLRYEDELARKRLQTDHEAQRQHNVELVKM 178

Query: 180 QEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHN 239
           QE+SS RKEQAR++TEEQIQ+QQR TE+ERAEIERETIRVKAMAEAEGRAHEAKLTEDHN
Sbjct: 179 QEQSSFRKEQARQATEEQIQSQQRQTERERAEIERETIRVKAMAEAEGRAHEAKLTEDHN 238

Query: 240 RRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREG 299
           RRMLIER+ GER+KWLAAINTTFSHIE G+R+LLTDR+KL+MTVGGATALAAGIY TREG
Sbjct: 239 RRMLIERMQGERDKWLAAINTTFSHIEGGLRALLTDRDKLLMTVGGATALAAGIYMTREG 298

Query: 300 ARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGD 359
           ++VTWGY+NRILGQPSLIRESS+ KFP S ++SQA NKV+ + T AG   P+ +    G+
Sbjct: 299 SKVTWGYINRILGQPSLIRESSMAKFPGSKIISQAKNKVLHDSTLAGAEKPIGSKNGLGN 358

Query: 360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           +ILHPSLQRRI+HLA+AT+NTK HQAPFRNMLFYG PGTGKTMVAREIAR+S
Sbjct: 359 VILHPSLQRRIEHLARATSNTKSHQAPFRNMLFYGSPGTGKTMVAREIARRS 410

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449451537|ref|XP_004143518.1| PREDICTED: ATPase family AAA domain-containing protein 3-like [Cucumis sativus] gi|449504882|ref|XP_004162321.1| PREDICTED: ATPase family AAA domain-containing protein 3-like [Cucumis sativus]

 Score =  565 bits (1455), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 302/413 (73%), Positives = 346/413 (83%), Gaps = 8/413 (1%)

Query: 1   MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSS--PQPTSSGNDEAEQTADAQ 58
           M  S+LS+C+A+AAA ASL T +N A+AD+P RFS FSSS  PQ   S +D++    DA+
Sbjct: 1   MAVSRLSACVAMAAAAASLPTIANHAYADSPFRFSPFSSSQAPQEDKSSDDKS----DAK 56

Query: 59  KSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYE 118
            +   EEP  SGFD EALER AKALRE NSS +A++ F++M+KQEQ RLAEL  EK HYE
Sbjct: 57  PA--VEEPSKSGFDAEALERGAKALREINSSPNAKQVFELMKKQEQARLAELAAEKAHYE 114

Query: 119 AIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVK 178
            IQSQ D+ERQRKLAEE RNL+QQ+AQA+AQ LR EDELARKR+QTDHEAQRRHN ELV 
Sbjct: 115 VIQSQADIERQRKLAEEQRNLIQQQAQAKAQMLRYEDELARKRMQTDHEAQRRHNVELVG 174

Query: 179 MQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH 238
           MQE+SS+RKEQAR+ TEEQIQAQQR TEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH
Sbjct: 175 MQEQSSLRKEQARQVTEEQIQAQQRQTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH 234

Query: 239 NRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTRE 298
           NRRML+ERI+GE+EKWLAAINTTFSHIE GVR LLTDRNKLV+ VGGATALAAG+YTTRE
Sbjct: 235 NRRMLMERISGEKEKWLAAINTTFSHIEGGVRILLTDRNKLVLAVGGATALAAGVYTTRE 294

Query: 299 GARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNG 358
           GARV WGYVNR+LGQPSLIRESS+ +FP S ++    NK     T AG AG VE   + G
Sbjct: 295 GARVIWGYVNRLLGQPSLIRESSVARFPGSKIIPWVKNKAAAFSTGAGDAGLVENKNHLG 354

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           +I+LHPSL+RRI+ LA+ATANTK H+APFRNMLFYGPPGTGKTMVA+EIARKS
Sbjct: 355 NIVLHPSLKRRIEQLARATANTKAHEAPFRNMLFYGPPGTGKTMVAKEIARKS 407

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18398708|ref|NP_565435.1| AAA-type ATPase-like protein [Arabidopsis thaliana] gi|15450828|gb|AAK96685.1| putative AAA-type ATPase [Arabidopsis thaliana] gi|20197813|gb|AAD15504.2| putative AAA-type ATPase [Arabidopsis thaliana] gi|20259834|gb|AAM13264.1| putative AAA-type ATPase [Arabidopsis thaliana] gi|330251663|gb|AEC06757.1| AAA-type ATPase-like protein [Arabidopsis thaliana]

 Score =  554 bits (1427), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 295/418 (70%), Positives = 347/418 (83%), Gaps = 16/418 (3%)

Query: 1   MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSP----QPT---SSGNDEAEQ 53
           M AS+L S  A+AAA  S+S + NRA+AD+  RF FFSSSP     PT   SS N ++E 
Sbjct: 1   MAASRLCSAAAIAAAFTSMSMSQNRAYADSRFRFPFFSSSPPAEESPTDHKSSSNSKSET 60

Query: 54  TADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVE 113
             D+      +EP+GSGFDPE+LER AKALRE NSS H+++ FD+MRKQE+TRLAEL  E
Sbjct: 61  KPDS------DEPKGSGFDPESLERGAKALREINSSPHSKQVFDLMRKQEKTRLAELAAE 114

Query: 114 KVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHN 173
           K H EAIQ+  D+ERQRKLAE+ RNLVQQ+AQA+AQ LR EDELARKR+QTD+EAQRRHN
Sbjct: 115 KEHNEAIQASKDIERQRKLAEDQRNLVQQQAQAKAQNLRYEDELARKRMQTDNEAQRRHN 174

Query: 174 TELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAK 233
            ELV MQE SSIRKE+AR +TEEQIQAQQR TEKERAE+ERETIRVKAMAEAEGRAHEAK
Sbjct: 175 AELVSMQEASSIRKEKARIATEEQIQAQQRETEKERAELERETIRVKAMAEAEGRAHEAK 234

Query: 234 LTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGI 293
           LTE+ NRRML+++INGEREKWLAAINTTFSHIE GVR+LLTDR+KL+MTVGG TALAAG+
Sbjct: 235 LTEEQNRRMLLDKINGEREKWLAAINTTFSHIEGGVRTLLTDRSKLIMTVGGVTALAAGV 294

Query: 294 YTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEA 353
           YTTREGARVTWGY+NRILGQPSLIRESS+G+FPW+G +SQ  NK+     +A +A   + 
Sbjct: 295 YTTREGARVTWGYINRILGQPSLIRESSMGRFPWAGSVSQFKNKLSTAAGAAASAEGEKP 354

Query: 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           ++N   +ILH SL+ RI+ LA+ATANTK H+APFRNM+FYGPPGTGKTMVAREIARKS
Sbjct: 355 LEN---VILHRSLKTRIERLARATANTKSHKAPFRNMMFYGPPGTGKTMVAREIARKS 409

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334187222|ref|NP_195376.2| AAA-type ATPase family protein [Arabidopsis thaliana] gi|332661274|gb|AEE86674.1| AAA-type ATPase family protein [Arabidopsis thaliana]

 Score =  546 bits (1406), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 283/411 (68%), Positives = 334/411 (81%), Gaps = 5/411 (1%)

Query: 1   MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKS 60
           M AS+L S  A+AAA  S+S + NRA+AD+      F SS       +  A Q++   K+
Sbjct: 1   MAASRLCSAAAIAAAFTSMSMSQNRAYADSSRFRFPFFSSSPSPPPSDSPANQSSSKSKA 60

Query: 61  REPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAI 120
            EP+EP+GSGFDPEALERAAKALR+ NSS H+++ FD+MRKQE+TRLAEL  E  HYEAI
Sbjct: 61  -EPDEPKGSGFDPEALERAAKALRDINSSPHSKQVFDLMRKQEKTRLAELTAETSHYEAI 119

Query: 121 QSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQ 180
           Q+  D+ RQ+KLAE+ RNL+Q +AQ +AQ LR EDELARKR QTDHEAQR HN ELVKMQ
Sbjct: 120 QAHNDIGRQQKLAEDQRNLLQTQAQTKAQNLRYEDELARKRQQTDHEAQRHHNVELVKMQ 179

Query: 181 EESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNR 240
           E SSIRKE+A+ +TEEQIQAQ R TEKERAE+ERETIRVKAMAEAEGRAHEAKLTE+ NR
Sbjct: 180 EASSIRKEKAKIATEEQIQAQHRQTEKERAELERETIRVKAMAEAEGRAHEAKLTEEQNR 239

Query: 241 RMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGA 300
           R+L+ERINGEREKWLAAINT FSHIE G R+LLTDRNKL+MTVGGATALAAG+YTTREGA
Sbjct: 240 RLLMERINGEREKWLAAINTMFSHIEGGFRTLLTDRNKLIMTVGGATALAAGVYTTREGA 299

Query: 301 RVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDI 360
           RVTWGY+NR+LGQPSLIRESS+ +FPW+G +SQ  N++    + A  A   E  K   ++
Sbjct: 300 RVTWGYINRMLGQPSLIRESSMRRFPWTGSVSQFKNRI----SGAAAASAAEGKKPLDNV 355

Query: 361 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           ILH SL++RI+ LA+ATANTK HQAPFRNM+FYGPPGTGKTMVAREIARKS
Sbjct: 356 ILHTSLKKRIERLARATANTKSHQAPFRNMMFYGPPGTGKTMVAREIARKS 406

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297832492|ref|XP_002884128.1| AAA-type ATPase family protein [Arabidopsis lyrata subsp. lyrata] gi|297329968|gb|EFH60387.1| AAA-type ATPase family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  538 bits (1385), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 289/411 (70%), Positives = 347/411 (84%), Gaps = 5/411 (1%)

Query: 1   MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKS 60
           M AS+L S  A+AAA  S+S + NRA+AD+  RF FFSSSP    S  D+  +++  +  
Sbjct: 1   MAASRLCSAAAIAAAFTSMSMSQNRAYADSRFRFPFFSSSPPAEESPTDQ--KSSSNETK 58

Query: 61  REPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAI 120
            + +EP+GSGFDPE+LER AKALRE NSS H+++ FD+MRKQE+TRLAEL  EK H EAI
Sbjct: 59  PDSDEPKGSGFDPESLERGAKALREINSSPHSKQVFDLMRKQEKTRLAELAAEKEHNEAI 118

Query: 121 QSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQ 180
           Q+  D+ERQRKLAE+ RNLVQQ+AQA+AQ LR EDELARKR+QTD+EAQRRHN ELV MQ
Sbjct: 119 QAHKDIERQRKLAEDQRNLVQQQAQAKAQMLRYEDELARKRMQTDNEAQRRHNAELVSMQ 178

Query: 181 EESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNR 240
           EESSIRKE+AR +TE+QIQAQQR TEKERAE+ERETIRVKAMAEAEGRAHEAKLTE+ NR
Sbjct: 179 EESSIRKEKARIATEQQIQAQQRQTEKERAELERETIRVKAMAEAEGRAHEAKLTEEQNR 238

Query: 241 RMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGA 300
           RML+++INGEREKWLAAINTTFSHIE GVR+LLTDR+KL+MTVGG TALAAG+YTTREGA
Sbjct: 239 RMLVDKINGEREKWLAAINTTFSHIEGGVRTLLTDRSKLIMTVGGITALAAGVYTTREGA 298

Query: 301 RVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDI 360
           RVTWGY+NRILGQPSLIRESS+G+FPW+G +SQ  NK+ +   +A +A   + ++N   +
Sbjct: 299 RVTWGYINRILGQPSLIRESSMGRFPWAGSVSQFKNKLSKAAGAAASAEGEKPLEN---V 355

Query: 361 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           ILH SL+ RI+ LA+ATANTK H+APFRNM+FYGPPGTGKT+VAREIARKS
Sbjct: 356 ILHRSLKTRIERLARATANTKSHKAPFRNMMFYGPPGTGKTLVAREIARKS 406

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	458
TAIR|locus:2062170	636	AT2G18330 [Arabidopsis thalian	0.840	0.605	0.676	1.6e-134
TAIR|locus:2148206	644	AT5G16930 [Arabidopsis thalian	0.779	0.554	0.586	3.9e-108
TAIR|locus:2097690	628	AT3G03060 [Arabidopsis thalian	0.770	0.562	0.582	4.9e-108
RGD|1305964	591	Atad3a "ATPase family, AAA dom	0.735	0.570	0.339	4.2e-40
UNIPROTKB|Q3KRE0	591	Atad3 "ATPase family AAA domai	0.735	0.570	0.339	4.2e-40
ZFIN|ZDB-GENE-040426-1826	621	atad3b "ATPase family, AAA dom	0.703	0.518	0.34	5.2e-40
MGI|MGI:1919214	591	Atad3a "ATPase family, AAA dom	0.735	0.570	0.339	6.8e-40
UNIPROTKB|F1RJE4	593	LOC100525876 "Uncharacterized	0.713	0.551	0.344	8.7e-40
UNIPROTKB|A7YWC4	586	ATAD3 "ATPase family AAA domai	0.733	0.573	0.335	2.3e-39
UNIPROTKB|Q5T9A4	648	ATAD3B "ATPase family AAA doma	0.713	0.504	0.330	1.5e-38

TAIR|locus:2062170 AT2G18330 [Arabidopsis thaliana (taxid:3702)]

 Score = 1318 (469.0 bits), Expect = 1.6e-134, P = 1.6e-134
 Identities = 263/389 (67%), Positives = 310/389 (79%)

Query:    24 NRAFADAXXXXXXXXXXXXXXXXGND-EAEQTADAQKSREPEEPRGSGFDPXXXXXXXXX 82
             NRA+AD+                  D ++   + ++   + +EP+GSGFDP         
Sbjct:    24 NRAYADSRFRFPFFSSSPPAEESPTDHKSSSNSKSETKPDSDEPKGSGFDPESLERGAKA 83

Query:    83 XXXFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQ 142
                 NSS H+++ FD+MRKQE+TRLAEL  EK H EAIQ+  D+ERQRKLAE+ RNLVQQ
Sbjct:    84 LREINSSPHSKQVFDLMRKQEKTRLAELAAEKEHNEAIQASKDIERQRKLAEDQRNLVQQ 143

Query:   143 KAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQ 202
             +AQA+AQ LR EDELARKR+QTD+EAQRRHN ELV MQE SSIRKE+AR +TEEQIQAQQ
Sbjct:   144 QAQAKAQNLRYEDELARKRMQTDNEAQRRHNAELVSMQEASSIRKEKARIATEEQIQAQQ 203

Query:   203 RLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTF 262
             R TEKERAE+ERETIRVKAMAEAEGRAHEAKLTE+ NRRML+++INGEREKWLAAINTTF
Sbjct:   204 RETEKERAELERETIRVKAMAEAEGRAHEAKLTEEQNRRMLLDKINGEREKWLAAINTTF 263

Query:   263 SHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSI 322
             SHIE GVR+LLTDR+KL+MTVGG TALAAG+YTTREGARVTWGY+NRILGQPSLIRESS+
Sbjct:   264 SHIEGGVRTLLTDRSKLIMTVGGVTALAAGVYTTREGARVTWGYINRILGQPSLIRESSM 323

Query:   323 GKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKI 382
             G+FPW+G +SQ  NK+    T+AG A   E  K   ++ILH SL+ RI+ LA+ATANTK 
Sbjct:   324 GRFPWAGSVSQFKNKL---STAAGAAASAEGEKPLENVILHRSLKTRIERLARATANTKS 380

Query:   383 HQAPFRNMLFYGPPGTGKTMVAREIARKS 411
             H+APFRNM+FYGPPGTGKTMVAREIARKS
Sbjct:   381 HKAPFRNMMFYGPPGTGKTMVAREIARKS 409

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0000741 "karyogamy" evidence=RCA

GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0034968 "histone lysine methylation" evidence=RCA

GO:0005739 "mitochondrion" evidence=IDA

TAIR|locus:2148206 AT5G16930 [Arabidopsis thaliana (taxid:3702)]

 Score = 1069 (381.4 bits), Expect = 3.9e-108, P = 3.9e-108
 Identities = 213/363 (58%), Positives = 273/363 (75%)

Query:    51 AEQTADAQKSREPEEPR--GSGFDPXXXXXXXXXXXXFNSSRHAREAFDIMRKQEQTRLA 108
             A + +DA        PR   +GFDP             N+S HA++ F+ ++ +E+TR A
Sbjct:    64 AGEESDAPPRIRNNNPRTTSAGFDPEALERGAKALKGINNSAHAKKVFESIKTREETRQA 123

Query:   109 ELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEA 168
             E   +   ++A+QSQ + ERQR + EE + L Q +AQ ++Q  R EDELARKR+Q ++EA
Sbjct:   124 EFTAKAQEFKAMQSQAEAERQRVIYEEQKKLAQHQAQTKSQMARYEDELARKRMQAENEA 183

Query:   169 QRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGR 228
             QR  N ELVKMQEES+IR+E ARR+TEE+IQAQ+R TE+E+AEIERETIRVKAMAEAEGR
Sbjct:   184 QRTRNQELVKMQEESAIRREVARRATEEEIQAQRRQTEREKAEIERETIRVKAMAEAEGR 243

Query:   229 AHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATA 288
             A E+KL+ED NRRML++R N EREKW++AINTTF HI  G+R++LTD+NKL++ VGG TA
Sbjct:   244 ARESKLSEDVNRRMLVDRANAEREKWVSAINTTFDHIGGGLRTILTDQNKLIVAVGGLTA 303

Query:   289 LAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTA 348
             LAAGIYTTREGA+V W YV+RILGQPSLIRESS GK+PWSG  S+ ++  +R      T+
Sbjct:   304 LAAGIYTTREGAKVIWSYVDRILGQPSLIRESSRGKYPWSGSASRVLS-TLRGGGKESTS 362

Query:   349 GPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIA 408
                +  K  GD+IL P+L++RI+ LA ATANTK HQAPFRN+LFYGPPGTGKTM ARE+A
Sbjct:   363 ---KTGKGFGDVILRPALEKRIEQLANATANTKAHQAPFRNILFYGPPGTGKTMAARELA 419

Query:   409 RKS 411
             R+S
Sbjct:   420 RRS 422

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0005739 "mitochondrion" evidence=IDA

TAIR|locus:2097690 AT3G03060 [Arabidopsis thaliana (taxid:3702)]

 Score = 1068 (381.0 bits), Expect = 4.9e-108, P = 4.9e-108
 Identities = 211/362 (58%), Positives = 275/362 (75%)

Query:    52 EQTADAQKSREPEEPRGS--GFDPXXXXXXXXXXXXFNSSRHAREAFDIMRKQEQTRLAE 109
             E+++   ++R  + PR S  GFDP             N S +A++ F+ +++QE+T+  E
Sbjct:    56 EESSAPPRARN-DNPRTSSGGFDPEALERGAKALKEINHSSYAKKVFESIKQQEETKQTE 114

Query:   110 LDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQ 169
                +   ++A+Q+Q + ER + + +E + L Q +AQ ++Q  R ED+LARKR+Q ++E  
Sbjct:   115 FATKAQEFKAMQAQAETERHKVIYDEQKKLAQHQAQTKSQMARYEDDLARKRMQAENEFH 174

Query:   170 RRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRA 229
             R  N ELVKMQE+S+IR+EQARR+TEEQIQAQ+R TE+E+AEIERETIRVKA+AEAEGRA
Sbjct:   175 RTRNQELVKMQEDSAIRQEQARRATEEQIQAQRRQTEREKAEIERETIRVKAIAEAEGRA 234

Query:   230 HEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATAL 289
             HEA+L ED NRRML++R N EREKW+AAINTTF HI  G+R++LTD+NKL++ VGG TAL
Sbjct:   235 HEARLAEDVNRRMLVDRANAEREKWVAAINTTFDHIGGGLRAILTDQNKLIVAVGGVTAL 294

Query:   290 AAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAG 349
             AAGIYTTREGA+V W YV+RILGQPSLIRESS GK+PWSG LS+ M+  +R K SA   G
Sbjct:   295 AAGIYTTREGAKVIWSYVDRILGQPSLIRESSRGKYPWSGSLSRVMS-TLRGKESASKNG 353

Query:   350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIAR 409
                  K  GD+ILHP L +RI+HLA +TANTK+HQAPFRN+L +GPPGTGKTM ARE+AR
Sbjct:   354 -----KRFGDVILHPPLAKRIEHLATSTANTKLHQAPFRNILLHGPPGTGKTMAARELAR 408

Query:   410 KS 411
             KS
Sbjct:   409 KS 410

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0005618 "cell wall" evidence=IDA

GO:0009505 "plant-type cell wall" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IDA

RGD|1305964 Atad3a "ATPase family, AAA domain containing 3A" [Rattus norvegicus (taxid:10116)]

 Score = 427 (155.4 bits), Expect = 4.2e-40, P = 4.2e-40
 Identities = 124/365 (33%), Positives = 188/365 (51%)

Query:    51 AEQTADAQKSREPE-EPRGSGFDPXXXXXXXXXXXXFNSSRHAREAFDIMRKQEQTRLAE 109
             AE   D      P  + + S FDP               SRHA+EA ++ + QEQT   E
Sbjct:    28 AESGGDRGAGDRPSPKDKWSNFDPTGLERAAKAARELEHSRHAKEALNLAQMQEQTLQLE 87

Query:   110 LDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDH 166
                +   YEA   Q+  E+ R  AEE R  + ++    QARAQ    +D+LAR+R +   
Sbjct:    88 QQSKLKEYEAAVEQLKSEQIRVQAEERRKTLNEETRQHQARAQ---YQDKLARQRYEDQL 144

Query:   167 EAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAE 226
             + Q+  N E ++ QEES  ++E  RR+T E+   +  L  K       E +RV+A  EA 
Sbjct:   145 KQQQLLNEENLRKQEESVQKQEAIRRATVER---EMELRHKN------EMLRVEA--EAR 193

Query:   227 GRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGA 286
              RA   +   D  R  +  +    R+  L +I T  +   EG R+ +TD +K+  TV G 
Sbjct:   194 ARAKADRENADIIREQIRLKAAEHRQTILESIRTAGTLFGEGFRAFVTDWDKVTATVAGL 253

Query:   287 TALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAG 346
             T LA G+Y+ +    V   Y+   LG+PSL+RE+S  +      L   + +V R   S  
Sbjct:   254 TLLAVGVYSAKNATSVAGRYIEARLGKPSLVRETS--RISVLEALRHPI-QVSRRLVSR- 309

Query:   347 TAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVARE 406
                P +A++    +IL PSL+ R++ +A AT NTK +++ +RN+L YGPPGTGKT+ A++
Sbjct:   310 ---PQDALEG---VILSPSLEARVRDIAIATRNTKKNKSLYRNVLMYGPPGTGKTLFAKK 363

Query:   407 IARKS 411
             +A  S
Sbjct:   364 LALHS 368

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISO

GO:0005743 "mitochondrial inner membrane" evidence=IEA;ISO

GO:0016021 "integral to membrane" evidence=IEA

GO:0016049 "cell growth" evidence=ISO

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

GO:0042645 "mitochondrial nucleoid" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=ISO

UNIPROTKB|Q3KRE0 Atad3 "ATPase family AAA domain-containing protein 3" [Rattus norvegicus (taxid:10116)]

 Score = 427 (155.4 bits), Expect = 4.2e-40, P = 4.2e-40
 Identities = 124/365 (33%), Positives = 188/365 (51%)

Query:    51 AEQTADAQKSREPE-EPRGSGFDPXXXXXXXXXXXXFNSSRHAREAFDIMRKQEQTRLAE 109
             AE   D      P  + + S FDP               SRHA+EA ++ + QEQT   E
Sbjct:    28 AESGGDRGAGDRPSPKDKWSNFDPTGLERAAKAARELEHSRHAKEALNLAQMQEQTLQLE 87

Query:   110 LDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDH 166
                +   YEA   Q+  E+ R  AEE R  + ++    QARAQ    +D+LAR+R +   
Sbjct:    88 QQSKLKEYEAAVEQLKSEQIRVQAEERRKTLNEETRQHQARAQ---YQDKLARQRYEDQL 144

Query:   167 EAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAE 226
             + Q+  N E ++ QEES  ++E  RR+T E+   +  L  K       E +RV+A  EA 
Sbjct:   145 KQQQLLNEENLRKQEESVQKQEAIRRATVER---EMELRHKN------EMLRVEA--EAR 193

Query:   227 GRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGA 286
              RA   +   D  R  +  +    R+  L +I T  +   EG R+ +TD +K+  TV G 
Sbjct:   194 ARAKADRENADIIREQIRLKAAEHRQTILESIRTAGTLFGEGFRAFVTDWDKVTATVAGL 253

Query:   287 TALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAG 346
             T LA G+Y+ +    V   Y+   LG+PSL+RE+S  +      L   + +V R   S  
Sbjct:   254 TLLAVGVYSAKNATSVAGRYIEARLGKPSLVRETS--RISVLEALRHPI-QVSRRLVSR- 309

Query:   347 TAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVARE 406
                P +A++    +IL PSL+ R++ +A AT NTK +++ +RN+L YGPPGTGKT+ A++
Sbjct:   310 ---PQDALEG---VILSPSLEARVRDIAIATRNTKKNKSLYRNVLMYGPPGTGKTLFAKK 363

Query:   407 IARKS 411
             +A  S
Sbjct:   364 LALHS 368

GO:0005524 "ATP binding" evidence=IEA

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

ZFIN|ZDB-GENE-040426-1826 atad3b "ATPase family, AAA domain containing 3B" [Danio rerio (taxid:7955)]

 Score = 427 (155.4 bits), Expect = 5.2e-40, P = 5.2e-40
 Identities = 119/350 (34%), Positives = 187/350 (53%)

Query:    62 EPEEPRGSGFDPXXXXXXXXXXXXFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQ 121
             +P++ + S FDP             + SRHA+EA D+ R QEQT   E   +   YEA  
Sbjct:    36 KPKD-KWSNFDPTGLERAAQAARELDQSRHAKEALDLARMQEQTVQMEHQGKIKEYEAAV 94

Query:   122 SQVDVERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVK 178
              Q+  E+ R  A+E R  + ++    QARAQ    +D+LAR+R       Q   N E ++
Sbjct:    95 EQLKGEQIRIQADERRKTLNEETRQHQARAQ---YQDKLARQRYDDQLRQQTLLNEENLR 151

Query:   179 MQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH 238
              QEES  ++E  RR+T   I+ +  L  K       E +RV+A  E++ RA   +   D 
Sbjct:   152 KQEESVQKQEAMRRAT---IEHEMDLRHKN------EMLRVEA--ESKARARVERENADI 200

Query:   239 NRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTRE 298
              R  +  +    R+  L +I T  +   EG R+ ++D +K+  TV G T LAAG+Y+ R 
Sbjct:   201 IREQIRLKAAEHRQTVLESIRTAGAVFGEGFRAFISDWDKVTATVAGLTLLAAGVYSARN 260

Query:   299 GARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNG 358
                V   Y+   LG+PSL+RE+S  +F  +  L   + KV++   S     P +A++   
Sbjct:   261 ATAVAGRYIEARLGKPSLVRETS--RFTVAEALKHPI-KVVKRLQSK----PQDALEG-- 311

Query:   359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIA 408
              ++L P L+ R++ +A AT NT+ ++  +RN+L YGPPGTGKT+ A+++A
Sbjct:   312 -VVLSPPLEERVRDIAIATRNTRQNRGLYRNILMYGPPGTGKTLFAKKLA 360

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

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

MGI|MGI:1919214 Atad3a "ATPase family, AAA domain containing 3A" [Mus musculus (taxid:10090)]

 Score = 425 (154.7 bits), Expect = 6.8e-40, P = 6.8e-40
 Identities = 124/365 (33%), Positives = 188/365 (51%)

Query:    51 AEQTADAQKSREPE-EPRGSGFDPXXXXXXXXXXXXFNSSRHAREAFDIMRKQEQTRLAE 109
             AE   D      P  + + S FDP               SRHA+EA  + + QEQT   E
Sbjct:    28 AEGGGDRGAGDRPSPKDKWSNFDPTGLERAAKAARELEHSRHAKEALSLAQMQEQTLQLE 87

Query:   110 LDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDH 166
                +   YEA   Q+  E+ R  AEE R  + ++    QARAQ    +D+LAR+R +   
Sbjct:    88 QQSKLKEYEAAVEQLKSEQIRVQAEERRKTLTEETRQHQARAQ---YQDKLARQRYEDQL 144

Query:   167 EAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAE 226
             + Q+  N E ++ QEES  ++E  RR+T E+   +  L  K       E +RV+A  EA 
Sbjct:   145 KQQQLLNEENLRKQEESVQKQEAIRRATVER---EMELRHKN------EMLRVEA--EAR 193

Query:   227 GRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGA 286
              RA   +   D  R  +  +    R+  L +I T  + + EG R+ +TD +K+  TV G 
Sbjct:   194 ARAKADRENADIIREQIRLKAAEHRQTILESIRTAGTLLGEGFRAFVTDWDKVTATVAGL 253

Query:   287 TALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAG 346
             T LA G+Y+ +    V   Y+   LG+PSL+RE+S  +      L   + +V R   S  
Sbjct:   254 TLLAVGVYSAKNATSVAGRYIEARLGKPSLVRETS--RISVLEALRHPI-QVSRRLVSR- 309

Query:   347 TAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVARE 406
                P +A++    +IL PSL+ R++ +A AT NTK +++ +RN+L YGPPGTGKT+ A++
Sbjct:   310 ---PQDALEG---VILSPSLEARVRDIAIATRNTKKNKSLYRNVLMYGPPGTGKTLFAKK 363

Query:   407 IARKS 411
             +A  S
Sbjct:   364 LALHS 368

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0005743 "mitochondrial inner membrane" evidence=IDA

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016049 "cell growth" evidence=ISO

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

GO:0042645 "mitochondrial nucleoid" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=ISO

UNIPROTKB|F1RJE4 LOC100525876 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 424 (154.3 bits), Expect = 8.7e-40, P = 8.7e-40
 Identities = 122/354 (34%), Positives = 183/354 (51%)

Query:    61 REPEEPRGSGFDPXXXXXXXXXXXXFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAI 120
             R   + + S FDP               SRHA+EA  + + QEQT   E   +   YEA 
Sbjct:    39 RPAPKDKWSNFDPTGLERAAKAARELEHSRHAKEALSLAQMQEQTLQLEQQAKLKEYEAA 98

Query:   121 QSQVDVERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELV 177
               Q+  E+ R  AEE R  + ++    QARAQ    +D+LAR+R +   + Q+  N E +
Sbjct:    99 VEQLKSEQIRVQAEERRKTLSEETRQHQARAQ---YQDKLARQRYEDQLKQQQLLNEENL 155

Query:   178 KMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTED 237
             + QEES  ++E  RR+T E+    +   E  R E E    R +A AE E     A +T +
Sbjct:   156 RKQEESVQKQEALRRATVEREMELRHKNEMLRVEAEA---RARAKAEREN----ADITRE 208

Query:   238 HNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTR 297
               R    E     R+  L +I T  +   EG R+ +TD +K+  TV G T LA G+Y+ +
Sbjct:   209 QIRLKAAEH----RQTILESIRTAGTLFGEGFRAFVTDWDKVTATVAGLTLLALGVYSAK 264

Query:   298 EGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNN 357
                 V   YV   LG+PSL+RE+S  +      L   + +V R   S     P +A++  
Sbjct:   265 NATSVAGRYVEARLGKPSLVRETS--RITALEALRHPV-QVGRRLLSK----PQDALEG- 316

Query:   358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
               ++L PSL+ R++ LA AT NT+ +++ +RN+L YGPPGTGKT+ A+++A  S
Sbjct:   317 --VVLSPSLEARVRDLAIATRNTRKNRSLYRNVLMYGPPGTGKTLFAKKLALHS 368

GO:0005743 "mitochondrial inner membrane" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|A7YWC4 ATAD3 "ATPase family AAA domain-containing protein 3" [Bos taurus (taxid:9913)]

 Score = 420 (152.9 bits), Expect = 2.3e-39, P = 2.3e-39
 Identities = 122/364 (33%), Positives = 187/364 (51%)

Query:    52 EQTADAQKSREP-EEPRGSGFDPXXXXXXXXXXXXFNSSRHAREAFDIMRKQEQTRLAEL 110
             E + D      P  + + S FDP               SRHA+EA  + + QEQT   E 
Sbjct:    29 EGSGDGGAGDRPGPKDKWSNFDPTGLERAAKAARELEHSRHAKEALSLAQMQEQTLQLEH 88

Query:   111 DVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHE 167
               +   YEA   Q+  ++ R  AEE R  + ++    QARAQ    +D+LAR+R +   +
Sbjct:    89 QAKLKEYEAAVEQLKGDQIRVQAEERRKTLSEETRQHQARAQ---YQDKLARQRYEDQLK 145

Query:   168 AQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEG 227
              Q+  N E ++ QEES  ++E  RR+T E+   +  L  K       E +RV+A  EA  
Sbjct:   146 QQQLLNEENLRKQEESVQKQEALRRATVER---EMELRHKN------EMLRVEA--EARA 194

Query:   228 RAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGAT 287
             RA   +   D  R  +  +    R+  L +I T  +   EG R+ +TD +K+  TV G T
Sbjct:   195 RAKAERENADIIREQIRLKAAEHRQTILESIRTAGTLFGEGFRAFVTDWDKVTATVAGLT 254

Query:   288 ALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGT 347
              LA GIY+ +    V   Y+   LG+PSL+RE+S  +      L   + +V R   S   
Sbjct:   255 LLAVGIYSAKNATSVAGRYIEARLGKPSLVRETS--RITVLEALRHPI-QVSRRLLSK-- 309

Query:   348 AGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREI 407
               P +A++    ++L PSL+ R++ +A AT NTK +++ +RN+L YGPPGTGKT+ A+++
Sbjct:   310 --PQDALEG---VVLSPSLEARVRDIAIATRNTKKNKSLYRNVLMYGPPGTGKTLFAKKL 364

Query:   408 ARKS 411
             A  S
Sbjct:   365 ALHS 368

GO:0042645 "mitochondrial nucleoid" evidence=IEA

GO:0005743 "mitochondrial inner membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|Q5T9A4 ATAD3B "ATPase family AAA domain-containing protein 3B" [Homo sapiens (taxid:9606)]

 Score = 416 (151.5 bits), Expect = 1.5e-38, P = 1.5e-38
 Identities = 117/354 (33%), Positives = 185/354 (52%)

Query:    61 REPEEPRGSGFDPXXXXXXXXXXXXFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAI 120
             R   + + S FDP               SR+A+EA ++ + QEQT   E   +   YEA 
Sbjct:    40 RPAPKDKWSNFDPTGLERAAKAARELEHSRYAKEALNLAQMQEQTLQLEQQSKLKEYEAA 99

Query:   121 QSQVDVERQRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELV 177
               Q+  E+ R  AEE R  + ++    QARAQ    +D+LAR+R +   + Q+  N E +
Sbjct:   100 VEQLKSEQIRAQAEERRKTLSEETRQHQARAQ---YQDKLARQRYEDQLKQQQLLNEENL 156

Query:   178 KMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTED 237
             + QEES  ++E  RR+T E+   +  L  K       E +RV+   EA  RA   +   D
Sbjct:   157 RKQEESVQKQEAMRRATVER---EMELRHKN------EMLRVET--EARARAKAERENAD 205

Query:   238 HNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTR 297
               R  +  + +  R+  L +I T  +   EG R+ +TDR+K+  TV G T LA G+Y+ +
Sbjct:   206 IIREQIRLKASEHRQTVLESIRTAGTLFGEGFRAFVTDRDKVTATVAGLTLLAVGVYSAK 265

Query:   298 EGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNN 357
                 VT  ++   LG+PSL+RE+S  +      L   + +V R   S     P + ++  
Sbjct:   266 NATAVTGRFIEARLGKPSLVRETS--RITVLEALRHPI-QVSRRLLSR----PQDVLEG- 317

Query:   358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
               ++L PSL+ R++ +A AT NTK ++  +R++L YGPPGTGKT+ A+++A  S
Sbjct:   318 --VVLSPSLEARVRDIAIATRNTKKNRGLYRHILLYGPPGTGKTLFAKKLALHS 369

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

GO:0005524 "ATP binding" evidence=IEA

GO:0005743 "mitochondrial inner membrane" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00024916001	SubName- Full=Chromosome chr4 scaffold_32, whole genome shotgun sequence; (627 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00034559001	SubName- Full=Chromosome chr9 scaffold_7, whole genome shotgun sequence; (840 aa)				•					0.420

---

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	458
pfam12037	276	pfam12037, DUF3523, Domain of unknown function (DU	1e-110
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	1e-07
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-06
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	2e-04
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	3e-04
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	6e-04
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	9e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
pfam01078	207	pfam01078, Mg_chelatase, Magnesium chelatase, subu	0.001
smart00382	148	smart00382, AAA, ATPases associated with a variety	0.001
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.001
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.003
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	0.003
pfam07227	446	pfam07227, DUF1423, Protein of unknown function (D	0.003
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.004
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	0.004

>gnl|CDD|221389 pfam12037, DUF3523, Domain of unknown function (DUF3523)

 Score =  325 bits (834), Expect = e-110
 Identities = 149/280 (53%), Positives = 185/280 (66%), Gaps = 4/280 (1%)

Query: 39  SSPQPTSSGNDEAEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDI 98
            SP  ++ G D        +          SGFDP ALER AKALRE  SS HA++AF++
Sbjct: 1   PSPPASAGGGDRK----GKRTRNNGPATIASGFDPTALERGAKALRELESSPHAKKAFEL 56

Query: 99  MRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELA 158
            + QE+TR AEL+ +   YEA Q+Q  +ER R  AEE R  +Q++ Q   Q  + +DELA
Sbjct: 57  SKMQEKTRQAELEAKIKEYEAQQAQAKLERARVEAEERRKTLQEQTQQEQQRAQYQDELA 116

Query: 159 RKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIR 218
           RKR Q + E QRR N EL+KMQEES +R+E  RR+TEE+I   +R T +E AE+ERE IR
Sbjct: 117 RKRYQKELEQQRRQNEELLKMQEESVLRQEAMRRATEEEILEMRRETIEEEAELERENIR 176

Query: 219 VKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNK 278
            K  AEA GRA E +  ED NR ML  + N ERE  L +I TTFSHI  G R+LLTD++K
Sbjct: 177 AKIEAEARGRAKEERENEDINREMLKLKANEERETVLESIKTTFSHIGGGFRALLTDKSK 236

Query: 279 LVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIR 318
           L MTVGG TALAAGIYT +EG RVTW Y+ R LG+PSLIR
Sbjct: 237 LTMTVGGLTALAAGIYTAKEGTRVTWRYIERRLGKPSLIR 276

This presumed domain is functionally uncharacterized. This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with pfam00004. This domain has a conserved LER sequence motif. Length = 276

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

 Score = 50.6 bits (121), Expect = 1e-07
 Identities = 18/44 (40%), Positives = 23/44 (52%)

Query: 371 QHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM 414
           Q  A       +   P +N+L YGPPGTGKT +AR IA +    
Sbjct: 3   QEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP 46

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

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

 Score = 46.8 bits (112), Expect = 2e-06
 Identities = 12/22 (54%), Positives = 18/22 (81%)

Query: 390 MLFYGPPGTGKTMVAREIARKS 411
           +L YGPPGTGKT +A+ +A++ 
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKEL 22

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

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.4 bits (117), Expect = 3e-06
 Identities = 40/205 (19%), Positives = 88/205 (42%), Gaps = 8/205 (3%)

Query: 50   EAEQTADAQKSREPEEPRGSGFDPEALE-RAAKALREFNSSRHAREAFDIMRKQEQTRLA 108
            +AE+   A ++++ EE + +    +A E + A  L++    + A E     +K E+ + A
Sbjct: 1517 KAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEE----KKKAEEAKKA 1572

Query: 109  ELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEA 168
            E   E  +    +++   + +    EE   L +++ + +A+  +  +E   K  +     
Sbjct: 1573 E---EDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAE 1629

Query: 169  QRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGR 228
            + +   E +K +E    +K +  +  EE+ + +     K+  E +++    K   E E +
Sbjct: 1630 EEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKK 1689

Query: 229  AHEAKLTEDHNRRMLIERINGEREK 253
            A EA   E    +   E    E E+
Sbjct: 1690 AAEALKKEAEEAKKAEELKKKEAEE 1714

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 48.2 bits (114), Expect = 9e-06
 Identities = 47/237 (19%), Positives = 103/237 (43%), Gaps = 19/237 (8%)

Query: 50   EAEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSR----------HAREAFDIM 99
            +AE+   A++ ++ EE + +  D     R A+  ++   +R            +   +  
Sbjct: 1553 KAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEA 1612

Query: 100  RKQEQTRLAELDV---EKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDE 156
            +K E+ ++   ++   E+   +  Q +     ++K AEE +   ++     A+  +  +E
Sbjct: 1613 KKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEE 1672

Query: 157  LARK--RLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIER 214
              +K    +   E +++    L K  EE+   +E  ++  EE+ +A++    +E  +I+ 
Sbjct: 1673 DKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKA 1732

Query: 215  ETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSH-IEEGVR 270
            E  + +A  E + +A EAK  E+  ++  I  +  E EK    I       IEE + 
Sbjct: 1733 EEAKKEA-EEDKKKAEEAKKDEEEKKK--IAHLKKEEEKKAEEIRKEKEAVIEEELD 1786

Length = 2084

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

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 17/28 (60%), Positives = 25/28 (89%), Gaps = 1/28 (3%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSE 412
           AP +N+LFYGPPGTGKTM+A+ +A +++
Sbjct: 150 AP-KNVLFYGPPGTGKTMMAKALANEAK 176

Length = 368

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

 Score = 42.8 bits (102), Expect = 3e-04
 Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 5/40 (12%)

Query: 373 LAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE 412
           L +     ++      +M+ +GPPGTGKT +AR IA  ++
Sbjct: 27  LRRMIEAGRLS-----SMILWGPPGTGKTTLARIIAGATD 61

Length = 413

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

 Score = 41.8 bits (99), Expect = 6e-04
 Identities = 13/21 (61%), Positives = 17/21 (80%)

Query: 389 NMLFYGPPGTGKTMVAREIAR 409
           +M+ +GPPGTGKT +AR IA 
Sbjct: 50  SMILWGPPGTGKTTLARLIAG 70

Length = 436

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

 Score = 41.3 bits (97), Expect = 9e-04
 Identities = 13/22 (59%), Positives = 19/22 (86%)

Query: 390 MLFYGPPGTGKTMVAREIARKS 411
           +L YGPPGTGKT++A+ +A +S
Sbjct: 279 VLLYGPPGTGKTLLAKAVALES 300

Length = 494

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 0.001
 Identities = 41/198 (20%), Positives = 81/198 (40%), Gaps = 15/198 (7%)

Query: 50   EAEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAE 109
              E    A++ ++ EE +      +  E  A+  ++    + A E   I +  E+ + AE
Sbjct: 1615 AEEAKIKAEELKKAEEEKKKVEQLKKKE--AEEKKKAEELKKAEEENKI-KAAEEAKKAE 1671

Query: 110  LDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQ 169
             D +K    A +++   E ++K AE  +   ++  +A     +  +E  +       E +
Sbjct: 1672 EDKKK----AEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEE 1727

Query: 170  RRHNTELVKMQEESSIRK-EQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGR 228
             +   E  K + E   +K E+A++  EE+ +      E+E+   E          E E  
Sbjct: 1728 NKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKEEEKKAEEIRK-------EKEAV 1780

Query: 229  AHEAKLTEDHNRRMLIER 246
              E    ED  RRM +++
Sbjct: 1781 IEEELDEEDEKRRMEVDK 1798

Length = 2084

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

 Score = 40.2 bits (95), Expect = 0.001
 Identities = 12/21 (57%), Positives = 16/21 (76%)

Query: 385 APFRNMLFYGPPGTGKTMVAR 405
           A   N+L  GPPG+GKTM+A+
Sbjct: 20  AGGHNLLMIGPPGSGKTMLAK 40

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

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

 Score = 38.9 bits (90), Expect = 0.001
 Identities = 13/28 (46%), Positives = 18/28 (64%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSEE 413
           P   +L  GPPG+GKT +AR +AR+   
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGP 28

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

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.9 bits (96), Expect = 0.001
 Identities = 42/241 (17%), Positives = 85/241 (35%), Gaps = 19/241 (7%)

Query: 49   DEAEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLA 108
            +E  + A+ +      E        E LE+  + L E        E  D + ++ +    
Sbjct: 799  EEELEEAERRLDALERELESLEQRRERLEQEIEELEE--EIEELEEKLDELEEELEELEK 856

Query: 109  ELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEA 168
            EL+  K   E ++++       +L +E + L ++K +   +    E ELA  + + + + 
Sbjct: 857  ELEELKEELEELEAEK-----EELEDELKELEEEKEELEEELRELESELAELKEEIE-KL 910

Query: 169  QRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERE-----TIRVKAMA 223
            + R      K++       E      EE     +   E+E   +E E      + ++A+ 
Sbjct: 911  RERLEELEAKLERLEVELPELEEELEEEYEDTLETELEREIERLEEEIEALGPVNLRAIE 970

Query: 224  EAEGRAHE-AKLTEDHN-----RRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRN 277
            E E       +L          +  L+E I    ++       TF  I E    +  +  
Sbjct: 971  EYEEVEERYEELKSQREDLEEAKEKLLEVIEELDKEKRERFKETFDKINENFSEIFKELF 1030

Query: 278  K 278
             
Sbjct: 1031 G 1031

Length = 1163

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

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 15/24 (62%), Positives = 19/24 (79%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIAR 409
           P R +L YGPPGTGKTM+A+ +A 
Sbjct: 178 PPRGVLLYGPPGTGKTMLAKAVAH 201

Length = 398

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.1 bits (93), Expect = 0.003
 Identities = 54/228 (23%), Positives = 91/228 (39%), Gaps = 29/228 (12%)

Query: 45   SSGNDEAEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQ 104
            S  + + +   D +     EE  G     EA +       E   +  A++  +  RK E+
Sbjct: 1075 SYKDFDFDAKEDNRADEATEEAFGKA--EEAKKTETGKAEEARKAEEAKKKAEDARKAEE 1132

Query: 105  TRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQ-ARAQGLRNEDELARKRLQ 163
             R AE D  K            E  RK  +  R  + +KA+ AR      + E A+K   
Sbjct: 1133 ARKAE-DARKA-----------EEARKAEDAKRVEIARKAEDARKAEEARKAEDAKKAEA 1180

Query: 164  TDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMA 223
                 + R   EL K ++    + E AR++ EE+     +  E  +AE  ++       A
Sbjct: 1181 ARKAEEVRKAEELRKAEDAR--KAEAARKAEEER-----KAEEARKAEDAKK-------A 1226

Query: 224  EAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRS 271
            EA  +A EAK   +  ++   ER N E  K+  A    F+  +  +++
Sbjct: 1227 EAVKKAEEAKKDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKA 1274

Length = 2084

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

 Score = 39.7 bits (93), Expect = 0.003
 Identities = 12/21 (57%), Positives = 16/21 (76%)

Query: 389 NMLFYGPPGTGKTMVAREIAR 409
           +++ YGPPG GKT +AR IA 
Sbjct: 54  SLILYGPPGVGKTTLARIIAN 74

Length = 725

>gnl|CDD|219342 pfam07227, DUF1423, Protein of unknown function (DUF1423)

 Score = 39.3 bits (92), Expect = 0.003
 Identities = 47/204 (23%), Positives = 93/204 (45%), Gaps = 32/204 (15%)

Query: 16  VASLSTASNRAFADAPSRFSFFSS--SPQPTSSGNDEAEQTA--DAQKSREPEEPRGSGF 71
           +AS   A N           FF    S +   + ++     A  +A ++R  E  + +  
Sbjct: 252 LASPPEACNLILQ-------FFQELDSSKSLENTSEPGRLIAPQEACRNRIAEVVQEAVR 304

Query: 72  DPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVD-VERQR 130
             E++  A + +R    +R A +A D   +++   ++EL +E+      + Q+D +E   
Sbjct: 305 KMESV--AEEKMRMLKKARSALDACDRELEEKAREVSELKMERQ---RKKPQIDELESIV 359

Query: 131 KLAEEHRNLVQQKA-QAR--AQGLRN---------EDELARKRLQ---TDHEAQRRHNTE 175
           +L +   ++ Q KA +AR  A+ L+          E+E A K L+   ++ E +R++  E
Sbjct: 360 RLKQAEADMFQLKADEARREAERLQRIALAKTEKSEEEYASKYLKLRLSEAEEERQYLFE 419

Query: 176 LVKMQEESSIRKEQARRSTEEQIQ 199
            +K+QEES    +  +   E +I+
Sbjct: 420 ELKLQEESHRDSDSMKMRMESKIR 443

This family represents a conserved region approximately 500 residues long within a number of Arabidopsis thaliana proteins of unknown function. Length = 446

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 39.2 bits (91), Expect = 0.004
 Identities = 33/183 (18%), Positives = 77/183 (42%), Gaps = 9/183 (4%)

Query: 51  AEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAEL 110
             Q     +S++    +G   + +  ++  +   E    + A +  + +++ E+ RL   
Sbjct: 60  VVQQYGRIQSQQSSAKKG---EQQRKKKEEQVAEELKPKQAAEQ--ERLKQLEKERLKAQ 114

Query: 111 DVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQR 170
           + +K   EA + Q  +E++++  +  +   +QK +A A   +   E A+ +   +    +
Sbjct: 115 EQQKQAEEA-EKQAQLEQKQQEEQARKAAAEQKKKAEAAKAKAAAEAAKLKAAAE---AK 170

Query: 171 RHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAH 230
           +   E  K  EE+  + E A    + + +A+    + +     +     KA A AE +A 
Sbjct: 171 KKAEEAAKAAEEAKAKAEAAAAKKKAEAEAKAAAEKAKAEAEAKAKAEKKAEAAAEEKAA 230

Query: 231 EAK 233
             K
Sbjct: 231 AEK 233

Length = 387

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

 Score = 37.3 bits (87), Expect = 0.004
 Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 14/54 (25%)

Query: 389 NMLFYGPPGTGKTMVAREIA-----RKSEEMLHLLVHRLLPRSMRY--LIGRRN 435
            +L  GPPGTGK+ +A  +A     R    +        L R      L GRRN
Sbjct: 1   GVLLVGPPGTGKSELAERLAAALSNRPVFYV-------QLTRDTTEEDLKGRRN 47

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	458
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	100.0
PF12037	276	DUF3523: Domain of unknown function (DUF3523); Int	100.0
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.95
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.89
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.83
PF12037	276	DUF3523: Domain of unknown function (DUF3523); Int	99.81
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.76
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.76
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.74
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.73
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.72
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.7
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.7
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.68
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.67
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.67
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.64
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.63
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.6
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.6
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.57
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.54
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.54
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.54
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.54
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.51
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.5
CHL00195	489	ycf46 Ycf46; Provisional	99.48
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.47
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.45
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.44
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.44
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.4
CHL00176	638	ftsH cell division protein; Validated	99.39
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.35
PRK10865	857	protein disaggregation chaperone; Provisional	99.35
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.31
CHL00206	2281	ycf2 Ycf2; Provisional	99.3
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.24
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.16
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.15
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.14
PF00004	132	AAA: ATPase family associated with various cellula	99.13
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.12
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.11
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	99.1
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.07
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.01
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.0
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.93
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.92
CHL00181	287	cbbX CbbX; Provisional	98.92
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.9
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.84
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.82
CHL00095	821	clpC Clp protease ATP binding subunit	98.75
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	98.75
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.72
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.67
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	98.66
PRK04195	482	replication factor C large subunit; Provisional	98.66
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.66
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	98.65
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.65
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	98.64
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.59
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.55
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.51
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	98.5
CHL00095	821	clpC Clp protease ATP binding subunit	98.49
PRK06526	254	transposase; Provisional	98.47
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	98.43
PRK10865	857	protein disaggregation chaperone; Provisional	98.42
PRK13342	413	recombination factor protein RarA; Reviewed	98.42
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	98.4
PRK08181	269	transposase; Validated	98.39
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	98.36
smart00382	148	AAA ATPases associated with a variety of cellular	98.35
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.34
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.33
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.32
PRK09183	259	transposase/IS protein; Provisional	98.31
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	98.3
PLN03025	319	replication factor C subunit; Provisional	98.29
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.29
PRK08116	268	hypothetical protein; Validated	98.29
PRK06620	214	hypothetical protein; Validated	98.27
PRK06893	229	DNA replication initiation factor; Validated	98.26
PHA02544	316	44 clamp loader, small subunit; Provisional	98.26
KOG2028	554	consensus ATPase related to the helicase subunit o	98.24
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.24
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.24
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.23
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.23
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.23
PRK07952	244	DNA replication protein DnaC; Validated	98.23
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.22
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.22
PRK08939	306	primosomal protein DnaI; Reviewed	98.21
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.21
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.21
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.19
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.18
PRK13341	725	recombination factor protein RarA/unknown domain f	98.17
PRK08084	235	DNA replication initiation factor; Provisional	98.17
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.16
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.16
PRK12377	248	putative replication protein; Provisional	98.15
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.15
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.13
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.12
PRK12402	337	replication factor C small subunit 2; Reviewed	98.12
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.12
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.11
KOG0736	953	consensus Peroxisome assembly factor 2 containing	98.1
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.1
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.09
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.07
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.07
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.06
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.06
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.06
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	98.05
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	98.05
PRK12422	445	chromosomal replication initiation protein; Provis	98.03
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.03
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.02
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.02
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.01
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.0
PRK05642	234	DNA replication initiation factor; Validated	97.97
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.96
PHA02244	383	ATPase-like protein	97.96
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.95
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.95
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.94
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	97.93
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.93
PRK08727	233	hypothetical protein; Validated	97.92
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.92
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.91
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.9
PRK06835	329	DNA replication protein DnaC; Validated	97.89
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.89
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.88
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.88
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.88
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.88
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.87
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.87
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	97.86
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.86
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.85
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.84
PF07726	131	AAA_3: ATPase family associated with various cellu	97.83
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.82
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	97.81
PRK00131	175	aroK shikimate kinase; Reviewed	97.8
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.78
PRK06921	266	hypothetical protein; Provisional	97.78
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.78
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.77
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	97.77
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.77
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.76
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.76
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	97.76
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.74
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.73
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	97.71
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.7
PHA00729	226	NTP-binding motif containing protein	97.7
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	97.68
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.68
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.64
PRK09087	226	hypothetical protein; Validated	97.64
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.63
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.63
PRK13947	171	shikimate kinase; Provisional	97.59
PRK08118	167	topology modulation protein; Reviewed	97.58
PRK13531	498	regulatory ATPase RavA; Provisional	97.56
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.56
PRK14532	188	adenylate kinase; Provisional	97.54
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.54
PRK00625	173	shikimate kinase; Provisional	97.52
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.51
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.51
COG0714	329	MoxR-like ATPases [General function prediction onl	97.51
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.5
PRK03839	180	putative kinase; Provisional	97.48
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.48
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.46
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.46
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	97.46
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.45
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.45
PRK14531	183	adenylate kinase; Provisional	97.44
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.42
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	97.41
PRK13949	169	shikimate kinase; Provisional	97.41
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.4
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.38
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.37
PTZ00121	2084	MAEBL; Provisional	97.35
PRK13948	182	shikimate kinase; Provisional	97.34
PRK15455	644	PrkA family serine protein kinase; Provisional	97.33
PRK14528	186	adenylate kinase; Provisional	97.32
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.32
PRK13765	637	ATP-dependent protease Lon; Provisional	97.31
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.31
PRK14530	215	adenylate kinase; Provisional	97.31
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.31
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	97.28
PLN02200	234	adenylate kinase family protein	97.28
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.28
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.26
PRK07261	171	topology modulation protein; Provisional	97.24
PRK13946	184	shikimate kinase; Provisional	97.23
PRK06217	183	hypothetical protein; Validated	97.23
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.23
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.21
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.21
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.19
PRK03731	171	aroL shikimate kinase II; Reviewed	97.16
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.16
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.16
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.15
PRK02496	184	adk adenylate kinase; Provisional	97.15
PRK05057	172	aroK shikimate kinase I; Reviewed	97.14
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	97.13
PTZ00088	229	adenylate kinase 1; Provisional	97.12
PRK06762	166	hypothetical protein; Provisional	97.11
PHA02624	647	large T antigen; Provisional	97.08
PRK00279	215	adk adenylate kinase; Reviewed	97.08
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.07
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	97.07
PRK04040	188	adenylate kinase; Provisional	97.06
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.06
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.06
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	97.05
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.05
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.04
PRK06547	172	hypothetical protein; Provisional	97.03
PF13245	76	AAA_19: Part of AAA domain	97.03
PRK14527	191	adenylate kinase; Provisional	97.02
PLN02674	244	adenylate kinase	97.0
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.0
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	96.98
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	96.98
PTZ00112	1164	origin recognition complex 1 protein; Provisional	96.96
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.96
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.96
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.94
PRK08058	329	DNA polymerase III subunit delta'; Validated	96.93
PHA02774	613	E1; Provisional	96.9
PRK14526	211	adenylate kinase; Provisional	96.9
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.89
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.88
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.87
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	96.87
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.86
PRK15424	538	propionate catabolism operon regulatory protein Pr	96.84
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	96.82
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.8
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.8
PLN02459	261	probable adenylate kinase	96.78
PRK04182	180	cytidylate kinase; Provisional	96.77
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.76
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.75
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.75
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.75
PRK05541	176	adenylylsulfate kinase; Provisional	96.74
PRK06696	223	uridine kinase; Validated	96.73
PRK14529	223	adenylate kinase; Provisional	96.72
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.72
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	96.7
PRK01184	184	hypothetical protein; Provisional	96.7
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.7
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.69
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.67
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.67
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.67
PHA02530	300	pseT polynucleotide kinase; Provisional	96.63
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.61
PF13173	128	AAA_14: AAA domain	96.61
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	96.58
PRK13808	333	adenylate kinase; Provisional	96.58
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.57
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	96.54
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	96.47
PRK08233	182	hypothetical protein; Provisional	96.46
PLN02199	303	shikimate kinase	96.45
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.45
PTZ00121	2084	MAEBL; Provisional	96.45
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	96.42
PF05729	166	NACHT: NACHT domain	96.41
PRK10536	262	hypothetical protein; Provisional	96.4
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.39
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.37
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.36
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.36
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	96.35
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.34
PRK13764	602	ATPase; Provisional	96.31
PRK09825	176	idnK D-gluconate kinase; Provisional	96.31
PRK06067	234	flagellar accessory protein FlaH; Validated	96.29
PRK12338	319	hypothetical protein; Provisional	96.29
PRK04220	301	2-phosphoglycerate kinase; Provisional	96.29
PRK00889	175	adenylylsulfate kinase; Provisional	96.28
PRK00300	205	gmk guanylate kinase; Provisional	96.27
COG1855	604	ATPase (PilT family) [General function prediction	96.27
PRK14021	542	bifunctional shikimate kinase/3-dehydroquinate syn	96.25
PRK08356	195	hypothetical protein; Provisional	96.24
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.24
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.21
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.21
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	96.19
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	96.16
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	96.15
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.13
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	96.11
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	96.11
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.1
PF13479	213	AAA_24: AAA domain	96.1
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.07
PRK11545	163	gntK gluconate kinase 1; Provisional	96.07
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.06
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.06
PRK11823	446	DNA repair protein RadA; Provisional	96.05
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.05
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.02
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.02
PLN02165	334	adenylate isopentenyltransferase	96.01
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.0
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.99
PRK09862	506	putative ATP-dependent protease; Provisional	95.96
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	95.95
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.95
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.94
PRK13975	196	thymidylate kinase; Provisional	95.94
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.91
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.9
PRK05480	209	uridine/cytidine kinase; Provisional	95.9
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.9
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	95.89
PF01202	158	SKI: Shikimate kinase; InterPro: IPR000623 Shikima	95.88
PRK08099	399	bifunctional DNA-binding transcriptional repressor	95.88
PRK14730	195	coaE dephospho-CoA kinase; Provisional	95.88
COG1221	403	PspF Transcriptional regulators containing an AAA-	95.87
PRK13851	344	type IV secretion system protein VirB11; Provision	95.85
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.83
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.82
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	95.82
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	95.81
PRK13951	488	bifunctional shikimate kinase/3-dehydroquinate syn	95.8
PRK03846	198	adenylylsulfate kinase; Provisional	95.8
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.79
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.79
PRK00023	225	cmk cytidylate kinase; Provisional	95.78
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.78
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.78
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.77
smart00350	509	MCM minichromosome maintenance proteins.	95.76
PTZ00202	550	tuzin; Provisional	95.75
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	95.75
cd03115	173	SRP The signal recognition particle (SRP) mediates	95.75
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.75
PRK14737	186	gmk guanylate kinase; Provisional	95.7
PRK05973	237	replicative DNA helicase; Provisional	95.68
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.67
PRK06761	282	hypothetical protein; Provisional	95.63
TIGR00376	637	DNA helicase, putative. The gene product may repre	95.61
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	95.59
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.59
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	95.58
PRK05707	328	DNA polymerase III subunit delta'; Validated	95.58
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.58
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	95.56
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	95.55
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	95.54
PRK12337	475	2-phosphoglycerate kinase; Provisional	95.54
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	95.53
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	95.51
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	95.51
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.5
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.49
PRK13477	512	bifunctional pantoate ligase/cytidylate kinase; Pr	95.49
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.47
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	95.47
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	95.46
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.46
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	95.46
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	95.45
PRK07667	193	uridine kinase; Provisional	95.45
TIGR00152	188	dephospho-CoA kinase. This model produces scores i	95.43
PRK14738	206	gmk guanylate kinase; Provisional	95.42
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.4
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.37
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.36
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	95.36
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	95.35
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.33
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.33
PRK08699	325	DNA polymerase III subunit delta'; Validated	95.32
COG2204	464	AtoC Response regulator containing CheY-like recei	95.26
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	95.25
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.25
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	95.25
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	95.21
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	95.21
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	95.2
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.17
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	95.13
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	95.11
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.1
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.09
PRK04328	249	hypothetical protein; Provisional	95.08
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	95.07
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.07
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	95.04
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.03
PRK00081	194	coaE dephospho-CoA kinase; Reviewed	95.01
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.0
TIGR02533	486	type_II_gspE general secretory pathway protein E.	94.99
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.97
PF00005	137	ABC_tran: ABC transporter This structure is on hol	94.96
PLN02840	421	tRNA dimethylallyltransferase	94.94
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.92
cd01128	249	rho_factor Transcription termination factor rho is	94.92
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	94.88
PRK05439	311	pantothenate kinase; Provisional	94.82
PRK10646	153	ADP-binding protein; Provisional	94.8
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	94.79
PTZ00301	210	uridine kinase; Provisional	94.78
COG4619	223	ABC-type uncharacterized transport system, ATPase	94.78
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	94.76
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	94.76
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	94.75
PRK06964	342	DNA polymerase III subunit delta'; Validated	94.73
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	94.71
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	94.7
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	94.68
PF07931	174	CPT: Chloramphenicol phosphotransferase-like prote	94.67
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.67
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	94.67
PRK04132	846	replication factor C small subunit; Provisional	94.66
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.65
PF13476	202	AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V	94.63
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.59
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	94.59
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	94.58
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	94.58
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	94.57
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	94.57
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	94.56
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	94.55
PRK10416	318	signal recognition particle-docking protein FtsY;	94.53
PRK12269	863	bifunctional cytidylate kinase/ribosomal protein S	94.51
TIGR01663	526	PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase	94.5
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	94.48
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.48
PLN03210	1153	Resistant to P. syringae 6; Provisional	94.44
cd00983	325	recA RecA is a bacterial enzyme which has roles in	94.42
TIGR02236	310	recomb_radA DNA repair and recombination protein R	94.42
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	94.41
PRK04296	190	thymidine kinase; Provisional	94.4
COG0324	308	MiaA tRNA delta(2)-isopentenylpyrophosphate transf	94.38
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	94.38
PRK06851	367	hypothetical protein; Provisional	94.38
KOG0060	659	consensus Long-chain acyl-CoA transporter, ABC sup	94.34
COG0283	222	Cmk Cytidylate kinase [Nucleotide transport and me	94.33
PLN02842	505	nucleotide kinase	94.33
PRK14733	204	coaE dephospho-CoA kinase; Provisional	94.32
PRK13695	174	putative NTPase; Provisional	94.3
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	94.3
TIGR00767	415	rho transcription termination factor Rho. Members	94.29
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	94.26
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	94.24
COG3265	161	GntK Gluconate kinase [Carbohydrate transport and	94.23
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	94.22
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	94.2
PRK12608	380	transcription termination factor Rho; Provisional	94.19
PRK09376	416	rho transcription termination factor Rho; Provisio	94.17
PRK06851	367	hypothetical protein; Provisional	94.15
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	94.14
PRK14974	336	cell division protein FtsY; Provisional	94.13
KOG1803	649	consensus DNA helicase [Replication, recombination	94.12
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	94.11
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	94.11
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	94.1
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.1
PRK13973	213	thymidylate kinase; Provisional	94.09
PF13555	62	AAA_29: P-loop containing region of AAA domain	94.05
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.04
PRK10867	433	signal recognition particle protein; Provisional	94.03
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	94.02
COG4525	259	TauB ABC-type taurine transport system, ATPase com	94.0
PRK09435	332	membrane ATPase/protein kinase; Provisional	93.99
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	93.96
PLN02348	395	phosphoribulokinase	93.96

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.7e-100  Score=760.23  Aligned_cols=444  Identities=52%  Similarity=0.695  Sum_probs=385.1

Q ss_pred             CcccchhhhHHHHHHHHHhhhhccccccCCCCcCCCCCCCCCCCCCC--CC-chhhhhhhcCCC-CCCCCCCCCCCchhh
Q 012671            1 MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSG--ND-EAEQTADAQKSR-EPEEPRGSGFDPEAL   76 (458)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~f~~~~~~~~~~--~~-~~~~~~~~~~~~-~~~~~~~~~fdp~~l   76 (458)
                      ||+.+.+  .+.++++++...+-+.+|+||+|.|++||.+|++|-||  |+ |++........| +++...+++|||++|
T Consensus         1 Ma~kc~a--~~i~a~~~S~~~~~nka~ad~~f~~~~fs~sp~~~~pp~~~~~~~s~~~~~~~~p~~~Pk~~~~gFDpeaL   78 (630)
T KOG0742|consen    1 MAQKCAA--GSISALAMSWLFGINKAYADSRFGFPGFSASPPPPLPPAQPGAPGSGDRGEGDRPDPAPKDSWSGFDPEAL   78 (630)
T ss_pred             CchhHHH--HHHHHHHHHHHhccchhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCccccccCCChHHH
Confidence            5665332  33334444444555669999999999988766543232  22 121111111112 233345789999999


Q ss_pred             hHHHHHHHHHhcCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhHH
Q 012671           77 ERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDE  156 (458)
Q Consensus        77 er~a~a~~~l~~s~~a~~~~~~~~~~e~t~q~e~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~~~~~~~~~~~~a~y~D~  156 (458)
                      ||||||||+||.|||||++|+++++||+|+|.|++++..+|++++++.+++++|+.+||+||++++|+++++|+++|+|+
T Consensus        79 ERaAKAlrein~s~~aK~vfel~r~qE~Trq~E~~~k~~~~eA~qa~~~~er~r~~~Ee~rk~lq~qaq~k~q~arYqD~  158 (630)
T KOG0742|consen   79 ERAAKALREINHSPYAKDVFELARMQEQTRQAEQQAKTKEYEAAQAQLKSERIRVQAEERRKTLQEETQQKQQRARYQDK  158 (630)
T ss_pred             HHHHHHHHhhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhchHHHhhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhc
Q 012671          157 LARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTE  236 (458)
Q Consensus       157 L~rkr~q~e~e~~~~~~e~~~~~qees~~rqE~~r~~~e~~l~~lr~~~e~e~~~l~~~~~~~k~~~e~~~r~~~~r~n~  236 (458)
                      |+||||++|++.|+..|++.|++||+|++|||++|+.|+++|++++++||.++++++++|++.++++|++||+|+++.|+
T Consensus       159 larkr~~~e~e~qr~~n~ElvrmQEeS~irqE~aRraTeE~iqaqrr~tE~erae~EretiRvkA~Aeaegraheakl~e  238 (630)
T KOG0742|consen  159 LARKRYEDELEAQRRLNEELVRMQEESVIRQEQARRATEEQIQAQRRKTEMERAEAERETIRVKAKAEAEGRAHEAKLNE  238 (630)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhcchhhhhhhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHhhhHHHHHhhchhhhhhHHHHHHhhccccceeeeecccceeeeeeeecccccccchhHHHHHhCCCcc
Q 012671          237 DHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSL  316 (458)
Q Consensus       237 D~~le~~~~~a~~~r~~~l~~i~~~~~~lg~gl~~ll~D~dklv~~v~g~t~Lavgvyta~~~~~v~~~~~e~~Lg~p~l  316 (458)
                      |+|+++++.+++++|++|++.|+++|++||+|++.+|+|++|++++|||+|.|++||||+++|+.|+|+||+++||+|||
T Consensus       239 dvnrr~l~~~~n~eRekwl~aInTtf~higgG~r~~ltD~~Kli~tVgGlTaLAaGvYTtkeg~~V~w~yi~r~LGqPSL  318 (630)
T KOG0742|consen  239 DVNRRQLRLKANEEREKWLEAINTTFTHIGGGLRAFLTDWNKLIATVGGLTALAAGVYTTKEGTLVTWRYIERRLGQPSL  318 (630)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhhhHHHhhhHHHHHhhhhHhHHHHhhhHHHHHhhheeccccchhHHHHHHHHcCCchh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccCCCCcccchhhhhHHHhhhcccCCCCCCCCCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCC
Q 012671          317 IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPP  396 (458)
Q Consensus       317 vRe~sr~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPP  396 (458)
                      |||+||.+|||.+.++...+.+..     .........+.|++||++|.+.++|++|++.+.|++.|..|||||||||||
T Consensus       319 iREsSrg~~pw~gsls~~k~~i~~-----~~~~s~~gk~pl~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPP  393 (630)
T KOG0742|consen  319 IRESSRGRFPWIGSLSALKHPIQG-----SRSASSRGKDPLEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPP  393 (630)
T ss_pred             hhhhccccCCCcccHHHHhchhhh-----hHhhhhcCCCCcCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCC
Confidence            999999999999998877666511     122233455669999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhh-hcCCceeeC
Q 012671          397 GTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMH-FYASATVYI  458 (458)
Q Consensus       397 GTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~-~~~p~iifi  458 (458)
                      ||||||+|+-||.++|+||.+|++.|..-+-.       +..-.|..+||-+. ....-++||
T Consensus       394 GTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~-------qaVTkiH~lFDWakkS~rGLllFI  449 (630)
T KOG0742|consen  394 GTGKTMFARELARHSGLDYAIMTGGDVAPLGA-------QAVTKIHKLFDWAKKSRRGLLLFI  449 (630)
T ss_pred             CCCchHHHHHHHhhcCCceehhcCCCccccch-------HHHHHHHHHHHHHhhcccceEEEe
Confidence            99999999999999999999999887765422       22335667777664 344455554

>PF12037 DUF3523: Domain of unknown function (DUF3523); InterPro: IPR021911 This presumed domain is functionally uncharacterised

Probab=100.00  E-value=4.8e-73  Score=547.68  Aligned_cols=259  Identities=59%  Similarity=0.795  Sum_probs=254.8

Q ss_pred             CCCCCCCCCCCCCchhhhHHHHHHHHHhcCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhH
Q 012671           60 SREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNL  139 (458)
Q Consensus        60 ~~~~~~~~~~~fdp~~ler~a~a~~~l~~s~~a~~~~~~~~~~e~t~q~e~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~  139 (458)
                      .++++...++||||++|||||||||+|++|||||+||||+++||.|||+|++++++||+++++|+++++.++++||+||+
T Consensus        18 ~~~~~~~~~~~FDP~aLERaAkAlrel~~S~~Ak~afel~k~QE~TkQ~E~~ak~~e~ea~~~q~~~e~~rv~~EE~Rkt   97 (276)
T PF12037_consen   18 RNDNPRTTASGFDPEALERAAKALRELNSSPHAKKAFELMKKQEETKQAELQAKIAEYEAAQAQAEIERQRVEAEERRKT   97 (276)
T ss_pred             CCCCCCcccCCCCcHHHHHHHHHHHHHhcChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555677999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhchHHHhhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012671          140 VQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRV  219 (458)
Q Consensus       140 ~~~~~~~~~~~a~y~D~L~rkr~q~e~e~~~~~~e~~~~~qees~~rqE~~r~~~e~~l~~lr~~~e~e~~~l~~~~~~~  219 (458)
                      +++|++++++++||+|+|+||||+++++.++.+|+++|++||+|+.|||++|++|+++|+.+++++++++++|+++|+++
T Consensus        98 ~~~q~q~~~q~aqY~D~LaRkR~~~e~~~qr~~n~e~lk~QEes~~rqE~~Rr~Te~~i~~~r~~t~~~eaeL~~e~~~~  177 (276)
T PF12037_consen   98 LQQQTQQKQQRAQYEDELARKRYQDELEQQRRRNEELLKMQEESVIRQEQMRRATEEQILAQRRQTEEEEAELRRETERA  177 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhHHHHHhhcChhHHHHHHHHHhhhHHHHHhhchhhhhhHHHHHHhhccccceeeeecccceeeeeeeecccc
Q 012671          220 KAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREG  299 (458)
Q Consensus       220 k~~~e~~~r~~~~r~n~D~~le~~~~~a~~~r~~~l~~i~~~~~~lg~gl~~ll~D~dklv~~v~g~t~Lavgvyta~~~  299 (458)
                      ++++|++|||+++|+|+|+++++++.+++++|++||++|+++|++||.|+..|++|+++|+++|||+|+|++|||++++|
T Consensus       178 k~~AEa~gra~~eReN~Di~l~~l~~ka~e~R~t~lesI~t~f~~lg~G~~~lltD~~kl~~~vgg~T~LA~GvYtar~g  257 (276)
T PF12037_consen  178 KAEAEAEGRAKEERENEDINLEQLRLKAEEERETVLESINTTFSHLGEGFRALLTDRDKLTTTVGGLTALAAGVYTAREG  257 (276)
T ss_pred             HHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchhHHHHHhCCCcchh
Q 012671          300 ARVTWGYVNRILGQPSLIR  318 (458)
Q Consensus       300 ~~v~~~~~e~~Lg~p~lvR  318 (458)
                      ++|+|+||+++||+|||||
T Consensus       258 t~v~~~yie~rLGkPsLVR  276 (276)
T PF12037_consen  258 TRVAGRYIEARLGKPSLVR  276 (276)
T ss_pred             HHHHHHHHHHHcCCCccCC
Confidence            9999999999999999997

This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with PF00004 from PFAM. This domain has a conserved LER sequence motif.

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=4.5e-26  Score=228.82  Aligned_cols=263  Identities=15%  Similarity=0.120  Sum_probs=219.9

Q ss_pred             hhhhHHHHHHHHHhhhhccccccCCCCcCCC--CCCCCCCCCCCCCchhhhhhhc-CCCCCCCC-CCCCCCchhhhHHH-
Q 012671            6 LSSCLAVAAAVASLSTASNRAFADAPSRFSF--FSSSPQPTSSGNDEAEQTADAQ-KSREPEEP-RGSGFDPEALERAA-   80 (458)
Q Consensus         6 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~fdp~~ler~a-   80 (458)
                      |+..+++++.++++.+.+  ...+.+|++|+  ||+||++||||-||..+..+.. .....+.| ++|.-...+|++.| 
T Consensus         1 Ma~kc~a~~i~a~~~S~~--~~~nka~ad~~f~~~~fs~sp~~~~pp~~~~~~~s~~~~~~~~p~~~Pk~~~~gFDpeaL   78 (630)
T KOG0742|consen    1 MAQKCAAGSISALAMSWL--FGINKAYADSRFGFPGFSASPPPPLPPAQPGAPGSGDRGEGDRPDPAPKDSWSGFDPEAL   78 (630)
T ss_pred             CchhHHHHHHHHHHHHHH--hccchhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccCCCCCCccccccCCChHHH
Confidence            444555555555555554  44555999997  8889888777656543322111 11222223 37777778999999 


Q ss_pred             -HHHHHHhcCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhHHHHH
Q 012671           81 -KALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELAR  159 (458)
Q Consensus        81 -~a~~~l~~s~~a~~~~~~~~~~e~t~q~e~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~~~~~~~~~~~~a~y~D~L~r  159 (458)
                       +|+|.|+.++|++++   ++++|..+.+| +++++|+.+...+++..+++.+.|..|+..++|.+..++.+|.+.+.+ 
T Consensus        79 ERaAKAlrein~s~~a---K~vfel~r~qE-~Trq~E~~~k~~~~eA~qa~~~~er~r~~~Ee~rk~lq~qaq~k~q~a-  153 (630)
T KOG0742|consen   79 ERAAKALREINHSPYA---KDVFELARMQE-QTRQAEQQAKTKEYEAAQAQLKSERIRVQAEERRKTLQEETQQKQQRA-  153 (630)
T ss_pred             HHHHHHHHhhccCccH---HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence             999999999999999   99999999999 999999999999999999999999999999999999999999999888 


Q ss_pred             HHHHHHHHHHHHhchHHHhh--hHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhcC
Q 012671          160 KRLQTDHEAQRRHNTELVKM--QEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTED  237 (458)
Q Consensus       160 kr~q~e~e~~~~~~e~~~~~--qees~~rqE~~r~~~e~~l~~lr~~~e~e~~~l~~~~~~~k~~~e~~~r~~~~r~n~D  237 (458)
                       +|||++.+++.+.+.+.++  ++|++.+||+.-++.+.    +|++|+++++.+++++++++++               
T Consensus       154 -rYqD~larkr~~~e~e~qr~~n~ElvrmQEeS~irqE~----aRraTeE~iqaqrr~tE~erae---------------  213 (630)
T KOG0742|consen  154 -RYQDKLARKRYEDELEAQRRLNEELVRMQEESVIRQEQ----ARRATEEQIQAQRRKTEMERAE---------------  213 (630)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHHHHH----HHHhHHHHHHHHHHHhHHHHHH---------------
Confidence             9999999999997765443  35899999999888887    9999999999999999999999               


Q ss_pred             hhHHHHHHHHHhhhHHHHHhhchhhhhhHHHHHHhhc-cccceeeee-cccceeeeeeee
Q 012671          238 HNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLT-DRNKLVMTV-GGATALAAGIYT  295 (458)
Q Consensus       238 ~~le~~~~~a~~~r~~~l~~i~~~~~~lg~gl~~ll~-D~dklv~~v-~g~t~Lavgvyt  295 (458)
                      ++++.+++++.+++++...+.+.+.+++...+....+ ++++|+..+ .++++|++|+.+
T Consensus       214 ~EretiRvkA~Aeaegraheakl~edvnrr~l~~~~n~eRekwl~aInTtf~higgG~r~  273 (630)
T KOG0742|consen  214 AERETIRVKAKAEAEGRAHEAKLNEDVNRRQLRLKANEEREKWLEAINTTFTHIGGGLRA  273 (630)
T ss_pred             HHHHHHHHHHHHhhhcchhhhhhhHHHHHHHHHHHhhhHHHHHHHHHhhhHHHhhhHHHH
Confidence            8899999999999999999999999999999988777 678999999 668888887655

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

Probab=99.89  E-value=3.7e-23  Score=205.93  Aligned_cols=184  Identities=17%  Similarity=0.264  Sum_probs=118.8

Q ss_pred             HHhhchhhhhhHHHHHHhhccccceeeeecccceeeeeeeecccccccchhHHHHHhCCCcchhhcccCCCCcccchhhh
Q 012671          255 LAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQA  334 (458)
Q Consensus       255 l~~i~~~~~~lg~gl~~ll~D~dklv~~v~g~t~Lavgvyta~~~~~v~~~~~e~~Lg~p~lvRe~sr~~~~~~~~l~~~  334 (458)
                      +..++.....+|..++.+  |.+..++...+.....++          +.++++.-.-+|...--.++.++.....+.+-
T Consensus        65 ~~~l~~~pl~vg~v~e~i--d~~~~iVks~~g~~~vV~----------i~~~vd~~~L~pG~rVal~~~s~~Iv~vLp~~  132 (406)
T COG1222          65 IERLKEPPLIVGTVLEVL--DDGRAIVKSSTGPKFVVN----------ILSFVDRDLLEPGMRVALNRDSYSIVRVLPPE  132 (406)
T ss_pred             HHHhcCCCceEEEEEEEc--CCceEEEEeCCCCeEEEe----------ccCCcCHHHcCCCCEEEEcCCcceeeeeCCCc
Confidence            667777888888876544  445444444221121222          12233333334433333333333333334444


Q ss_pred             hHHHhhhc-ccCCCCCCCCCCCCCccccCChHHHHHHHHHHH-HHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          335 MNKVIRNK-TSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAK-ATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       335 ~~~l~~~~-~~~~~~~~~~~~~~~~dvi~~~~l~~~l~~l~~-~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+.++..| ....|.++|.+.+++++.+  .++.+.+.--.. ...+...+..||+|||||||||||||+|||++|++.+
T Consensus       133 ~Dp~V~~M~v~e~PdvtY~dIGGL~~Qi--~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~  210 (406)
T COG1222         133 VDPRVSVMEVEEKPDVTYEDIGGLDEQI--QEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTD  210 (406)
T ss_pred             cCchhheeeeccCCCCChhhccCHHHHH--HHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccC
Confidence            44444445 4555666666655555444  444444432222 2345667789999999999999999999999999999


Q ss_pred             cceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          413 EMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       413 ~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+|+.|+   +|+++.+|+|++.+.   ++.+|.+|+..+||||||
T Consensus       211 AtFIrvv---gSElVqKYiGEGaRl---VRelF~lArekaPsIIFi  250 (406)
T COG1222         211 ATFIRVV---GSELVQKYIGEGARL---VRELFELAREKAPSIIFI  250 (406)
T ss_pred             ceEEEec---cHHHHHHHhccchHH---HHHHHHHHhhcCCeEEEE
Confidence            9999999   999999999999664   557888899999999997

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

Probab=99.83  E-value=9.3e-20  Score=174.13  Aligned_cols=184  Identities=20%  Similarity=0.262  Sum_probs=116.7

Q ss_pred             HHhhchhhhhhHHHHHHhhccccceeeeecccceeeeeeeecccccccchhHHHHHhCCCcchhhcccCCCCcccchhhh
Q 012671          255 LAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQA  334 (458)
Q Consensus       255 l~~i~~~~~~lg~gl~~ll~D~dklv~~v~g~t~Lavgvyta~~~~~v~~~~~e~~Lg~p~lvRe~sr~~~~~~~~l~~~  334 (458)
                      +..|+...-.+|..+...  |.+.-++  |..++   +-|..     .+++.+++-|-+|+..-...|++-...+.+..-
T Consensus        69 vkriqsvplvigqfle~v--dqnt~iv--gsttg---sny~v-----rilstidrellkps~svalhrhsnalvdvlppe  136 (408)
T KOG0727|consen   69 VKRIQSVPLVIGQFLEAV--DQNTAIV--GSTTG---SNYYV-----RILSTIDRELLKPSASVALHRHSNALVDVLPPE  136 (408)
T ss_pred             HHHHhccchHHHHHHHhh--hccCcee--ecccC---CceEE-----eehhhhhHHHcCCccchhhhhcccceeeccCCc
Confidence            335666777788877655  5443222  22222   22222     257788898999988666655543333322222


Q ss_pred             hHHHhhhc-ccCCCCCCCCCCCCCccccCChHHHHHHHHH-HHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          335 MNKVIRNK-TSAGTAGPVEAIKNNGDIILHPSLQRRIQHL-AKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       335 ~~~l~~~~-~~~~~~~~~~~~~~~~dvi~~~~l~~~l~~l-~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .++.+..+ ....|..++.+.++++ +. ..++.+.++-. .....+...+..|++++|||||||||||||++++|++.-
T Consensus       137 adssi~ml~~~ekpdvsy~diggld-~q-kqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~  214 (408)
T KOG0727|consen  137 ADSSISMLGPDEKPDVSYADIGGLD-VQ-KQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTT  214 (408)
T ss_pred             ccccccccCCCCCCCccccccccch-hh-HHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccc
Confidence            22211111 1222444444444444 21 12333333322 223344556789999999999999999999999999999


Q ss_pred             cceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          413 EMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       413 ~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ..|+.++   +|+++.+|+|++.+   .++.+|+.++.++|+||||
T Consensus       215 a~firvv---gsefvqkylgegpr---mvrdvfrlakenapsiifi  254 (408)
T KOG0727|consen  215 AAFIRVV---GSEFVQKYLGEGPR---MVRDVFRLAKENAPSIIFI  254 (408)
T ss_pred             hheeeec---cHHHHHHHhccCcH---HHHHHHHHHhccCCcEEEe
Confidence            9999999   99999999999965   4557788899999999997

>PF12037 DUF3523: Domain of unknown function (DUF3523); InterPro: IPR021911 This presumed domain is functionally uncharacterised

Probab=99.81  E-value=2e-18  Score=167.85  Aligned_cols=207  Identities=14%  Similarity=0.134  Sum_probs=184.3

Q ss_pred             CCCCCCCCCCCCchhhhHHH--HHHHHHhcCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHh
Q 012671           61 REPEEPRGSGFDPEALERAA--KALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRN  138 (458)
Q Consensus        61 ~~~~~~~~~~fdp~~ler~a--~a~~~l~~s~~a~~~~~~~~~~e~t~q~e~~~~~~e~~~~~~~~~~~~~~~~~ee~r~  138 (458)
                      ++.+.+++++....+|||.+  +|++.|+...++++|   .+.+|.++++| .++++|+.+.++++++...+...|..|+
T Consensus        14 ~~~~~~~~~~~~~~~FDP~aLERaAkAlrel~~S~~A---k~afel~k~QE-~TkQ~E~~ak~~e~ea~~~q~~~e~~rv   89 (276)
T PF12037_consen   14 GSKPRNDNPRTTASGFDPEALERAAKALRELNSSPHA---KKAFELMKKQE-ETKQAELQAKIAEYEAAQAQAEIERQRV   89 (276)
T ss_pred             CcCCCCCCCCcccCCCCcHHHHHHHHHHHHHhcChhH---HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34677889999999999999  999999999999999   99999999999 9999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhchHHHhhhH--hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012671          139 LVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQE--ESSIRKEQARRSTEEQIQAQQRLTEKERAEIERET  216 (458)
Q Consensus       139 ~~~~~~~~~~~~a~y~D~L~rkr~q~e~e~~~~~~e~~~~~qe--es~~rqE~~r~~~e~~l~~lr~~~e~e~~~l~~~~  216 (458)
                      ..+++.+.-++..+.+.+.+  +|+|+|+++|++.+...+++.  +.+.+||+.-.+.++    +|++|++++..+++.+
T Consensus        90 ~~EE~Rkt~~~q~q~~~q~a--qY~D~LaRkR~~~e~~~qr~~n~e~lk~QEes~~rqE~----~Rr~Te~~i~~~r~~t  163 (276)
T PF12037_consen   90 EAEERRKTLQQQTQQKQQRA--QYEDELARKRYQDELEQQRRRNEELLKMQEESVIRQEQ----MRRATEEQILAQRRQT  163 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHh
Confidence            99999999999999998888  999999999999776555443  777788888777776    9999999999999999


Q ss_pred             HHHHHHHHHhhhHHHHHhhcChhHHHHHHHHHhhhHHHHHhhchhhhhhHHHHHHhhc-cccceeeee-cccceeeee
Q 012671          217 IRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLT-DRNKLVMTV-GGATALAAG  292 (458)
Q Consensus       217 ~~~k~~~e~~~r~~~~r~n~D~~le~~~~~a~~~r~~~l~~i~~~~~~lg~gl~~ll~-D~dklv~~v-~g~t~Lavg  292 (458)
                      +..++.               +.++.+++++.++-++.+..-..+.+..-..+..-.. +.++|+..+ .++++|+.|
T Consensus       164 ~~~eae---------------L~~e~~~~k~~AEa~gra~~eReN~Di~l~~l~~ka~e~R~t~lesI~t~f~~lg~G  226 (276)
T PF12037_consen  164 EEEEAE---------------LRRETERAKAEAEAEGRAKEERENEDINLEQLRLKAEEERETVLESINTTFSHLGEG  226 (276)
T ss_pred             HHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999888               8888999999999999999999999998888877766 778888887 456665555

This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with PF00004 from PFAM. This domain has a conserved LER sequence motif.

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

Probab=99.76  E-value=8.4e-19  Score=168.24  Aligned_cols=100  Identities=26%  Similarity=0.331  Sum_probs=89.8

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCC-CcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAP-FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLI  431 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p-~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~  431 (458)
                      +...|+|||||++.+...+-|.....|....+.. |+||||||||||||||+|++||+++..+++.|.   .++++..|+
T Consensus       116 ~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vk---at~liGehV  192 (368)
T COG1223         116 SDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVK---ATELIGEHV  192 (368)
T ss_pred             ccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceEEec---hHHHHHHHh
Confidence            5568999999999999888888888888776643 689999999999999999999999999999999   899999999


Q ss_pred             hhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          432 GRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       432 ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      |.+.+   .|..++..+++.+||||||
T Consensus       193 Gdgar---~Ihely~rA~~~aPcivFi  216 (368)
T COG1223         193 GDGAR---RIHELYERARKAAPCIVFI  216 (368)
T ss_pred             hhHHH---HHHHHHHHHHhcCCeEEEe
Confidence            98855   5667888899999999997

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

Probab=99.76  E-value=5.4e-18  Score=161.95  Aligned_cols=175  Identities=20%  Similarity=0.283  Sum_probs=122.1

Q ss_pred             HHHhhchhhhhhHHHHHHhhccccceeeeec--c--cceee--eeeeecccccccchhH----HHHHhCCCcchhhcccC
Q 012671          254 WLAAINTTFSHIEEGVRSLLTDRNKLVMTVG--G--ATALA--AGIYTTREGARVTWGY----VNRILGQPSLIRESSIG  323 (458)
Q Consensus       254 ~l~~i~~~~~~lg~gl~~ll~D~dklv~~v~--g--~t~La--vgvyta~~~~~v~~~~----~e~~Lg~p~lvRe~sr~  323 (458)
                      .+.-++..++.+|..++.+  ++.++++.+-  |  +..+.  +.+.....+++|.++.    +..+|.           
T Consensus        60 el~~lqe~gsyvgev~k~m--~k~kVLVKvhpegKyvvdv~k~i~i~~~~~~~rVaLR~dsY~lhkiLp-----------  126 (404)
T KOG0728|consen   60 ELQLLQEPGSYVGEVVKAM--GKKKVLVKVHPEGKYVVDVDKNIDISDVTPSSRVALRNDSYTLHKILP-----------  126 (404)
T ss_pred             HHHHHhcCcchHHHHHHhc--CcceEEEEEcCCCcEEEeccCCCcHhhcCCcceEEEeccchHHHHhcc-----------
Confidence            4667888999999999887  7778877772  2  23333  5666777778777653    223333           


Q ss_pred             CCCcccchhhhhHHHhhhc-ccCCCCCCCCCCCCCccccCChHHHHHHHHHHHHHHh-hhhhcCCCcceeeecCCCCChH
Q 012671          324 KFPWSGLLSQAMNKVIRNK-TSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATAN-TKIHQAPFRNMLFYGPPGTGKT  401 (458)
Q Consensus       324 ~~~~~~~l~~~~~~l~~~~-~~~~~~~~~~~~~~~~dvi~~~~l~~~l~~l~~~~~~-~~~~~~p~rnvLl~GPPGTGKT  401 (458)
                               +-.+.++.-| .+.-|...++-.++++..|  .++++.+.-.+..+.. ...+...|+++|||||||||||
T Consensus       127 ---------nKvDpLVsLMmVeKvPDStYeMiGgLd~QI--keIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGkt  195 (404)
T KOG0728|consen  127 ---------NKVDPLVSLMMVEKVPDSTYEMIGGLDKQI--KEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKT  195 (404)
T ss_pred             ---------cccchhhHHHhhhhCCccHHHHhccHHHHH--HHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchh
Confidence                     1111122212 4444555566666665444  4444555444444433 3355678899999999999999


Q ss_pred             HHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          402 MVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       402 ~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +||+++|++..+.|+.++   +++++.+|+|++.+..+   .||-+++..+|+|||+
T Consensus       196 LlaraVahht~c~firvs---gselvqk~igegsrmvr---elfvmarehapsiifm  246 (404)
T KOG0728|consen  196 LLARAVAHHTDCTFIRVS---GSELVQKYIGEGSRMVR---ELFVMAREHAPSIIFM  246 (404)
T ss_pred             HHHHHHHhhcceEEEEec---hHHHHHHHhhhhHHHHH---HHHHHHHhcCCceEee
Confidence            999999999999999999   99999999999976555   5666788899999995

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

Probab=99.74  E-value=4.4e-18  Score=170.94  Aligned_cols=101  Identities=23%  Similarity=0.333  Sum_probs=88.7

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHH----HHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKA----TANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~----~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      ++...|+||.|..+.++.|.+.+..    ..+.+....|+++|||+||||||||||||+||.+||.+|+.|+   .+.+.
T Consensus       206 np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVS---sstlt  282 (491)
T KOG0738|consen  206 NPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVS---SSTLT  282 (491)
T ss_pred             CCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEec---hhhhh
Confidence            4567899999999999988877764    3345556699999999999999999999999999999999999   88899


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++|-|+++++.   ++||++++.++|++|||
T Consensus       283 SKwRGeSEKlv---RlLFemARfyAPStIFi  310 (491)
T KOG0738|consen  283 SKWRGESEKLV---RLLFEMARFYAPSTIFI  310 (491)
T ss_pred             hhhccchHHHH---HHHHHHHHHhCCceeeh
Confidence            99999998765   57889999999999998

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

Probab=99.73  E-value=2.9e-18  Score=166.78  Aligned_cols=186  Identities=16%  Similarity=0.232  Sum_probs=125.1

Q ss_pred             HHHHhhchhhhhhHHHHHHhhccccceeeeecccceeeeeeeecccccccchhHHHHHhCCCcchhhcccCCCCcccchh
Q 012671          253 KWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLS  332 (458)
Q Consensus       253 ~~l~~i~~~~~~lg~gl~~ll~D~dklv~~v~g~t~Lavgvyta~~~~~v~~~~~e~~Lg~p~lvRe~sr~~~~~~~~l~  332 (458)
                      ..+..+..+.-.+|. +..+++|..-++.+.++. -..+          .+.+|+++-+-.|...--.........+++.
T Consensus        97 ~~vd~lRGtPmsvg~-leEiidd~haivst~~g~-e~Yv----------~IlSfVdKdlLepgcsvll~~k~~avvGvL~  164 (440)
T KOG0726|consen   97 SKVDDLRGTPMSVGT-LEEIIDDNHAIVSTSVGS-EYYV----------SILSFVDKDLLEPGCSVLLNHKVHAVVGVLQ  164 (440)
T ss_pred             hHHHhhcCCcccccc-HHHHhcCCceEEecccCc-hhee----------eeeeeccHhhcCCCCeeeeccccceEEEEec
Confidence            566777777778787 445665543333332221 1112          2566777655555442222222222345555


Q ss_pred             hhhHHHhhhc-ccCCCCCCCCCCCCCccccCChHHHHHHHHHHHHH-HhhhhhcCCCcceeeecCCCCChHHHHHHHHHH
Q 012671          333 QAMNKVIRNK-TSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKAT-ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       333 ~~~~~l~~~~-~~~~~~~~~~~~~~~~dvi~~~~l~~~l~~l~~~~-~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ..++.++..| ...+|..++.+..+++..|  .++++.++-..... .+...+..|+++|+|||+||||||+||+++|+.
T Consensus       165 d~~dpmv~vmK~eKaP~Ety~diGGle~Qi--QEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANq  242 (440)
T KOG0726|consen  165 DDTDPMVSVMKVEKAPQETYADIGGLESQI--QEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQ  242 (440)
T ss_pred             cCCCccceeeecccCchhhhcccccHHHHH--HHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcc
Confidence            5555555555 5666666666666666444  44555444333333 345677899999999999999999999999999


Q ss_pred             hCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          411 SEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       411 ~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ...+|+.++   +|+++.+|+|++.+   .|+.+|+.++.++|+|+||
T Consensus       243 TSATFlRvv---GseLiQkylGdGpk---lvRqlF~vA~e~apSIvFi  284 (440)
T KOG0726|consen  243 TSATFLRVV---GSELIQKYLGDGPK---LVRELFRVAEEHAPSIVFI  284 (440)
T ss_pred             cchhhhhhh---hHHHHHHHhccchH---HHHHHHHHHHhcCCceEEe
Confidence            999999999   99999999998855   5667888999999999997

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

Probab=99.72  E-value=8.4e-18  Score=174.13  Aligned_cols=100  Identities=18%  Similarity=0.225  Sum_probs=89.9

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHh----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATAN----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      ....|+||-|.++.+..|++++.+..+    ++.++..|++|||.||||||||+||+++|.+.|.||+.++   +|++-+
T Consensus       299 ~nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~s---GSEFdE  375 (752)
T KOG0734|consen  299 KNVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYAS---GSEFDE  375 (752)
T ss_pred             cccccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEecc---ccchhh
Confidence            355799999999999999988887554    5667788999999999999999999999999999999999   999999


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .|+|.+.+   .++.||+.+++++||||||
T Consensus       376 m~VGvGAr---RVRdLF~aAk~~APcIIFI  402 (752)
T KOG0734|consen  376 MFVGVGAR---RVRDLFAAAKARAPCIIFI  402 (752)
T ss_pred             hhhcccHH---HHHHHHHHHHhcCCeEEEE
Confidence            99998855   5668999999999999998

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

Probab=99.70  E-value=2e-17  Score=173.70  Aligned_cols=101  Identities=16%  Similarity=0.205  Sum_probs=87.2

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHH-----HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKAT-----ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~-----~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~  426 (458)
                      -+...|+||.+..++...+...+.+.     .+...+..++.|||||||||||||+|||++|+++|+.|+.+.   ++++
T Consensus       505 VPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVK---GPEL  581 (802)
T KOG0733|consen  505 VPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVK---GPEL  581 (802)
T ss_pred             cCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeec---CHHH
Confidence            36778999999998888887766652     334556688999999999999999999999999999999999   9999


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          427 MRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       427 ~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++|+||+.+   .++.+|..++.++|||||.
T Consensus       582 lNkYVGESEr---AVR~vFqRAR~saPCVIFF  610 (802)
T KOG0733|consen  582 LNKYVGESER---AVRQVFQRARASAPCVIFF  610 (802)
T ss_pred             HHHHhhhHHH---HHHHHHHHhhcCCCeEEEe
Confidence            9999999965   5567788899999999994

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

Probab=99.70  E-value=2.1e-17  Score=175.45  Aligned_cols=103  Identities=20%  Similarity=0.285  Sum_probs=89.8

Q ss_pred             CCCCCCCCccccCChHHHHHHHHHHHHH-----HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccch
Q 012671          350 PVEAIKNNGDIILHPSLQRRIQHLAKAT-----ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLP  424 (458)
Q Consensus       350 ~~~~~~~~~dvi~~~~l~~~l~~l~~~~-----~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~s  424 (458)
                      ..-+..+|+||.|.++++..+.+.+.|+     .+.+.+..|+++||||||||||||++|++||++++++|+.+.   ++
T Consensus       426 ve~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvk---gp  502 (693)
T KOG0730|consen  426 VEMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVK---GP  502 (693)
T ss_pred             ccCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeecc---CH
Confidence            3457789999999999999888777653     234555699999999999999999999999999999999999   99


Q ss_pred             hhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          425 RSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       425 e~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++++|+|++++   .++.+|+.++.++|||||.
T Consensus       503 EL~sk~vGeSEr---~ir~iF~kAR~~aP~IiFf  533 (693)
T KOG0730|consen  503 ELFSKYVGESER---AIREVFRKARQVAPCIIFF  533 (693)
T ss_pred             HHHHHhcCchHH---HHHHHHHHHhhcCCeEEeh
Confidence            999999999965   5667888999999999995

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

Probab=99.68  E-value=5.3e-17  Score=170.50  Aligned_cols=100  Identities=22%  Similarity=0.204  Sum_probs=87.5

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHh----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATAN----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|.|+.|.+.....|..++.+..+    ...+..|++|||||||||||||+||.+||+++|++|+.++   .+++++
T Consensus       185 snv~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~is---ApeivS  261 (802)
T KOG0733|consen  185 SNVSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSIS---APEIVS  261 (802)
T ss_pred             CCcchhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeec---chhhhc
Confidence            355789999888888888777776443    3456699999999999999999999999999999999999   999999


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++.|++.+   .++.+|+.+..++||||||
T Consensus       262 GvSGESEk---kiRelF~~A~~~aPcivFi  288 (802)
T KOG0733|consen  262 GVSGESEK---KIRELFDQAKSNAPCIVFI  288 (802)
T ss_pred             ccCcccHH---HHHHHHHHHhccCCeEEEe
Confidence            99999976   4568999999999999997

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

Probab=99.67  E-value=8.3e-17  Score=175.16  Aligned_cols=103  Identities=19%  Similarity=0.207  Sum_probs=92.4

Q ss_pred             CCCCCCCCccccCChHHHHHHHHHHHHHHhhhh----hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchh
Q 012671          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPR  425 (458)
Q Consensus       350 ~~~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~----~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se  425 (458)
                      ..++...|+||.|.++++..|.++..+..|...    +..+|+++||+||||||||+|||++|.+.|.||+.++   +|+
T Consensus       303 ~~~t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svS---GSE  379 (774)
T KOG0731|consen  303 EGNTGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVS---GSE  379 (774)
T ss_pred             CCCCCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeec---hHH
Confidence            345668999999999999999999999877654    4478999999999999999999999999999999999   999


Q ss_pred             hhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          426 SMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       426 ~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++.+.|....   .+..||..++.++||||||
T Consensus       380 FvE~~~g~~as---rvr~lf~~ar~~aP~iifi  409 (774)
T KOG0731|consen  380 FVEMFVGVGAS---RVRDLFPLARKNAPSIIFI  409 (774)
T ss_pred             HHHHhcccchH---HHHHHHHHhhccCCeEEEe
Confidence            99999997743   5668999999999999997

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

Probab=99.67  E-value=7e-17  Score=157.60  Aligned_cols=104  Identities=16%  Similarity=0.267  Sum_probs=89.2

Q ss_pred             CCCCCCCCCccccCChHHHHHHHHHHHH----HHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccch
Q 012671          349 GPVEAIKNNGDIILHPSLQRRIQHLAKA----TANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLP  424 (458)
Q Consensus       349 ~~~~~~~~~~dvi~~~~l~~~l~~l~~~----~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~s  424 (458)
                      ....+...|+||.|.+..++.|...+..    .........|+++|||||||||||+.||+++|.+.+.+|+.++   .|
T Consensus       124 v~EKPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvS---SS  200 (439)
T KOG0739|consen  124 VREKPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVS---SS  200 (439)
T ss_pred             hccCCCCchhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEee---hH
Confidence            3456778899999999999988877664    3334445689999999999999999999999999999999999   89


Q ss_pred             hhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          425 RSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       425 e~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++++|+|++.+...   -||.+++.+.|+||||
T Consensus       201 DLvSKWmGESEkLVk---nLFemARe~kPSIIFi  231 (439)
T KOG0739|consen  201 DLVSKWMGESEKLVK---NLFEMARENKPSIIFI  231 (439)
T ss_pred             HHHHHHhccHHHHHH---HHHHHHHhcCCcEEEe
Confidence            999999999987665   5677789999999998

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

Probab=99.64  E-value=1.9e-16  Score=155.34  Aligned_cols=180  Identities=19%  Similarity=0.271  Sum_probs=112.9

Q ss_pred             HHHHHhhchhhhhhHHHHHHhhccccceeeeecccceeeeeee------ecccccccchhHHHHHhCCCcchhhcccCCC
Q 012671          252 EKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIY------TTREGARVTWGYVNRILGQPSLIRESSIGKF  325 (458)
Q Consensus       252 ~~~l~~i~~~~~~lg~gl~~ll~D~dklv~~v~g~t~Lavgvy------ta~~~~~v~~~~~e~~Lg~p~lvRe~sr~~~  325 (458)
                      +.-+.+++..+..+|+.++.+  +.++|++......-.-+|+.      ....|+++......                +
T Consensus        44 end~kslqsvg~~~gevlk~l--~~~~~iVK~s~Gpryvvg~~~~~D~~~i~~G~rv~lditt----------------l  105 (388)
T KOG0651|consen   44 ENDLKSLQSVGQIIGEVLKQL--EDEKFIVKASSGPRYVVGCRRSVDKEKIARGTRVVLDITT----------------L  105 (388)
T ss_pred             cchHHHhhhcCchhHHHHhhc--cccceEeecCCCCcEEEEcccccchhhhccCceeeeeeee----------------e
Confidence            344567777777788877665  55677776622111112222      13344444443222                1


Q ss_pred             CcccchhhhhHHHhhhcccCCC-CCCCCCCCCCccccCChHHHHHHHH-HHHHHHhhhhhcCCCcceeeecCCCCChHHH
Q 012671          326 PWSGLLSQAMNKVIRNKTSAGT-AGPVEAIKNNGDIILHPSLQRRIQH-LAKATANTKIHQAPFRNMLFYGPPGTGKTMV  403 (458)
Q Consensus       326 ~~~~~l~~~~~~l~~~~~~~~~-~~~~~~~~~~~dvi~~~~l~~~l~~-l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~l  403 (458)
                      +....+.+..+ ++++|+...+ ..++....++.+++  +++.+.|.- |.+.......+..||.+++||||||||||++
T Consensus       106 tIm~~lprevd-~vy~m~~e~~~~~s~~~~ggl~~qi--relre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTll  182 (388)
T KOG0651|consen  106 TIMRGLPREVD-LVYNMSHEDPRNISFENVGGLFYQI--RELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLL  182 (388)
T ss_pred             ehhcccchHHH-HHHHhhhcCccccCHHHhCChHHHH--HHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHH
Confidence            11222334444 6667753332 22333333333232  333333221 1122223345779999999999999999999


Q ss_pred             HHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          404 AREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       404 AkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      |++++..+|..|+.|+   .++++++|+||..+   .|+.+|.+++...||||||
T Consensus       183 a~~Vaa~mg~nfl~v~---ss~lv~kyiGEsaR---lIRemf~yA~~~~pciifm  231 (388)
T KOG0651|consen  183 ARAVAATMGVNFLKVV---SSALVDKYIGESAR---LIRDMFRYAREVIPCIIFM  231 (388)
T ss_pred             HHHHHHhcCCceEEee---HhhhhhhhcccHHH---HHHHHHHHHhhhCceEEee
Confidence            9999999999999999   89999999999954   5678999999999999997

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

Probab=99.63  E-value=3.8e-16  Score=167.62  Aligned_cols=100  Identities=17%  Similarity=0.241  Sum_probs=82.9

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHH-Hh---hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKAT-AN---TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~-~~---~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|+||.|.++++..|.+-+... .+   ...+-.+..|||||||||||||++|||+|.++.+.|+.+.   ++++++
T Consensus       667 PnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVK---GPELLN  743 (953)
T KOG0736|consen  667 PNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVK---GPELLN  743 (953)
T ss_pred             CccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeEEeec---CHHHHH
Confidence            6778999999999998777665542 12   2233344569999999999999999999999999999999   999999


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +|+|+++.+.|   ..|..||..+|||||.
T Consensus       744 MYVGqSE~NVR---~VFerAR~A~PCVIFF  770 (953)
T KOG0736|consen  744 MYVGQSEENVR---EVFERARSAAPCVIFF  770 (953)
T ss_pred             HHhcchHHHHH---HHHHHhhccCCeEEEe
Confidence            99999987766   5566788899999994

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

Probab=99.60  E-value=8.9e-16  Score=154.05  Aligned_cols=102  Identities=24%  Similarity=0.299  Sum_probs=84.8

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHHH----hhh--hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccch
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKATA----NTK--IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLP  424 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~~----~~~--~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~s  424 (458)
                      ......|+|+.+.++++..+.+++....    +..  .-..|++||||||||||||||+|+++|.++|..|+.|.   ++
T Consensus        85 ~~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~---~s  161 (386)
T KOG0737|consen   85 SEIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVS---VS  161 (386)
T ss_pred             hhceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceee---cc
Confidence            3466789999999998888888776532    111  12378899999999999999999999999999999999   99


Q ss_pred             hhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          425 RSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       425 e~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .++++|+|++.+....+|.+   +.+.+||||||
T Consensus       162 ~lt~KWfgE~eKlv~AvFsl---AsKl~P~iIFI  192 (386)
T KOG0737|consen  162 NLTSKWFGEAQKLVKAVFSL---ASKLQPSIIFI  192 (386)
T ss_pred             ccchhhHHHHHHHHHHHHhh---hhhcCcceeeh
Confidence            99999999998877765555   66899999997

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

Probab=99.60  E-value=1.3e-14  Score=150.99  Aligned_cols=102  Identities=25%  Similarity=0.320  Sum_probs=84.6

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHHH-----hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchh
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKATA-----NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPR  425 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~~-----~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se  425 (458)
                      ..+...|+||.|.+..+..+...+....     +...+..|++++|||||||||||++|++||++++.+|+.+.   .++
T Consensus       138 ~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~---~s~  214 (398)
T PTZ00454        138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVV---GSE  214 (398)
T ss_pred             CCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEe---hHH
Confidence            3567789999999998888887776432     22334578899999999999999999999999999999888   788


Q ss_pred             hhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          426 SMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       426 ~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +..+|+|+..+.   +..+|..++..+||||||
T Consensus       215 l~~k~~ge~~~~---lr~lf~~A~~~~P~ILfI  244 (398)
T PTZ00454        215 FVQKYLGEGPRM---VRDVFRLARENAPSIIFI  244 (398)
T ss_pred             HHHHhcchhHHH---HHHHHHHHHhcCCeEEEE
Confidence            999999987554   456777888999999996

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

Probab=99.57  E-value=2e-14  Score=138.39  Aligned_cols=102  Identities=23%  Similarity=0.310  Sum_probs=77.3

Q ss_pred             CCCCCCCccccCChHHHH-HHHHHHH----HHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchh
Q 012671          351 VEAIKNNGDIILHPSLQR-RIQHLAK----ATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPR  425 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~-~l~~l~~----~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se  425 (458)
                      ..+...++||.|.+.-.. .++.+..    ...+.+.+..||+++|+|||||||||++|++.|.+.+.+|+.+.   ++.
T Consensus       164 ekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLA---gPQ  240 (424)
T KOG0652|consen  164 EKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLA---GPQ  240 (424)
T ss_pred             cCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhc---chH
Confidence            345556666654432222 2222221    13445567799999999999999999999999999999999999   899


Q ss_pred             hhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          426 SMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       426 ~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++..|+|.+.+..+   ..|..++..+||||||
T Consensus       241 LVQMfIGdGAkLVR---DAFaLAKEkaP~IIFI  270 (424)
T KOG0652|consen  241 LVQMFIGDGAKLVR---DAFALAKEKAPTIIFI  270 (424)
T ss_pred             HHhhhhcchHHHHH---HHHHHhhccCCeEEEE
Confidence            99999999977665   5555677789999998

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

Probab=99.54  E-value=4.3e-15  Score=162.91  Aligned_cols=99  Identities=20%  Similarity=0.266  Sum_probs=84.7

Q ss_pred             ccCChHHHHHHH-HHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh----------
Q 012671          360 IILHPSLQRRIQ-HLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR----------  428 (458)
Q Consensus       360 vi~~~~l~~~l~-~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~----------  428 (458)
                      |+||++....+. .+..+.........|..++||.||+|+|||.||++||..++-+-..|.++|||+||+          
T Consensus       493 ViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLIGa  572 (786)
T COG0542         493 VIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGA  572 (786)
T ss_pred             eeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHhCC
Confidence            899999888554 444556666777788899999999999999999999999998888889999999999          


Q ss_pred             --hhhh--------hhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 --YLIG--------RRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 --~~~g--------e~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                        +|+|        +..++.+++++|||+++++||.|+.|
T Consensus       573 PPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~ni  612 (786)
T COG0542         573 PPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNL  612 (786)
T ss_pred             CCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHH
Confidence              4455        67788899999999999999998753

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

Probab=99.54  E-value=7.1e-15  Score=157.50  Aligned_cols=101  Identities=19%  Similarity=0.226  Sum_probs=90.4

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhh----hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~----~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      .....|.||.|.++.+..+..++....+..+    +..-|+++||+||||||||+||+++|.+.+.||+.++   +|+++
T Consensus       144 ~~~v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iS---GS~FV  220 (596)
T COG0465         144 QVKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSIS---GSDFV  220 (596)
T ss_pred             ccCcChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceecc---chhhh
Confidence            4567899999999999999999998776543    3466799999999999999999999999999999999   99999


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +.|+|....   +++.||..+++++||||||
T Consensus       221 emfVGvGAs---RVRdLF~qAkk~aP~IIFI  248 (596)
T COG0465         221 EMFVGVGAS---RVRDLFEQAKKNAPCIIFI  248 (596)
T ss_pred             hhhcCCCcH---HHHHHHHHhhccCCCeEEE
Confidence            999998855   5668999999999999997

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

Probab=99.54  E-value=8.5e-15  Score=141.26  Aligned_cols=103  Identities=17%  Similarity=0.298  Sum_probs=87.5

Q ss_pred             CCCCCCCCccccCChHHHHHHHHHHHH-----HHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccch
Q 012671          350 PVEAIKNNGDIILHPSLQRRIQHLAKA-----TANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLP  424 (458)
Q Consensus       350 ~~~~~~~~~dvi~~~~l~~~l~~l~~~-----~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~s  424 (458)
                      ...+...++||.|..+-.+.++.....     -.+...+..|++++|+|||||||||+.|+++|+..+..|+.+.   +|
T Consensus       169 eekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvi---gs  245 (435)
T KOG0729|consen  169 EEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVI---GS  245 (435)
T ss_pred             ecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeeh---hH
Confidence            345677888898888777777766654     3445677899999999999999999999999999999999999   99


Q ss_pred             hhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          425 RSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       425 e~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++.+|+|++.+   .++.+|.+++...-||||.
T Consensus       246 elvqkyvgegar---mvrelf~martkkaciiff  276 (435)
T KOG0729|consen  246 ELVQKYVGEGAR---MVRELFEMARTKKACIIFF  276 (435)
T ss_pred             HHHHHHhhhhHH---HHHHHHHHhcccceEEEEe
Confidence            999999999965   4567888899999999994

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

Probab=99.54  E-value=1.4e-14  Score=154.95  Aligned_cols=103  Identities=19%  Similarity=0.269  Sum_probs=86.4

Q ss_pred             CCCCCCCCccccCChHHHHHHHHHHHHHHhh-h----hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccch
Q 012671          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANT-K----IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLP  424 (458)
Q Consensus       350 ~~~~~~~~~dvi~~~~l~~~l~~l~~~~~~~-~----~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~s  424 (458)
                      ...+...|+++.|....+..+...+.+.... .    .+..|++++|||||||||||++|+++|.+++.+|+.+.   ++
T Consensus       234 ~~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~---~~  310 (494)
T COG0464         234 FEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVK---GS  310 (494)
T ss_pred             cCCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEee---CH
Confidence            3456788999998888888877777664322 1    15577889999999999999999999999999999999   88


Q ss_pred             hhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          425 RSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       425 e~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++++|+|++.++   +..+|..+++.+||||||
T Consensus       311 ~l~sk~vGesek~---ir~~F~~A~~~~p~iiFi  341 (494)
T COG0464         311 ELLSKWVGESEKN---IRELFEKARKLAPSIIFI  341 (494)
T ss_pred             HHhccccchHHHH---HHHHHHHHHcCCCcEEEE
Confidence            9999999999765   456788899999999997

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

Probab=99.51  E-value=1.2e-13  Score=145.08  Aligned_cols=101  Identities=23%  Similarity=0.350  Sum_probs=81.2

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHH-H----hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKAT-A----NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~-~----~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~  426 (458)
                      .+...|+||.|.+.....+..++... .    +...+..|++++|||||||||||++|++||.+++.+|+.+.   .+++
T Consensus       177 ~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~---~seL  253 (438)
T PTZ00361        177 APLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVV---GSEL  253 (438)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEe---cchh
Confidence            45678899988888777777666532 1    22334578899999999999999999999999999998887   7888


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          427 MRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       427 ~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +.+|+|+..+.   +..+|..++...||||||
T Consensus       254 ~~k~~Ge~~~~---vr~lF~~A~~~~P~ILfI  282 (438)
T PTZ00361        254 IQKYLGDGPKL---VRELFRVAEENAPSIVFI  282 (438)
T ss_pred             hhhhcchHHHH---HHHHHHHHHhCCCcEEeH
Confidence            99999987544   556777888899999996

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.50  E-value=3.3e-13  Score=140.39  Aligned_cols=101  Identities=23%  Similarity=0.322  Sum_probs=82.6

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHH-----hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATA-----NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~-----~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~  426 (458)
                      .+...|+||+|.++..+.+..++....     ....+..|++++|||||||||||++|+++|.+++.+|+.++   ++++
T Consensus       125 ~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~---~~~l  201 (389)
T PRK03992        125 SPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVV---GSEL  201 (389)
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEee---hHHH
Confidence            356788999999888887777665422     22344578899999999999999999999999999999988   8889


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          427 MRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       427 ~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ..+|+|+..+.   +..+|..++...||||||
T Consensus       202 ~~~~~g~~~~~---i~~~f~~a~~~~p~Ilfi  230 (389)
T PRK03992        202 VQKFIGEGARL---VRELFELAREKAPSIIFI  230 (389)
T ss_pred             hHhhccchHHH---HHHHHHHHHhcCCeEEEE
Confidence            99999987554   456778888899999996

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.48  E-value=7.6e-14  Score=148.45  Aligned_cols=100  Identities=19%  Similarity=0.237  Sum_probs=80.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHH--HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKAT--ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~--~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~  430 (458)
                      +...|+||.|.+.++..+.......  .....+..+++++|||||||||||++|++||.++|++++.+.   ++.+..+|
T Consensus       223 ~~~~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~---~~~l~~~~  299 (489)
T CHL00195        223 VNEKISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLD---VGKLFGGI  299 (489)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEE---hHHhcccc
Confidence            4557899999988888776543321  112234467899999999999999999999999999999998   88899999


Q ss_pred             hhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          431 IGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       431 ~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +|++..+.   ..+|+.++..+||||||
T Consensus       300 vGese~~l---~~~f~~A~~~~P~IL~I  324 (489)
T CHL00195        300 VGESESRM---RQMIRIAEALSPCILWI  324 (489)
T ss_pred             cChHHHHH---HHHHHHHHhcCCcEEEe
Confidence            99886654   45677788899999997

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

Probab=99.47  E-value=1.2e-13  Score=147.46  Aligned_cols=100  Identities=21%  Similarity=0.213  Sum_probs=83.8

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHH-hhhhh----cCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATA-NTKIH----QAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~-~~~~~----~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      ++-+|+||.|..+.+..+.+.+.|+. +....    .....|||||||||||||+||-++|..+++.|+.+.   +++++
T Consensus       662 tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvK---GPElL  738 (952)
T KOG0735|consen  662 TGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVK---GPELL  738 (952)
T ss_pred             CCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEec---CHHHH
Confidence            44789999999999999998888743 22221    133459999999999999999999999999999999   99999


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+|+|.++++.   +.+|..++.+.|||+|.
T Consensus       739 ~KyIGaSEq~v---R~lF~rA~~a~PCiLFF  766 (952)
T KOG0735|consen  739 SKYIGASEQNV---RDLFERAQSAKPCILFF  766 (952)
T ss_pred             HHHhcccHHHH---HHHHHHhhccCCeEEEe
Confidence            99999886654   57788899999999994

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

Probab=99.45  E-value=1.6e-13  Score=139.33  Aligned_cols=71  Identities=11%  Similarity=-0.018  Sum_probs=62.2

Q ss_pred             hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhh-----hcCCcee
Q 012671          382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMH-----FYASATV  456 (458)
Q Consensus       382 ~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~-----~~~p~ii  456 (458)
                      .+..++++++||||||||||++|++||.++|.+++.|+   .++++++|+|+..++.+   .+|+.|+     +.+||||
T Consensus       143 ~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vs---a~eL~sk~vGEsEk~IR---~~F~~A~~~a~~~~aPcVL  216 (413)
T PLN00020        143 PNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMS---AGELESENAGEPGKLIR---QRYREAADIIKKKGKMSCL  216 (413)
T ss_pred             cCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEE---HHHhhcCcCCcHHHHHH---HHHHHHHHHhhccCCCeEE
Confidence            45688999999999999999999999999999999999   99999999999987666   4555554     4579999


Q ss_pred             eC
Q 012671          457 YI  458 (458)
Q Consensus       457 fi  458 (458)
                      ||
T Consensus       217 FI  218 (413)
T PLN00020        217 FI  218 (413)
T ss_pred             EE
Confidence            97

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

Probab=99.44  E-value=1.2e-13  Score=142.69  Aligned_cols=101  Identities=21%  Similarity=0.287  Sum_probs=87.6

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHh----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATAN----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      .....|+|+.|...++..+...+.+...    ...-..|.+++||+||||||||||++|||.+++..|+.++   .+++.
T Consensus       147 ~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iS---assLt  223 (428)
T KOG0740|consen  147 LRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATESGATFFNIS---ASSLT  223 (428)
T ss_pred             CCcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhhcceEeecc---HHHhh
Confidence            3557899999988999988888887544    2223477899999999999999999999999999999999   89999


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++|+|+..+   .++.+|..+++.+|+||||
T Consensus       224 sK~~Ge~eK---~vralf~vAr~~qPsvifi  251 (428)
T KOG0740|consen  224 SKYVGESEK---LVRALFKVARSLQPSVIFI  251 (428)
T ss_pred             hhccChHHH---HHHHHHHHHHhcCCeEEEe
Confidence            999999844   6778999999999999997

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.44  E-value=2.7e-13  Score=145.29  Aligned_cols=101  Identities=17%  Similarity=0.218  Sum_probs=84.9

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhh----hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~----~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      .+...|+||+|.++++..+..++....+..    .+..+++|+|||||||||||++|++||.+++.+|+.++   .+++.
T Consensus        49 ~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~---~~~~~  125 (495)
T TIGR01241        49 KPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSIS---GSDFV  125 (495)
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeecc---HHHHH
Confidence            467789999999999998888777644322    34577889999999999999999999999999999988   78888


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +.+.|.+..   .+..+|..++..+||||||
T Consensus       126 ~~~~g~~~~---~l~~~f~~a~~~~p~Il~i  153 (495)
T TIGR01241       126 EMFVGVGAS---RVRDLFEQAKKNAPCIIFI  153 (495)
T ss_pred             HHHhcccHH---HHHHHHHHHHhcCCCEEEE
Confidence            999997754   4556788888999999997

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.40  E-value=5.2e-13  Score=149.40  Aligned_cols=100  Identities=21%  Similarity=0.316  Sum_probs=84.7

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHh-----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATAN-----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~-----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      +...|++|+|.+.++..|...+.+...     .+.+..+++++|||||||||||++|++||.+++.+|+.+.   +++++
T Consensus       448 ~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~---~~~l~  524 (733)
T TIGR01243       448 PNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVR---GPEIL  524 (733)
T ss_pred             cccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEe---hHHHh
Confidence            456899999999999988887765321     2234567889999999999999999999999999999988   89999


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++|+|++.+   .+..+|+.++..+||||||
T Consensus       525 ~~~vGese~---~i~~~f~~A~~~~p~iifi  552 (733)
T TIGR01243       525 SKWVGESEK---AIREIFRKARQAAPAIIFF  552 (733)
T ss_pred             hcccCcHHH---HHHHHHHHHHhcCCEEEEE
Confidence            999998865   4557788899999999996

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.

>CHL00176 ftsH cell division protein; Validated

Probab=99.39  E-value=8.7e-13  Score=144.52  Aligned_cols=101  Identities=19%  Similarity=0.212  Sum_probs=85.8

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhh----hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~----~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      .....|+||+|.++.+..+..++....+...    +..+++++|||||||||||++|++||.+++.+|+.++   ++++.
T Consensus       177 ~~~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is---~s~f~  253 (638)
T CHL00176        177 DTGITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSIS---GSEFV  253 (638)
T ss_pred             CCCCCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeecc---HHHHH
Confidence            4567899999999999999988877655444    4567889999999999999999999999999999988   78888


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +.+.|....   .+..+|..++.+.||||||
T Consensus       254 ~~~~g~~~~---~vr~lF~~A~~~~P~ILfI  281 (638)
T CHL00176        254 EMFVGVGAA---RVRDLFKKAKENSPCIVFI  281 (638)
T ss_pred             HHhhhhhHH---HHHHHHHHHhcCCCcEEEE
Confidence            888886643   4567888899999999997

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.35  E-value=6.3e-12  Score=129.62  Aligned_cols=101  Identities=24%  Similarity=0.343  Sum_probs=80.6

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHH-h----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATA-N----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~-~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~  426 (458)
                      .+...|+|+.|.+...+.+...+.... +    ...+..|++++|||||||||||++|+++|.+++.+|+.+.   .+++
T Consensus       116 ~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~---~~~l  192 (364)
T TIGR01242       116 RPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVV---GSEL  192 (364)
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecc---hHHH
Confidence            456688899999888887776665321 1    2234467889999999999999999999999999998887   7888


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          427 MRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       427 ~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ...|+|+...   .+..+|..++...||||||
T Consensus       193 ~~~~~g~~~~---~i~~~f~~a~~~~p~il~i  221 (364)
T TIGR01242       193 VRKYIGEGAR---LVREIFELAKEKAPSIIFI  221 (364)
T ss_pred             HHHhhhHHHH---HHHHHHHHHHhcCCcEEEh
Confidence            8899997654   4456777888889999986

Many proteins may score above the trusted cutoff because an internal

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.35  E-value=9.7e-12  Score=140.96  Aligned_cols=221  Identities=16%  Similarity=0.151  Sum_probs=120.2

Q ss_pred             HHHHHHHHHHHHHHHHHhchHHHhhhHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Q 012671          155 DELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEE---QIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHE  231 (458)
Q Consensus       155 D~L~rkr~q~e~e~~~~~~e~~~~~qees~~rqE~~r~~~e~---~l~~lr~~~e~e~~~l~~~~~~~k~~~e~~~r~~~  231 (458)
                      +.|+++..+++.+.+.+.++.    +..+..|++.++.+.++   ++..++.+|..++.++....+..+.+.+++.++++
T Consensus       413 ~rLer~l~~L~~E~e~l~~e~----~~~~~~~~~~l~~~l~~lq~e~~~L~eq~k~~k~el~~~~~~~~ele~l~~kie~  488 (857)
T PRK10865        413 DRLDRRIIQLKLEQQALMKES----DEASKKRLDMLNEELSDKERQYSELEEEWKAEKASLSGTQTIKAELEQAKIAIEQ  488 (857)
T ss_pred             HHHHHHHHHHHHHHHHHHhhh----hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            667777777777777776553    22344566665555443   66778888998888888877877788888888888


Q ss_pred             HHhhcChhHHHHHHHHHhhhHHHHHhhchhhhhhHHHHHHhhccccceeeeecccceeeeeeeecccccccchhHHHHHh
Q 012671          232 AKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRIL  311 (458)
Q Consensus       232 ~r~n~D~~le~~~~~a~~~r~~~l~~i~~~~~~lg~gl~~ll~D~dklv~~v~g~t~Lavgvyta~~~~~v~~~~~e~~L  311 (458)
                      +..+.|..      .+.+..+..++.+...........    .....++...++.              ..+...+.++.
T Consensus       489 a~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~v~~--------------~~i~~vv~~~t  544 (857)
T PRK10865        489 ARRVGDLA------RMSELQYGKIPELEKQLAAATQLE----GKTMRLLRNKVTD--------------AEIAEVLARWT  544 (857)
T ss_pred             HHhhhhhh------hHHHhhhhhhHHHHHHHHHHHhhh----ccccccccCccCH--------------HHHHHHHHHHH
Confidence            88888873      344444444444332111110000    0011122111111              12233344444


Q ss_pred             CCCcchhhcccCCCCcc--cchhhhhHHHhhhcccCCCCCCCCCCCCCccccCChHHHHHHHHHHHHHH-hhhhhcCCCc
Q 012671          312 GQPSLIRESSIGKFPWS--GLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATA-NTKIHQAPFR  388 (458)
Q Consensus       312 g~p~lvRe~sr~~~~~~--~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~dvi~~~~l~~~l~~l~~~~~-~~~~~~~p~r  388 (458)
                      |-|..       ++...  ..+.+....                  -+..|+|++.....|...+.... .......|..
T Consensus       545 gip~~-------~~~~~~~~~l~~l~~~------------------l~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~  599 (857)
T PRK10865        545 GIPVS-------RMLESEREKLLRMEQE------------------LHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIG  599 (857)
T ss_pred             CCCch-------hhhhhHHHHHHHHHHH------------------hCCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCc
Confidence            54433       10000  001111111                  23448899887776554444322 2222234445


Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      .+||+||||||||++|++|+..+..+...+..++++++.+
T Consensus       600 ~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~  639 (857)
T PRK10865        600 SFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFME  639 (857)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhh
Confidence            7999999999999999999998743222222333665543

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.31  E-value=3.9e-12  Score=135.66  Aligned_cols=104  Identities=18%  Similarity=0.261  Sum_probs=75.6

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHH-----hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceee-------ec
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATA-----NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHL-------LV  419 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~-----~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~-------~~  419 (458)
                      .+...|+||.|.+...+.+...+....     +...+..|++++|||||||||||++|+++|++++.+++.       ..
T Consensus       176 ~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl  255 (512)
T TIGR03689       176 VPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFL  255 (512)
T ss_pred             CCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEE
Confidence            356789999988888887777665422     222345678999999999999999999999999765221       11


Q ss_pred             cccchhhhhhhhhhhhhhhhhhHHHHHHhhh----cCCceeeC
Q 012671          420 HRLLPRSMRYLIGRRNQRKACCFLLTRLMHF----YASATVYI  458 (458)
Q Consensus       420 ~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~----~~p~iifi  458 (458)
                      .+..++++.+|+|++.+..+.   +|+.++.    ..||||||
T Consensus       256 ~v~~~eLl~kyvGete~~ir~---iF~~Ar~~a~~g~p~IIfI  295 (512)
T TIGR03689       256 NIKGPELLNKYVGETERQIRL---IFQRAREKASDGRPVIVFF  295 (512)
T ss_pred             eccchhhcccccchHHHHHHH---HHHHHHHHhhcCCCceEEE
Confidence            233688899999998765554   4455544    37999996

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.

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.30  E-value=2.5e-12  Score=149.73  Aligned_cols=71  Identities=20%  Similarity=0.268  Sum_probs=58.3

Q ss_pred             cCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhh---------------------------------
Q 012671          384 QAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYL---------------------------------  430 (458)
Q Consensus       384 ~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~---------------------------------  430 (458)
                      ..|++||||+||||||||+||++||.+++++|+.|+   ++++++++                                 
T Consensus      1627 l~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsIS---gs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e 1703 (2281)
T CHL00206       1627 LSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVF---LNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLT 1703 (2281)
T ss_pred             CCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEE---HHHHhhcccccccccccccccccccccccccccccchhhhh
Confidence            467899999999999999999999999999999998   67766544                                 


Q ss_pred             --------hhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          431 --------IGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       431 --------~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                              +|++.++ .++..+|+.|+..+||||||
T Consensus      1704 ~~n~~~~~m~~~e~~-~rIr~lFelARk~SPCIIFI 1738 (2281)
T CHL00206       1704 MMNALTMDMMPKIDR-FYITLQFELAKAMSPCIIWI 1738 (2281)
T ss_pred             hcchhhhhhhhhhhH-HHHHHHHHHHHHCCCeEEEE
Confidence                    2222221 24778999999999999997

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.24  E-value=8.4e-11  Score=133.58  Aligned_cols=97  Identities=19%  Similarity=0.231  Sum_probs=61.0

Q ss_pred             cccCChHHHHHHHHHHHHH-HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhh-------
Q 012671          359 DIILHPSLQRRIQHLAKAT-ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYL-------  430 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~-~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~-------  430 (458)
                      .|+|++...+.+...+... ........|...+||+||||||||++|++||..++.+...+..++++++++.+       
T Consensus       566 ~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~~~l~g  645 (852)
T TIGR03346       566 RVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSVARLIG  645 (852)
T ss_pred             ccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchHHHhcC
Confidence            3889998887665544432 22223335566899999999999999999999885433333344466654422       


Q ss_pred             -----hhh--------hhhhhhhhHHHHHHhhhcCCce
Q 012671          431 -----IGR--------RNQRKACCFLLTRLMHFYASAT  455 (458)
Q Consensus       431 -----~ge--------~~~~~~~i~~lf~~a~~~~p~i  455 (458)
                           +|.        ..+..++++++|+++.+++|.+
T Consensus       646 ~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v  683 (852)
T TIGR03346       646 APPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDV  683 (852)
T ss_pred             CCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHH
Confidence                 221        1123345667777777777665

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.16  E-value=5.9e-11  Score=132.99  Aligned_cols=100  Identities=22%  Similarity=0.353  Sum_probs=82.2

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHh-----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATAN-----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~-----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      +...|+||+|.......+..++.....     ...+..|++++|||||||||||+++++||++++.+++.++   +++++
T Consensus       173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~---~~~i~  249 (733)
T TIGR01243       173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISIN---GPEIM  249 (733)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEe---cHHHh
Confidence            457899999999988888877765321     2234467899999999999999999999999999998888   88889


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+|.|+....   +..+|..+....|+||||
T Consensus       250 ~~~~g~~~~~---l~~lf~~a~~~~p~il~i  277 (733)
T TIGR01243       250 SKYYGESEER---LREIFKEAEENAPSIIFI  277 (733)
T ss_pred             cccccHHHHH---HHHHHHHHHhcCCcEEEe
Confidence            9999977543   456778888899999996

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.15  E-value=1.9e-10  Score=130.25  Aligned_cols=97  Identities=19%  Similarity=0.186  Sum_probs=64.2

Q ss_pred             ccCChHHHHHHHHHHHHH-HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhh---------
Q 012671          360 IILHPSLQRRIQHLAKAT-ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRY---------  429 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~-~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~---------  429 (458)
                      |+|+++..+.+...+... ........|...+||+||||||||++|++||..++-+.-.+..+++++|.+.         
T Consensus       568 v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~~~l~g~  647 (852)
T TIGR03345       568 VIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRLKGS  647 (852)
T ss_pred             EcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhhccccCC
Confidence            899998888655444432 2222223444568999999999999999999999543333444457777553         


Q ss_pred             ---hhh--------hhhhhhhhhHHHHHHhhhcCCcee
Q 012671          430 ---LIG--------RRNQRKACCFLLTRLMHFYASATV  456 (458)
Q Consensus       430 ---~~g--------e~~~~~~~i~~lf~~a~~~~p~ii  456 (458)
                         |+|        +..+..++++++||++++++|.+.
T Consensus       648 ~~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~  685 (852)
T TIGR03345       648 PPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVL  685 (852)
T ss_pred             CCCcccccccchHHHHHHhCCCcEEEEechhhcCHHHH
Confidence               333        222334677778888888887653

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.

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

Probab=99.14  E-value=1.2e-10  Score=111.47  Aligned_cols=65  Identities=32%  Similarity=0.474  Sum_probs=46.7

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      .+..|+|+|||+++...+.-+....   +..+.++.++|||||||||||+||..||+++|.+|...++
T Consensus        19 RP~~L~efiGQ~~l~~~l~i~i~aa---~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg   83 (233)
T PF05496_consen   19 RPKSLDEFIGQEHLKGNLKILIRAA---KKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSG   83 (233)
T ss_dssp             S-SSCCCS-S-HHHHHHHHHHHHHH---HCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEEC
T ss_pred             CCCCHHHccCcHHHHhhhHHHHHHH---HhcCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccc
Confidence            3458999999999998776554443   3334566799999999999999999999999999988773

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.

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

Probab=99.13  E-value=7.5e-11  Score=102.37  Aligned_cols=63  Identities=25%  Similarity=0.276  Sum_probs=53.4

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcC-CceeeC
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYA-SATVYI  458 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~-p~iifi  458 (458)
                      ||||||||||||++++.||+.++.+++.+.   ++++...+.+...+   .+..+|+.+.... ||||||
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~---~~~~~~~~~~~~~~---~i~~~~~~~~~~~~~~vl~i   64 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEID---GSELISSYAGDSEQ---KIRDFFKKAKKSAKPCVLFI   64 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEE---TTHHHTSSTTHHHH---HHHHHHHHHHHTSTSEEEEE
T ss_pred             CEEECcCCCCeeHHHHHHHhhccccccccc---cccccccccccccc---ccccccccccccccceeeee
Confidence            689999999999999999999999999998   77777777776644   5566777787777 999986

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 ....

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

Probab=99.12  E-value=6.4e-11  Score=132.86  Aligned_cols=103  Identities=18%  Similarity=0.242  Sum_probs=77.3

Q ss_pred             CCCCCccccCChHHHHHHHHHHH-----HHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecc--ccchh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAK-----ATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH--RLLPR  425 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~-----~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~--~~~se  425 (458)
                      ...+|++|.|..+....+...+-     ...+..-+..|++++|||||||||||+.|++||..+....-.+++  .++.+
T Consensus       260 ~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD  339 (1080)
T KOG0732|consen  260 SSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGAD  339 (1080)
T ss_pred             cccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCch
Confidence            44577777766665555544443     234455667999999999999999999999999998543333222  24788


Q ss_pred             hhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          426 SMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       426 ~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ..++|+|+..+   .+..+|.++++++|+|||.
T Consensus       340 ~lskwvgEaER---qlrllFeeA~k~qPSIIff  369 (1080)
T KOG0732|consen  340 CLSKWVGEAER---QLRLLFEEAQKTQPSIIFF  369 (1080)
T ss_pred             hhccccCcHHH---HHHHHHHHHhccCceEEec
Confidence            99999999854   5668999999999999994

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

Probab=99.11  E-value=1.4e-10  Score=115.07  Aligned_cols=103  Identities=20%  Similarity=0.189  Sum_probs=75.3

Q ss_pred             CCccccCChHHHHHHHHHHH-HHHhhhhhc-----CCCcceeeecCCCCChHHHHHHHHHHhCc------ceeeeccccc
Q 012671          356 NNGDIILHPSLQRRIQHLAK-ATANTKIHQ-----APFRNMLFYGPPGTGKTMVAREIARKSEE------MLHLLVHRLL  423 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~-~~~~~~~~~-----~p~rnvLl~GPPGTGKT~lAkaLA~~~g~------~~~~~~~~~~  423 (458)
                      -|+.++...+++.++-..+. .......+.     ..-|-+|+|||||||||+|||+||+++..      .+-.|..++.
T Consensus       140 lWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins  219 (423)
T KOG0744|consen  140 LWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS  219 (423)
T ss_pred             hHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh
Confidence            46677777788886554444 334444433     22467899999999999999999999843      2333666668


Q ss_pred             hhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          424 PRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       424 se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .++.+||++|+.+....+|.-+++.-.-.-+.||+
T Consensus       220 hsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfv  254 (423)
T KOG0744|consen  220 HSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFV  254 (423)
T ss_pred             hHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEE
Confidence            99999999999998887777777776666777764

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.10  E-value=1.5e-11  Score=136.98  Aligned_cols=289  Identities=17%  Similarity=0.127  Sum_probs=175.5

Q ss_pred             CCCCCCCchhhhHHH-HHHHHHhcCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhHHHHHH
Q 012671           66 PRGSGFDPEALERAA-KALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKA  144 (458)
Q Consensus        66 ~~~~~fdp~~ler~a-~a~~~l~~s~~a~~~~~~~~~~e~t~q~e~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~~~~~~  144 (458)
                      +.+..|..+++..++ -..+.+--+--.-.++++..  |..-                     ..+.             
T Consensus       369 ~hg~~~s~~a~~~a~~~s~~~~t~r~lpd~aidl~d--Ea~a---------------------~~~~-------------  412 (898)
T KOG1051|consen  369 HHGVRISDESLFSAAQLSARYITLSFLPDCAIDLED--EAAA---------------------LVKS-------------  412 (898)
T ss_pred             ccCCcccccccccccchhhhhcccCcCchhcccHHH--HHHH---------------------HHhh-------------
Confidence            456778888888888 45566666555555544422  1110                     0111             


Q ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhchHHHhhhHhhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012671          145 QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTE---EQIQAQQRLTEKERAEIERETIRVKA  221 (458)
Q Consensus       145 ~~~~~~a~y~D~L~rkr~q~e~e~~~~~~e~~~~~qees~~rqE~~r~~~e---~~l~~lr~~~e~e~~~l~~~~~~~k~  221 (458)
                       +....-+-=+.++|+.++++.++..++++.+    +.+..|..  .+...   ...+++...|..++..+++..-.+..
T Consensus       413 -~~~~lP~wL~~~~~~~~~~~~e~~~L~kk~d----~~~h~r~~--~~~~~~~~~~~~~l~~~~~~~~s~~~~l~~~~~~  485 (898)
T KOG1051|consen  413 -QAESLPPWLQNLERVDIKLQDEISELQKKWN----QALHKRPS--LESLAPSKPTQQPLSASVDSERSVIEELKLKKNS  485 (898)
T ss_pred             -hhhhCCHHHHhhhhhhhhhHHHHHHHHHhhh----hhhccccc--cccccccccccccchhhhccchhHHhhhccccCC
Confidence             1112222233445555556667777776643    33333433  11111   15567888999999999999888888


Q ss_pred             HHHHhhhHHHHHhhcChhHHHHHHHHHhhhHHHHHhhchhhhhhHHHHHHhhccccceeeeecccceeeeeeeecccccc
Q 012671          222 MAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGAR  301 (458)
Q Consensus       222 ~~e~~~r~~~~r~n~D~~le~~~~~a~~~r~~~l~~i~~~~~~lg~gl~~ll~D~dklv~~v~g~t~Lavgvyta~~~~~  301 (458)
                      .++... +...++.+|+      ..+.+.++..++        ++...+..  | +..     +...++           
T Consensus       486 ~~~~~~-~~k~~r~~d~------~~~~~l~~~~~p--------~~~~~~~~--~-~~~-----~~~~i~-----------  531 (898)
T KOG1051|consen  486 LDRNSL-LAKAHRPNDY------TRETDLRYGRIP--------DELSEKSN--D-NQG-----GESDIS-----------  531 (898)
T ss_pred             cccchh-hhcccCCCCc------chhhhccccccc--------hhhhhhcc--c-ccC-----Cccchh-----------
Confidence            888888 9999999999      777788888777        11111111  1 111     112211           


Q ss_pred             cchhHHHHHhCCCcchhhcccCCCCcccchhhhhHHHhhhcccCCCCCCCCCCCCCccccCChHHHHHHHHHHHHHHhhh
Q 012671          302 VTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTK  381 (458)
Q Consensus       302 v~~~~~e~~Lg~p~lvRe~sr~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~  381 (458)
                         ..+..++|.|......+-.     ..|......+                  =+.|+||.++...|...+.......
T Consensus       532 ---~~~s~~tgip~~~~~~~e~-----~~l~~L~~~L------------------~~~V~gQ~eAv~aIa~AI~~sr~gl  585 (898)
T KOG1051|consen  532 ---EVVSRWTGIPVDRLAEAEA-----ERLKKLEERL------------------HERVIGQDEAVAAIAAAIRRSRAGL  585 (898)
T ss_pred             ---hhhhhhcCCchhhhhhhHH-----HHHHHHHHHH------------------HhhccchHHHHHHHHHHHHhhhccc
Confidence               1222333333331110000     0011111111                  0128999998887776665543221


Q ss_pred             hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh---------hhhh--------hhhhhhhhhHHH
Q 012671          382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR---------YLIG--------RRNQRKACCFLL  444 (458)
Q Consensus       382 ~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~---------~~~g--------e~~~~~~~i~~l  444 (458)
                      ....|.-.+||.||.|+|||-||++||..++-+.-.|.++||++|++         +|.|        +..++.+++++|
T Consensus       586 ~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evskligsp~gyvG~e~gg~LteavrrrP~sVVL  665 (898)
T KOG1051|consen  586 KDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVL  665 (898)
T ss_pred             CCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhhhccCCCcccccchhHHHHHHHHhcCCceEEE
Confidence            11157789999999999999999999999998888889999998665         3333        667788999999


Q ss_pred             HHHhhhcCCceee
Q 012671          445 TRLMHFYASATVY  457 (458)
Q Consensus       445 f~~a~~~~p~iif  457 (458)
                      |+++++.+|.+..
T Consensus       666 fdeIEkAh~~v~n  678 (898)
T KOG1051|consen  666 FEEIEKAHPDVLN  678 (898)
T ss_pred             EechhhcCHHHHH
Confidence            9999999998754

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.07  E-value=2.7e-10  Score=125.68  Aligned_cols=100  Identities=17%  Similarity=0.228  Sum_probs=82.3

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhh----hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~----~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      ....|+|+.+.+....++..+........    .+...++|+||+||||||||+++++++.+++.+|+.++   +++++.
T Consensus       147 ~~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is---~~~~~~  223 (644)
T PRK10733        147 IKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTIS---GSDFVE  223 (644)
T ss_pred             hhCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEe---hHHhHH
Confidence            45678899999999998888887654322    23355689999999999999999999999999999988   788888


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .|+|....   .+..+|..++..+||||||
T Consensus       224 ~~~g~~~~---~~~~~f~~a~~~~P~IifI  250 (644)
T PRK10733        224 MFVGVGAS---RVRDMFEQAKKAAPCIIFI  250 (644)
T ss_pred             hhhcccHH---HHHHHHHHHHhcCCcEEEe
Confidence            89897654   4556778889999999997

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

Probab=99.01  E-value=5.7e-10  Score=119.37  Aligned_cols=72  Identities=28%  Similarity=0.471  Sum_probs=64.1

Q ss_pred             hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcC-CceeeC
Q 012671          381 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYA-SATVYI  458 (458)
Q Consensus       381 ~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~-p~iifi  458 (458)
                      ..+..|++++|+|||||||||++++++|++.|..++.++   +++++++|.|++...++   ..|..+.+++ |+||||
T Consensus       212 s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~---~peli~k~~gEte~~LR---~~f~~a~k~~~psii~I  284 (693)
T KOG0730|consen  212 SIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLIN---GPELISKFPGETESNLR---KAFAEALKFQVPSIIFI  284 (693)
T ss_pred             hcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecc---cHHHHHhcccchHHHHH---HHHHHHhccCCCeeEeH
Confidence            345588999999999999999999999999998888888   99999999999987665   4667788899 999997

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.00  E-value=6.1e-10  Score=109.75  Aligned_cols=93  Identities=19%  Similarity=0.213  Sum_probs=64.0

Q ss_pred             CccccCChHHHHHHHHHHHHHHhhhh---h-c---CCCcceeeecCCCCChHHHHHHHHHHh---C----cceeeecccc
Q 012671          357 NGDIILHPSLQRRIQHLAKATANTKI---H-Q---APFRNMLFYGPPGTGKTMVAREIARKS---E----EMLHLLVHRL  422 (458)
Q Consensus       357 ~~dvi~~~~l~~~l~~l~~~~~~~~~---~-~---~p~rnvLl~GPPGTGKT~lAkaLA~~~---g----~~~~~~~~~~  422 (458)
                      +++++|...++..|..+..+......   . .   ....|+|||||||||||++|+++|..+   |    ..++.+.   
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~---   81 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVE---   81 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEec---
Confidence            56689999999999988877643221   1 1   223589999999999999999999875   2    1333344   


Q ss_pred             chhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          423 LPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       423 ~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .++++.+|+|++....   ..+|..   ..++||||
T Consensus        82 ~~~l~~~~~g~~~~~~---~~~~~~---a~~~VL~I  111 (261)
T TIGR02881        82 RADLVGEYIGHTAQKT---REVIKK---ALGGVLFI  111 (261)
T ss_pred             HHHhhhhhccchHHHH---HHHHHh---ccCCEEEE
Confidence            6788888998765433   233333   34677775

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.

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

Probab=98.93  E-value=7.7e-10  Score=108.32  Aligned_cols=98  Identities=23%  Similarity=0.281  Sum_probs=71.4

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGR  433 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge  433 (458)
                      +..|+++||++.+++.+.-++.+   .+..+....|+|||||||.|||+||..+|+++|..+-..++..+ +--..+.+.
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~A---Ak~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~l-eK~gDlaai   97 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKA---AKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPAL-EKPGDLAAI   97 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHH---HHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccc-cChhhHHHH
Confidence            55799999999999988765554   44556778899999999999999999999999999977663222 111223333


Q ss_pred             hhhhhhhhHHHHHHhhhcCCce
Q 012671          434 RNQRKACCFLLTRLMHFYASAT  455 (458)
Q Consensus       434 ~~~~~~~i~~lf~~a~~~~p~i  455 (458)
                      -.......+++.|+++-+.|.|
T Consensus        98 Lt~Le~~DVLFIDEIHrl~~~v  119 (332)
T COG2255          98 LTNLEEGDVLFIDEIHRLSPAV  119 (332)
T ss_pred             HhcCCcCCeEEEehhhhcChhH
Confidence            3334455667778888777764

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

Probab=98.92  E-value=9.7e-10  Score=112.08  Aligned_cols=63  Identities=29%  Similarity=0.447  Sum_probs=48.0

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      .+..|++||||.++.-.-.-|.+....     ....+++||||||||||+||+.||+..+.+|..++.
T Consensus        19 RP~~lde~vGQ~HLlg~~~~lrr~v~~-----~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sA   81 (436)
T COG2256          19 RPKSLDEVVGQEHLLGEGKPLRRAVEA-----GHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSA   81 (436)
T ss_pred             CCCCHHHhcChHhhhCCCchHHHHHhc-----CCCceeEEECCCCCCHHHHHHHHHHhhCCceEEecc
Confidence            355899999999886533333333222     223499999999999999999999999999998873

>CHL00181 cbbX CbbX; Provisional

Probab=98.92  E-value=2.2e-09  Score=107.46  Aligned_cols=91  Identities=22%  Similarity=0.265  Sum_probs=62.3

Q ss_pred             cccCChHHHHHHHHHHHHHHhhh----hhc---CCCcceeeecCCCCChHHHHHHHHHHhC---c----ceeeeccccch
Q 012671          359 DIILHPSLQRRIQHLAKATANTK----IHQ---APFRNMLFYGPPGTGKTMVAREIARKSE---E----MLHLLVHRLLP  424 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~~~----~~~---~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~----~~~~~~~~~~s  424 (458)
                      +++|.+.+++.|..+..+....+    .+.   .+.-|+||+||||||||++|++||..+.   .    +++.++   .+
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~---~~  100 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVT---RD  100 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEec---HH
Confidence            58999999999988877644322    111   2334799999999999999999998762   1    355555   67


Q ss_pred             hhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          425 RSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       425 e~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++.+|+|.+....   ..+++   ...+.||||
T Consensus       101 ~l~~~~~g~~~~~~---~~~l~---~a~ggVLfI  128 (287)
T CHL00181        101 DLVGQYIGHTAPKT---KEVLK---KAMGGVLFI  128 (287)
T ss_pred             HHHHHHhccchHHH---HHHHH---HccCCEEEE
Confidence            78888998664322   22333   345677775

>TIGR00763 lon ATP-dependent protease La

Probab=98.90  E-value=6e-08  Score=109.47  Aligned_cols=58  Identities=19%  Similarity=0.224  Sum_probs=44.2

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +.|++++++++..++.......  .....++|||||||||||++|++||..++.+|+.+.
T Consensus       322 ~~G~~~~k~~i~~~~~~~~~~~--~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~  379 (775)
T TIGR00763       322 HYGLKKVKERILEYLAVQKLRG--KMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFS  379 (775)
T ss_pred             cCChHHHHHHHHHHHHHHHhhc--CCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEe
Confidence            7788888887766544432211  122347999999999999999999999999999876

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.84  E-value=6.8e-09  Score=103.78  Aligned_cols=91  Identities=24%  Similarity=0.313  Sum_probs=63.4

Q ss_pred             cccCChHHHHHHHHHHHHHHhhhh----h---cCCCcceeeecCCCCChHHHHHHHHHHhCc-------ceeeeccccch
Q 012671          359 DIILHPSLQRRIQHLAKATANTKI----H---QAPFRNMLFYGPPGTGKTMVAREIARKSEE-------MLHLLVHRLLP  424 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~~~~----~---~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~-------~~~~~~~~~~s  424 (458)
                      +++|..++++.|..+..+....+.    +   ..|..++||+||||||||++|+++|..+..       +++.++   .+
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~---~~   99 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVT---RD   99 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEec---HH
Confidence            488999999999888876543221    1   124458999999999999999999987632       455566   67


Q ss_pred             hhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          425 RSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       425 e~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++..|+|.+...   +..+|+   .+.+++|||
T Consensus       100 ~l~~~~~g~~~~~---~~~~~~---~a~~gvL~i  127 (284)
T TIGR02880       100 DLVGQYIGHTAPK---TKEILK---RAMGGVLFI  127 (284)
T ss_pred             HHhHhhcccchHH---HHHHHH---HccCcEEEE
Confidence            7888888866432   223333   346678775

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.

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

Probab=98.82  E-value=2.7e-09  Score=111.60  Aligned_cols=61  Identities=26%  Similarity=0.471  Sum_probs=49.2

Q ss_pred             hhcCCCcceeeecCCCCChHHHHHHHHHHhCcc-eeeeccccchhhhhhhhhhhhhhhhhhHHHHHHh
Q 012671          382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM-LHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLM  448 (458)
Q Consensus       382 ~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~-~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a  448 (458)
                      .++..-+++|||||||||||++|+.|+..++.. --+++   +++++++|+|+++.+.+.   ||..+
T Consensus       251 lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVN---GPeIL~KYVGeSE~NvR~---LFaDA  312 (744)
T KOG0741|consen  251 LGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVN---GPEILNKYVGESEENVRK---LFADA  312 (744)
T ss_pred             cCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccC---cHHHHHHhhcccHHHHHH---HHHhH
Confidence            344556899999999999999999999999754 44456   999999999999776654   55544

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.75  E-value=1.2e-08  Score=115.78  Aligned_cols=97  Identities=18%  Similarity=0.219  Sum_probs=62.4

Q ss_pred             ccCChHHHHHHHHHHHH-HHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-----h----
Q 012671          360 IILHPSLQRRIQHLAKA-TANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-----Y----  429 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~-~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-----~----  429 (458)
                      |+||+++.+.|...+.. .........|..++||+||||||||++|++||..++.+...+.+++++++++     +    
T Consensus       511 v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~g~  590 (821)
T CHL00095        511 IIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIGS  590 (821)
T ss_pred             CcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccHHHhcCC
Confidence            89999988866554443 2222233455567999999999999999999999854333344444666643     2    


Q ss_pred             ---hhh--------hhhhhhhhhHHHHHHhhhcCCcee
Q 012671          430 ---LIG--------RRNQRKACCFLLTRLMHFYASATV  456 (458)
Q Consensus       430 ---~~g--------e~~~~~~~i~~lf~~a~~~~p~ii  456 (458)
                         |+|        +..+..++++++|+++++++|.+.
T Consensus       591 ~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~  628 (821)
T CHL00095        591 PPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIF  628 (821)
T ss_pred             CCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHH
Confidence               222        122234456677777777777653

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.75  E-value=1.6e-08  Score=104.79  Aligned_cols=67  Identities=25%  Similarity=0.331  Sum_probs=54.0

Q ss_pred             CCCCCccccCChHHHH-HHHHHHHHH----HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          353 AIKNNGDIILHPSLQR-RIQHLAKAT----ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~-~l~~l~~~~----~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ....|+.++..+++++ .+.++..+.    ++.+.+....||.|||||||||||++.-|||++++.+++.+.
T Consensus       196 HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLe  267 (457)
T KOG0743|consen  196 HPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLE  267 (457)
T ss_pred             CCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEee
Confidence            3378999999999888 455665553    444555555679999999999999999999999999999875

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.72  E-value=2.2e-08  Score=100.34  Aligned_cols=61  Identities=28%  Similarity=0.469  Sum_probs=48.6

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .|++++|+.++...|..++....   ....++.++|||||||||||++|+++|+.++.++..+.
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~---~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~   62 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAK---MRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITS   62 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHH---hcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEec
Confidence            68899999998888776654332   22345678999999999999999999999998876554

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.67  E-value=1.6e-08  Score=102.99  Aligned_cols=63  Identities=25%  Similarity=0.422  Sum_probs=50.8

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +..|++++|+++....+..+....   ...+.++.++|||||||||||++|+++|+.++.++..+.
T Consensus        21 P~~~~~~vG~~~~~~~l~~~l~~~---~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~   83 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAA---KKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITS   83 (328)
T ss_pred             cCCHHHhcCcHHHHHHHHHHHHHH---HhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEe
Confidence            347999999999888776655432   223456789999999999999999999999999877655

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=98.66  E-value=4.1e-08  Score=102.08  Aligned_cols=89  Identities=19%  Similarity=0.224  Sum_probs=62.9

Q ss_pred             ccCChHHHHHHHHHHHHHHhhh---hh---cCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-hhhh
Q 012671          360 IILHPSLQRRIQHLAKATANTK---IH---QAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-YLIG  432 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~---~~---~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-~~~g  432 (458)
                      |+|++..++.+...+...+...   .+   ..++.|+||+||||||||++|++||..++.+|+.+.   ++++.+ +|+|
T Consensus        17 IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD---~t~f~e~GyvG   93 (443)
T PRK05201         17 IIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVE---ATKFTEVGYVG   93 (443)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeec---chhhccCCccc
Confidence            8999999887755443321110   00   122589999999999999999999999999999988   787886 7888


Q ss_pred             hhhhhhhhhHHHHHHhhhcCC
Q 012671          433 RRNQRKACCFLLTRLMHFYAS  453 (458)
Q Consensus       433 e~~~~~~~i~~lf~~a~~~~p  453 (458)
                      ...  ...+..+|..+....|
T Consensus        94 ~d~--e~~ir~L~~~A~~~~~  112 (443)
T PRK05201         94 RDV--ESIIRDLVEIAVKMVR  112 (443)
T ss_pred             CCH--HHHHHHHHHHHHHHhH
Confidence            432  2345566666644444

>PRK04195 replication factor C large subunit; Provisional

Probab=98.66  E-value=4.2e-08  Score=105.02  Aligned_cols=65  Identities=23%  Similarity=0.340  Sum_probs=52.7

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRL  422 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~  422 (458)
                      +..|++++|++.....+..++....    ++.|++++|||||||||||++|++||+++|.+++.++..+
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~----~g~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd   74 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWL----KGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASD   74 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHh----cCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccc
Confidence            3468899999998887776654332    3455789999999999999999999999999988887443

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

Probab=98.66  E-value=4.5e-08  Score=109.82  Aligned_cols=91  Identities=19%  Similarity=0.180  Sum_probs=65.8

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLL  423 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~  423 (458)
                      ...+++|+|.++...++-.+...        ....|+|||||||||||+++++||..+          +..++.++   +
T Consensus       178 ~~~l~~~igr~~ei~~~~~~L~~--------~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~---~  246 (731)
T TIGR02639       178 NGKIDPLIGREDELERTIQVLCR--------RKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLD---M  246 (731)
T ss_pred             cCCCCcccCcHHHHHHHHHHHhc--------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEec---H
Confidence            45678899998766654433211        123499999999999999999999987          55566655   6


Q ss_pred             hhhh--hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          424 PRSM--RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       424 se~~--~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +.++  .+|.|+...+..   .+++++....|+||||
T Consensus       247 ~~l~a~~~~~g~~e~~l~---~i~~~~~~~~~~ILfi  280 (731)
T TIGR02639       247 GSLLAGTKYRGDFEERLK---AVVSEIEKEPNAILFI  280 (731)
T ss_pred             HHHhhhccccchHHHHHH---HHHHHHhccCCeEEEE
Confidence            6776  478887765444   5566666668999997

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=98.65  E-value=4.3e-08  Score=101.93  Aligned_cols=70  Identities=20%  Similarity=0.314  Sum_probs=53.1

Q ss_pred             ccCChHHHHHHHHHHHHHHhhh------hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-hhhh
Q 012671          360 IILHPSLQRRIQHLAKATANTK------IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-YLIG  432 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~------~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-~~~g  432 (458)
                      |+|+++.++.+...+...+...      ....+++|+||+||||||||++|++||..++.+|+.+.   .+.+++ +|+|
T Consensus        14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vd---at~~~e~g~vG   90 (441)
T TIGR00390        14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVE---ATKFTEVGYVG   90 (441)
T ss_pred             ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEee---cceeecCCccc
Confidence            8999999887754443321111      11234689999999999999999999999999999988   666664 6777

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.

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

Probab=98.65  E-value=1.4e-08  Score=113.56  Aligned_cols=94  Identities=20%  Similarity=0.234  Sum_probs=64.5

Q ss_pred             cccCChHHHHHHHHHHHHH-HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-----hhhh
Q 012671          359 DIILHPSLQRRIQHLAKAT-ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-----YLIG  432 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~-~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-----~~~g  432 (458)
                      .|+||++..+.|...+... ........|..++||+||||||||.+|+.||..++.+++.+.   ++++.+     +++|
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id---~se~~~~~~~~~LiG  535 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFD---MSEYMERHTVSRLIG  535 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEee---chhhcccccHHHHcC
Confidence            3789988888666555432 222233456678999999999999999999999998887766   555533     3333


Q ss_pred             ---------------hhhhhhhhhHHHHHHhhhcCCce
Q 012671          433 ---------------RRNQRKACCFLLTRLMHFYASAT  455 (458)
Q Consensus       433 ---------------e~~~~~~~i~~lf~~a~~~~p~i  455 (458)
                                     +..+..++++++||++++++|.|
T Consensus       536 ~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v  573 (758)
T PRK11034        536 APPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDV  573 (758)
T ss_pred             CCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHHH
Confidence                           11222356677778887777765

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=98.64  E-value=9e-08  Score=100.33  Aligned_cols=71  Identities=18%  Similarity=0.267  Sum_probs=50.7

Q ss_pred             ccCChHHHHHHHHHHHHH-Hhhhh-------hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-hh
Q 012671          360 IILHPSLQRRIQHLAKAT-ANTKI-------HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-YL  430 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~-~~~~~-------~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-~~  430 (458)
                      |+|++.+++.+...+... .....       ...+..|+||+||||||||++|++||..++.+|+.+.   ++.+.. +|
T Consensus        73 ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id---~~~l~~~gy  149 (412)
T PRK05342         73 VIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIAD---ATTLTEAGY  149 (412)
T ss_pred             eeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecc---hhhcccCCc
Confidence            899999988775433211 11100       0124579999999999999999999999999999887   555443 57


Q ss_pred             hhh
Q 012671          431 IGR  433 (458)
Q Consensus       431 ~ge  433 (458)
                      +|.
T Consensus       150 vG~  152 (412)
T PRK05342        150 VGE  152 (412)
T ss_pred             ccc
Confidence            774

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

Probab=98.59  E-value=2.6e-08  Score=111.78  Aligned_cols=94  Identities=20%  Similarity=0.285  Sum_probs=62.3

Q ss_pred             cccCChHHHHHHHHHHHHHH-hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-----h---
Q 012671          359 DIILHPSLQRRIQHLAKATA-NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-----Y---  429 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~-~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-----~---  429 (458)
                      .|+||++..+.+........ .......|..++||+||||||||++|++||..++.+++.+.   ++++++     +   
T Consensus       455 ~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d---~se~~~~~~~~~lig  531 (731)
T TIGR02639       455 KIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFD---MSEYMEKHTVSRLIG  531 (731)
T ss_pred             ceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEe---CchhhhcccHHHHhc
Confidence            47888887776554444322 12222345557999999999999999999999998877766   666544     2   


Q ss_pred             ----hhh--------hhhhhhhhhHHHHHHhhhcCCce
Q 012671          430 ----LIG--------RRNQRKACCFLLTRLMHFYASAT  455 (458)
Q Consensus       430 ----~~g--------e~~~~~~~i~~lf~~a~~~~p~i  455 (458)
                          |+|        +..+..++++++|+++++++|.+
T Consensus       532 ~~~gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~~~  569 (731)
T TIGR02639       532 APPGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHPDI  569 (731)
T ss_pred             CCCCCcccchhhHHHHHHHhCCCeEEEEechhhcCHHH
Confidence                222        11223456677777777777764

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

Probab=98.55  E-value=7.7e-08  Score=95.30  Aligned_cols=53  Identities=28%  Similarity=0.381  Sum_probs=41.4

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..|+++++++.++..|......      ...  .|+|||||||||||+.|.++|++++.
T Consensus        31 rPkt~de~~gQe~vV~~L~~a~~~------~~l--p~~LFyGPpGTGKTStalafar~L~~   83 (346)
T KOG0989|consen   31 RPKTFDELAGQEHVVQVLKNALLR------RIL--PHYLFYGPPGTGKTSTALAFARALNC   83 (346)
T ss_pred             CCCcHHhhcchHHHHHHHHHHHhh------cCC--ceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence            345799999999887766533222      123  39999999999999999999999976

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

Probab=98.51  E-value=6e-06  Score=89.91  Aligned_cols=94  Identities=21%  Similarity=0.269  Sum_probs=59.5

Q ss_pred             ccchhHHHHHhCCCcchhhcccCCCCcccchhhhhHHHhhhcccCCCCCCCCCCCCCccccCChHHHHH-HHHHHHHHHh
Q 012671          301 RVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRR-IQHLAKATAN  379 (458)
Q Consensus       301 ~v~~~~~e~~Lg~p~lvRe~sr~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~dvi~~~~l~~~-l~~l~~~~~~  379 (458)
                      .|+.+|++.++.-|+-.+......      +.+...-+            ..+.+++++|      +++ ++.|+.....
T Consensus       290 ~ViRnYlDwll~lPW~~~sk~~~D------l~~a~~iL------------d~dHYGLekV------KeRIlEyLAV~~l~  345 (782)
T COG0466         290 TVIRNYLDWLLDLPWGKRSKDKLD------LKKAEKIL------------DKDHYGLEKV------KERILEYLAVQKLT  345 (782)
T ss_pred             HHHHHHHHHHHhCCCccccchhhh------HHHHHHHh------------cccccCchhH------HHHHHHHHHHHHHh
Confidence            478999999998665544332221      22222222            2345555544      554 4444444333


Q ss_pred             hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccc
Q 012671          380 TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHR  421 (458)
Q Consensus       380 ~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~  421 (458)
                      .+ -.+  .-++|+||||+|||+|++.||..+|-.|+.|+..
T Consensus       346 ~~-~kG--pILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLG  384 (782)
T COG0466         346 KK-LKG--PILCLVGPPGVGKTSLGKSIAKALGRKFVRISLG  384 (782)
T ss_pred             cc-CCC--cEEEEECCCCCCchhHHHHHHHHhCCCEEEEecC
Confidence            22 222  2677899999999999999999999999998743

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=98.50  E-value=2e-07  Score=97.56  Aligned_cols=71  Identities=18%  Similarity=0.266  Sum_probs=48.4

Q ss_pred             ccCChHHHHHHHHHHH-HHHhhhh---hc------CCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh-h
Q 012671          360 IILHPSLQRRIQHLAK-ATANTKI---HQ------APFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM-R  428 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~-~~~~~~~---~~------~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~-~  428 (458)
                      |+|+++.++.+...+. +......   ..      .+..+|||+||||||||++|++||..++.+|..+.   .+.+. .
T Consensus        79 ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~d---a~~L~~~  155 (413)
T TIGR00382        79 VIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIAD---ATTLTEA  155 (413)
T ss_pred             ecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEec---hhhcccc
Confidence            7999998886654331 1111111   01      12468999999999999999999999999998776   33333 2


Q ss_pred             hhhhh
Q 012671          429 YLIGR  433 (458)
Q Consensus       429 ~~~ge  433 (458)
                      +|+|.
T Consensus       156 gyvG~  160 (413)
T TIGR00382       156 GYVGE  160 (413)
T ss_pred             ccccc
Confidence            56664

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.49  E-value=2.9e-07  Score=104.56  Aligned_cols=91  Identities=18%  Similarity=0.175  Sum_probs=65.3

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC----------cceeeeccccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE----------EMLHLLVHRLL  423 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g----------~~~~~~~~~~~  423 (458)
                      ...|+.|+|.+...+++.++...        ....|+||+||||||||+++..||..+.          ..++.+.   +
T Consensus       175 ~~~~~~~igr~~ei~~~~~~L~r--------~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~---~  243 (821)
T CHL00095        175 DGNLDPVIGREKEIERVIQILGR--------RTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLD---I  243 (821)
T ss_pred             cCCCCCCCCcHHHHHHHHHHHcc--------cccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEee---H
Confidence            34577899988776665544321        2345999999999999999999999863          5566555   6


Q ss_pred             hhhh--hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          424 PRSM--RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       424 se~~--~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +.++  .+|.|+...+.   ..+++.+....|+||||
T Consensus       244 ~~l~ag~~~~ge~e~rl---~~i~~~~~~~~~~ILfi  277 (821)
T CHL00095        244 GLLLAGTKYRGEFEERL---KRIFDEIQENNNIILVI  277 (821)
T ss_pred             HHHhccCCCccHHHHHH---HHHHHHHHhcCCeEEEE
Confidence            6665  47778776544   44566666678999997

>PRK06526 transposase; Provisional

Probab=98.47  E-value=1.1e-07  Score=93.67  Aligned_cols=54  Identities=30%  Similarity=0.420  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhh
Q 012671          369 RIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       369 ~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~  430 (458)
                      .+..+....+...     ..|++|+|||||||||||.+|+..+   |..++.++   .++++..+
T Consensus        85 ~~~~l~~~~fi~~-----~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t---~~~l~~~l  141 (254)
T PRK06526         85 TIAHLGTLDFVTG-----KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFAT---AAQWVARL  141 (254)
T ss_pred             HHHHHhcCchhhc-----CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhh---HHHHHHHH
Confidence            4555555444422     3599999999999999999999886   44444333   55555544

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=98.43  E-value=6.1e-06  Score=89.62  Aligned_cols=35  Identities=34%  Similarity=0.532  Sum_probs=30.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeeccc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHR  421 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~  421 (458)
                      ..-++|+||||+|||++++.||..+|-.|+.++-.
T Consensus       438 GkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvG  472 (906)
T KOG2004|consen  438 GKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVG  472 (906)
T ss_pred             CcEEEEeCCCCCCcccHHHHHHHHhCCceEEEecc
Confidence            34677999999999999999999999999997643

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.42  E-value=5e-07  Score=102.93  Aligned_cols=91  Identities=16%  Similarity=0.189  Sum_probs=61.6

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLL  423 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~  423 (458)
                      ...++.|+|.+...+++-++...        ....|+||+||||||||+++++||..+          |..++.+.   +
T Consensus       174 ~~~l~~vigr~~ei~~~i~iL~r--------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~---l  242 (857)
T PRK10865        174 QGKLDPVIGRDEEIRRTIQVLQR--------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALD---M  242 (857)
T ss_pred             cCCCCcCCCCHHHHHHHHHHHhc--------CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEe---h
Confidence            45688899998765544333221        112499999999999999999999988          55555554   5


Q ss_pred             hhhh--hhhhhhhhhhhhhhHHHHHHh-hhcCCceeeC
Q 012671          424 PRSM--RYLIGRRNQRKACCFLLTRLM-HFYASATVYI  458 (458)
Q Consensus       424 se~~--~~~~ge~~~~~~~i~~lf~~a-~~~~p~iifi  458 (458)
                      +.++  .+|.|+...+...   +++.+ +...|+||||
T Consensus       243 ~~l~ag~~~~g~~e~~lk~---~~~~~~~~~~~~ILfI  277 (857)
T PRK10865        243 GALVAGAKYRGEFEERLKG---VLNDLAKQEGNVILFI  277 (857)
T ss_pred             hhhhhccchhhhhHHHHHH---HHHHHHHcCCCeEEEE
Confidence            6555  4577777655543   33433 3457899987

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.42  E-value=3.9e-07  Score=95.75  Aligned_cols=61  Identities=28%  Similarity=0.445  Sum_probs=45.5

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      ..|++++|+.++......+......     ....++|||||||||||++|+.|+..++.+|+.++.
T Consensus         9 ~~l~d~vGq~~~v~~~~~L~~~i~~-----~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a   69 (413)
T PRK13342          9 KTLDEVVGQEHLLGPGKPLRRMIEA-----GRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSA   69 (413)
T ss_pred             CCHHHhcCcHHHhCcchHHHHHHHc-----CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEec
Confidence            5788999999875542222222211     223489999999999999999999999999988774

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.40  E-value=2.8e-07  Score=91.82  Aligned_cols=73  Identities=18%  Similarity=0.294  Sum_probs=49.8

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhc--------CCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhh
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQ--------APFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLI  431 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~--------~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~  431 (458)
                      |||++..++.+.-... ..+.+.+.        -...|+||.||+|||||+||+.||..++.||.+-....+++  -+|+
T Consensus        63 VIGQe~AKKvLsVAVY-NHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTE--AGYV  139 (408)
T COG1219          63 VIGQEQAKKVLSVAVY-NHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTE--AGYV  139 (408)
T ss_pred             eecchhhhceeeeeeh-hHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhh--cccc
Confidence            8888888876532221 11111111        12459999999999999999999999999998876333332  3788


Q ss_pred             hhhh
Q 012671          432 GRRN  435 (458)
Q Consensus       432 ge~~  435 (458)
                      |+-.
T Consensus       140 GEDV  143 (408)
T COG1219         140 GEDV  143 (408)
T ss_pred             chhH
Confidence            8654

>PRK08181 transposase; Validated

Probab=98.39  E-value=2.8e-07  Score=91.41  Aligned_cols=41  Identities=27%  Similarity=0.374  Sum_probs=31.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~  430 (458)
                      ..|++|+|||||||||||.+||.++   |..++.++   .++++..+
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~---~~~L~~~l  149 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR---TTDLVQKL  149 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee---HHHHHHHH
Confidence            3599999999999999999999765   55555555   55555543

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=98.36  E-value=6e-06  Score=93.21  Aligned_cols=58  Identities=19%  Similarity=0.263  Sum_probs=42.2

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..|...+++++..+.......  +..+...++|+||||||||++++.||..++.+|+.++
T Consensus       324 ~~g~~~vK~~i~~~l~~~~~~--~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~  381 (784)
T PRK10787        324 HYGLERVKDRILEYLAVQSRV--NKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMA  381 (784)
T ss_pred             ccCHHHHHHHHHHHHHHHHhc--ccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEE
Confidence            566777778665443332221  1123347999999999999999999999999998876

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.35  E-value=7.3e-07  Score=76.23  Aligned_cols=33  Identities=36%  Similarity=0.553  Sum_probs=28.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcc---eeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEM---LHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~---~~~~~  419 (458)
                      ..+++|+||||||||++++.|+..++..   ++.++
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~   37 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYID   37 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEEC
Confidence            3589999999999999999999999876   44444

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.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.34  E-value=4.7e-07  Score=96.58  Aligned_cols=54  Identities=28%  Similarity=0.371  Sum_probs=42.3

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..|++|+|++++...+...+..       +..+.++|||||||||||++|+++|..++.
T Consensus         9 RP~~~~divGq~~i~~~L~~~i~~-------~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~   62 (472)
T PRK14962          9 RPKTFSEVVGQDHVKKLIINALKK-------NSISHAYIFAGPRGTGKTTVARILAKSLNC   62 (472)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            345799999999987776654332       233446899999999999999999999865

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.33  E-value=1.9e-06  Score=84.90  Aligned_cols=66  Identities=23%  Similarity=0.395  Sum_probs=46.4

Q ss_pred             ccCChHHHH-HHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhhhh
Q 012671          360 IILHPSLQR-RIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       360 vi~~~~l~~-~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~~g  432 (458)
                      +-+.+...+ .+..+.....+..    ...|++|||||||||||||.+||+.+   |.++..++   .++++..+-.
T Consensus        81 ~~~~~~~~~~~l~~~~~~~~~~~----~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~---~~el~~~Lk~  150 (254)
T COG1484          81 FEFQPGIDKKALEDLASLVEFFE----RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT---APDLLSKLKA  150 (254)
T ss_pred             ccCCcchhHHHHHHHHHHHHHhc----cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEE---HHHHHHHHHH
Confidence            444454444 6666665543322    34699999999999999999999998   45555555   8888887666

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.32  E-value=1.6e-06  Score=98.88  Aligned_cols=92  Identities=17%  Similarity=0.178  Sum_probs=61.1

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeecccc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRL  422 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~  422 (458)
                      ....++.|+|.+....++-.+...        ....|+||+||||||||+++.+||..+          |.+++.+.   
T Consensus       168 ~~~~~~~~igr~~ei~~~~~~l~r--------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~---  236 (852)
T TIGR03346       168 REGKLDPVIGRDEEIRRTIQVLSR--------RTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALD---  236 (852)
T ss_pred             hCCCCCcCCCcHHHHHHHHHHHhc--------CCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEee---
Confidence            345678899998765544433211        223499999999999999999999986          44455544   


Q ss_pred             chhhh--hhhhhhhhhhhhhhHHHHHHhhh-cCCceeeC
Q 012671          423 LPRSM--RYLIGRRNQRKACCFLLTRLMHF-YASATVYI  458 (458)
Q Consensus       423 ~se~~--~~~~ge~~~~~~~i~~lf~~a~~-~~p~iifi  458 (458)
                      ++.++  .+|.|+...+.   ..+++.+.. ..|+||||
T Consensus       237 ~~~l~a~~~~~g~~e~~l---~~~l~~~~~~~~~~ILfI  272 (852)
T TIGR03346       237 MGALIAGAKYRGEFEERL---KAVLNEVTKSEGQIILFI  272 (852)
T ss_pred             HHHHhhcchhhhhHHHHH---HHHHHHHHhcCCCeEEEe
Confidence            56554  46777665443   344555543 36899987

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.

>PRK09183 transposase/IS protein; Provisional

Probab=98.31  E-value=5.3e-07  Score=89.04  Aligned_cols=41  Identities=22%  Similarity=0.351  Sum_probs=30.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~  430 (458)
                      ..|++|+||||||||||+.+||..+   |..+..++   +++++..+
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~---~~~l~~~l  145 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT---AADLLLQL  145 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe---HHHHHHHH
Confidence            3599999999999999999998764   54554444   45554433

>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=98.30  E-value=1.9e-07  Score=86.57  Aligned_cols=65  Identities=23%  Similarity=0.250  Sum_probs=44.0

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCc----ceeeeccccchhhhh---------hhhhhhh---hhhhhhHHHHHHhh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEE----MLHLLVHRLLPRSMR---------YLIGRRN---QRKACCFLLTRLMH  449 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~----~~~~~~~~~~se~~~---------~~~ge~~---~~~~~i~~lf~~a~  449 (458)
                      |..++||+||+|||||.+|++||..++.    +++.+.   ++++..         +++|...   .....-++++|+++
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d---~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEid   78 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRID---MSEYSEGDDVESSVSKLLGSPPGYVGAEEGGVVLLDEID   78 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEE---GGGHCSHHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHh---hhcccccchHHhhhhhhhhcccceeeccchhhhhhHHHh
Confidence            5679999999999999999999999995    555544   555544         3333221   11123366778888


Q ss_pred             hcCC
Q 012671          450 FYAS  453 (458)
Q Consensus       450 ~~~p  453 (458)
                      +++|
T Consensus        79 Ka~~   82 (171)
T PF07724_consen   79 KAHP   82 (171)
T ss_dssp             GCSH
T ss_pred             hccc
Confidence            8877

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 ....

>PLN03025 replication factor C subunit; Provisional

Probab=98.29  E-value=6.8e-07  Score=90.71  Aligned_cols=51  Identities=29%  Similarity=0.456  Sum_probs=40.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..|+++++++++...|..++..        ....|+|||||||||||++|.++|+++
T Consensus         8 rP~~l~~~~g~~~~~~~L~~~~~~--------~~~~~lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025          8 RPTKLDDIVGNEDAVSRLQVIARD--------GNMPNLILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHhc--------CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            345789999999988877655332        112489999999999999999999997

>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=98.29  E-value=6.9e-07  Score=84.86  Aligned_cols=46  Identities=35%  Similarity=0.551  Sum_probs=34.7

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|.||+||+.+++.+.-.+..          ..|+||+|||||||||+|+++...+
T Consensus         1 Df~dI~GQe~aKrAL~iAAaG----------~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAAG----------GHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHHC----------C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             ChhhhcCcHHHHHHHHHHHcC----------CCCeEEECCCCCCHHHHHHHHHHhC
Confidence            588999999999877533221          2499999999999999999999765

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.

>PRK08116 hypothetical protein; Validated

Probab=98.29  E-value=3.4e-06  Score=83.77  Aligned_cols=40  Identities=28%  Similarity=0.445  Sum_probs=31.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~  430 (458)
                      .+++|||||||||||||.+|++++   |.+++.++   .++++..+
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~---~~~ll~~i  157 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN---FPQLLNRI  157 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE---HHHHHHHH
Confidence            479999999999999999999986   56666666   55555443

>PRK06620 hypothetical protein; Validated

Probab=98.27  E-value=1.2e-06  Score=83.99  Aligned_cols=63  Identities=16%  Similarity=0.265  Sum_probs=42.1

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCC-cceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF-RNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~-rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      ..+..+|+++|..+.....+..+..+...+  ...|+ +.++||||||||||||+++++...+..|
T Consensus         9 ~~~~~tfd~Fvvg~~N~~a~~~~~~~~~~~--~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~   72 (214)
T PRK06620          9 TSSKYHPDEFIVSSSNDQAYNIIKNWQCGF--GVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYI   72 (214)
T ss_pred             CCCCCCchhhEecccHHHHHHHHHHHHHcc--ccCCCcceEEEECCCCCCHHHHHHHHHhccCCEE
Confidence            345667888876664444444444433221  12342 6899999999999999999999887543

>PRK06893 DNA replication initiation factor; Validated

Probab=98.26  E-value=6.7e-07  Score=86.55  Aligned_cols=55  Identities=13%  Similarity=0.122  Sum_probs=36.1

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..+...|+++++.+...- +..+..   +...  .....++||||||||||||+.++|+++
T Consensus         9 ~~~~~~fd~f~~~~~~~~-~~~~~~---~~~~--~~~~~l~l~G~~G~GKThL~~ai~~~~   63 (229)
T PRK06893          9 QIDDETLDNFYADNNLLL-LDSLRK---NFID--LQQPFFYIWGGKSSGKSHLLKAVSNHY   63 (229)
T ss_pred             CCCcccccccccCChHHH-HHHHHH---Hhhc--cCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            346678999997765432 222211   1111  112367999999999999999999886

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.26  E-value=1.2e-06  Score=88.31  Aligned_cols=61  Identities=20%  Similarity=0.233  Sum_probs=47.1

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHR  421 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~  421 (458)
                      +..|++++++++....+..++..       +..+..+|||||||||||+++++++..++.+++.++..
T Consensus        17 P~~~~~~~~~~~~~~~l~~~~~~-------~~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~   77 (316)
T PHA02544         17 PSTIDECILPAADKETFKSIVKK-------GRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGS   77 (316)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhc-------CCCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccC
Confidence            45899999999988877665531       22233455599999999999999999999888877743

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

Probab=98.24  E-value=4.7e-07  Score=91.53  Aligned_cols=57  Identities=32%  Similarity=0.447  Sum_probs=40.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ....++|++|+.++...- -+++..  .+.+  ...+++||||||||||+||+.|+..+..+
T Consensus       133 RPktL~dyvGQ~hlv~q~-gllrs~--ieq~--~ipSmIlWGppG~GKTtlArlia~tsk~~  189 (554)
T KOG2028|consen  133 RPKTLDDYVGQSHLVGQD-GLLRSL--IEQN--RIPSMILWGPPGTGKTTLARLIASTSKKH  189 (554)
T ss_pred             CcchHHHhcchhhhcCcc-hHHHHH--HHcC--CCCceEEecCCCCchHHHHHHHHhhcCCC
Confidence            455788899888876652 222221  1122  23499999999999999999999998766

>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=98.24  E-value=2.3e-06  Score=87.39  Aligned_cols=71  Identities=21%  Similarity=0.229  Sum_probs=51.1

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC--cceeeeccccchhhhhhhhh
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE--EMLHLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g--~~~~~~~~~~~se~~~~~~g  432 (458)
                      ..+.+|||.+..+...-++......+.   ..+++||.||||||||-||-++|+++|  .||..|+   +|++.+.-+.
T Consensus        22 ~~~GlVGQ~~AReAagiiv~mIk~~K~---aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~is---gSEiyS~e~k   94 (398)
T PF06068_consen   22 IADGLVGQEKAREAAGIIVDMIKEGKI---AGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSIS---GSEIYSSEVK   94 (398)
T ss_dssp             EETTEES-HHHHHHHHHHHHHHHTT-----TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEE---GGGG-BTTC-
T ss_pred             ccccccChHHHHHHHHHHHHHHhcccc---cCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcc---cceeeecccC
Confidence            345689999998887766666554443   357999999999999999999999998  8899999   7776655444

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.24  E-value=3.7e-06  Score=89.32  Aligned_cols=75  Identities=12%  Similarity=0.165  Sum_probs=46.1

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh-----Ccceeeeccccchh
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----EEMLHLLVHRLLPR  425 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-----g~~~~~~~~~~~se  425 (458)
                      ..+...|++++..+.....+..+.....+   .+..+.+++||||||||||||++++|+++     +..++.++   ..+
T Consensus       115 l~~~~tfd~fv~g~~n~~a~~~~~~~~~~---~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~---~~~  188 (450)
T PRK00149        115 LNPKYTFDNFVVGKSNRLAHAAALAVAEN---PGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT---SEK  188 (450)
T ss_pred             CCCCCcccccccCCCcHHHHHHHHHHHhC---cCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE---HHH
Confidence            34566888866444433333322222222   12345679999999999999999999997     44455555   444


Q ss_pred             hhhhhh
Q 012671          426 SMRYLI  431 (458)
Q Consensus       426 ~~~~~~  431 (458)
                      ++..+.
T Consensus       189 ~~~~~~  194 (450)
T PRK00149        189 FTNDFV  194 (450)
T ss_pred             HHHHHH
Confidence            444443

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.23  E-value=4.5e-06  Score=88.51  Aligned_cols=73  Identities=14%  Similarity=0.223  Sum_probs=45.2

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh-----Ccceeeeccccchh
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----EEMLHLLVHRLLPR  425 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-----g~~~~~~~~~~~se  425 (458)
                      ..+..+|++++..+..............+    ...+.+++||||||||||||+.++|+++     +..++.++   ..+
T Consensus        98 l~~~~tFdnFv~g~~n~~a~~~~~~~~~~----~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~---~~~  170 (440)
T PRK14088         98 LNPDYTFENFVVGPGNSFAYHAALEVAKN----PGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT---SEK  170 (440)
T ss_pred             CCCCCcccccccCCchHHHHHHHHHHHhC----cCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE---HHH
Confidence            45667898887555443333222222211    1225679999999999999999999986     33445555   444


Q ss_pred             hhhhh
Q 012671          426 SMRYL  430 (458)
Q Consensus       426 ~~~~~  430 (458)
                      ++..+
T Consensus       171 f~~~~  175 (440)
T PRK14088        171 FLNDL  175 (440)
T ss_pred             HHHHH
Confidence            44443

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

Probab=98.23  E-value=1.2e-06  Score=81.70  Aligned_cols=42  Identities=33%  Similarity=0.523  Sum_probs=30.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhhh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYLI  431 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~~  431 (458)
                      ..|++|+|||||||||||.+|+.++   |.++..++   .++++..+-
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~---~~~L~~~l~   91 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT---ASDLLDELK   91 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE---HHHHHHHHH
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee---cCceecccc
Confidence            4699999999999999999999876   56665555   666665443

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.

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

Probab=98.23  E-value=2.7e-06  Score=95.49  Aligned_cols=91  Identities=18%  Similarity=0.173  Sum_probs=59.5

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLL  423 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~  423 (458)
                      .+.++.++|.+....++..+...        ....|+||+||||||||+++++||...          +..++.+.   +
T Consensus       182 ~g~~~~liGR~~ei~~~i~iL~r--------~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~---~  250 (758)
T PRK11034        182 VGGIDPLIGREKELERAIQVLCR--------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD---I  250 (758)
T ss_pred             cCCCCcCcCCCHHHHHHHHHHhc--------cCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEecc---H
Confidence            34566688877655544433222        113499999999999999999999874          33343333   4


Q ss_pred             hhhh--hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          424 PRSM--RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       424 se~~--~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +.++  .+|.|+...+.   ..+++.+..+.|+||||
T Consensus       251 ~~llaG~~~~Ge~e~rl---~~l~~~l~~~~~~ILfI  284 (758)
T PRK11034        251 GSLLAGTKYRGDFEKRF---KALLKQLEQDTNSILFI  284 (758)
T ss_pred             HHHhcccchhhhHHHHH---HHHHHHHHhcCCCEEEe
Confidence            5554  35677665443   34566677788999997

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.23  E-value=4.5e-06  Score=81.73  Aligned_cols=43  Identities=23%  Similarity=0.444  Sum_probs=33.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhhhh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~~g  432 (458)
                      ..+++|+||||||||||+.+||.++   |..++.++   .++++..+.+
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it---~~~l~~~l~~  144 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT---VADIMSAMKD  144 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE---HHHHHHHHHH
Confidence            3589999999999999999999998   55666665   6666654443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=1.4e-06  Score=90.12  Aligned_cols=53  Identities=25%  Similarity=0.226  Sum_probs=41.4

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|++|+||+.+.+.+......       +..+..+||+||||||||++|+++|..++.
T Consensus        12 P~~~~~iiGq~~~~~~l~~~~~~-------~~~~h~~L~~Gp~G~GKTtla~~la~~l~c   64 (363)
T PRK14961         12 PQYFRDIIGQKHIVTAISNGLSL-------GRIHHAWLLSGTRGVGKTTIARLLAKSLNC   64 (363)
T ss_pred             CCchhhccChHHHHHHHHHHHHc-------CCCCeEEEEecCCCCCHHHHHHHHHHHhcC
Confidence            45899999999988876644332       222335799999999999999999999864

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.22  E-value=2.4e-06  Score=97.32  Aligned_cols=92  Identities=16%  Similarity=0.117  Sum_probs=59.3

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC----------cceeeecccc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE----------EMLHLLVHRL  422 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g----------~~~~~~~~~~  422 (458)
                      ....+++|+|+++...++-.+.   ..     ....|+||+||||||||.+++.||..+.          ..++.+.   
T Consensus       182 r~~~ld~~iGr~~ei~~~i~~l---~r-----~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~---  250 (852)
T TIGR03345       182 REGKIDPVLGRDDEIRQMIDIL---LR-----RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLD---  250 (852)
T ss_pred             cCCCCCcccCCHHHHHHHHHHH---hc-----CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEee---
Confidence            3457888999988655433221   11     1233999999999999999999999863          2233333   


Q ss_pred             chhhh--hhhhhhhhhhhhhhHHHHHHhh-hcCCceeeC
Q 012671          423 LPRSM--RYLIGRRNQRKACCFLLTRLMH-FYASATVYI  458 (458)
Q Consensus       423 ~se~~--~~~~ge~~~~~~~i~~lf~~a~-~~~p~iifi  458 (458)
                      ++.++  .+|.|+...+..   .+++++. ...++||||
T Consensus       251 l~~l~ag~~~~ge~e~~lk---~ii~e~~~~~~~~ILfI  286 (852)
T TIGR03345       251 LGLLQAGASVKGEFENRLK---SVIDEVKASPQPIILFI  286 (852)
T ss_pred             hhhhhcccccchHHHHHHH---HHHHHHHhcCCCeEEEE
Confidence            55554  257777755444   4445453 346889987

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.21  E-value=2.5e-06  Score=86.22  Aligned_cols=42  Identities=29%  Similarity=0.445  Sum_probs=32.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~  430 (458)
                      ..+|++||||||||||||+.+||+++   |.++..+.   +++++..+
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~---~~~l~~~l  199 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH---FPEFIREL  199 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE---HHHHHHHH
Confidence            45799999999999999999999998   55555554   55555443

>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=98.21  E-value=2.9e-06  Score=73.41  Aligned_cols=34  Identities=50%  Similarity=0.812  Sum_probs=29.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +.++++++||||||||++++.++..+   +.+++.+.
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   54 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLN   54 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEe
Confidence            34689999999999999999999998   77777666

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.21  E-value=5.5e-06  Score=79.63  Aligned_cols=61  Identities=16%  Similarity=0.270  Sum_probs=38.9

Q ss_pred             CCCCCCccccCCh--HHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          352 EAIKNNGDIILHP--SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       352 ~~~~~~~dvi~~~--~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ....+|++++...  .+...+..+.   .    ...+.++++|||||||||||||+++++++   |..++.++
T Consensus        12 ~~~~~~d~f~~~~~~~~~~~l~~~~---~----~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~   77 (227)
T PRK08903         12 PPPPTFDNFVAGENAELVARLRELA---A----GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLD   77 (227)
T ss_pred             CChhhhcccccCCcHHHHHHHHHHH---h----ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            3456788877332  2223333222   1    12345689999999999999999999986   34444444

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.19  E-value=6.7e-06  Score=86.16  Aligned_cols=74  Identities=12%  Similarity=0.169  Sum_probs=44.8

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh-----Ccceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----EEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-----g~~~~~~~~~~~se~  426 (458)
                      .+...|++++..+........+.....+   ....+..++||||||||||||++++++++     +..++.++   ..++
T Consensus       104 ~~~~tfd~fi~g~~n~~a~~~~~~~~~~---~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~---~~~~  177 (405)
T TIGR00362       104 NPKYTFDNFVVGKSNRLAHAAALAVAEN---PGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS---SEKF  177 (405)
T ss_pred             CCCCcccccccCCcHHHHHHHHHHHHhC---cCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE---HHHH
Confidence            4566788855333332222222222211   22345678999999999999999999987     45666666   4444


Q ss_pred             hhhhh
Q 012671          427 MRYLI  431 (458)
Q Consensus       427 ~~~~~  431 (458)
                      +..+.
T Consensus       178 ~~~~~  182 (405)
T TIGR00362       178 TNDFV  182 (405)
T ss_pred             HHHHH
Confidence            44443

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).

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

Probab=98.18  E-value=1.3e-06  Score=83.69  Aligned_cols=55  Identities=31%  Similarity=0.438  Sum_probs=43.7

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh-Ccceee
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-EEMLHL  417 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-g~~~~~  417 (458)
                      .-+.|+||+++...++..++...      +.|  |++|.||||||||+-+.+||+.+ |..|-.
T Consensus        24 ~~l~dIVGNe~tv~rl~via~~g------nmP--~liisGpPG~GKTTsi~~LAr~LLG~~~ke   79 (333)
T KOG0991|consen   24 SVLQDIVGNEDTVERLSVIAKEG------NMP--NLIISGPPGTGKTTSILCLARELLGDSYKE   79 (333)
T ss_pred             hHHHHhhCCHHHHHHHHHHHHcC------CCC--ceEeeCCCCCchhhHHHHHHHHHhChhhhh
Confidence            35778999999999988765542      333  99999999999999999999986 644433

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

Probab=98.17  E-value=1.5e-06  Score=96.93  Aligned_cols=61  Identities=25%  Similarity=0.396  Sum_probs=45.3

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +..|++++|+..+......+......     ....++|||||||||||++|++|++.++.+|+.++
T Consensus        24 P~tldd~vGQe~ii~~~~~L~~~i~~-----~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~ln   84 (725)
T PRK13341         24 PRTLEEFVGQDHILGEGRLLRRAIKA-----DRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLN   84 (725)
T ss_pred             CCcHHHhcCcHHHhhhhHHHHHHHhc-----CCCceEEEECCCCCCHHHHHHHHHHHhcCcceeeh
Confidence            45789999998876432223222222     22349999999999999999999999988887766

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.17  E-value=1.2e-06  Score=85.18  Aligned_cols=54  Identities=7%  Similarity=0.084  Sum_probs=35.8

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +...|++++.. .....+..+..+..+.     ...+++||||||||||||+.++|+.+.
T Consensus        17 ~~~~fd~f~~~-~n~~a~~~l~~~~~~~-----~~~~l~l~Gp~G~GKThLl~a~~~~~~   70 (235)
T PRK08084         17 DDETFASFYPG-DNDSLLAALQNALRQE-----HSGYIYLWSREGAGRSHLLHAACAELS   70 (235)
T ss_pred             CcCCccccccC-ccHHHHHHHHHHHhCC-----CCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            45577777733 2223444443333221     234899999999999999999998764

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.16  E-value=1.1e-06  Score=91.85  Aligned_cols=48  Identities=31%  Similarity=0.442  Sum_probs=38.9

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..+|.||+|++..++.+.-.+..          ..|+||+|||||||||+|+.+..-+
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAAG----------gHnLl~~GpPGtGKTmla~Rl~~lL  222 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAAG----------GHNLLLVGPPGTGKTMLASRLPGLL  222 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHhc----------CCcEEEecCCCCchHHhhhhhcccC
Confidence            45899999999999887533221          3599999999999999999998654

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.16  E-value=1.2e-06  Score=83.64  Aligned_cols=61  Identities=15%  Similarity=0.157  Sum_probs=38.3

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      ....|++++.. .....+..+..+..     .....+++||||||||||++|++++..+.   .+++.++
T Consensus        10 ~~~~~~~~~~~-~~~~~~~~l~~~~~-----~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~   73 (226)
T TIGR03420        10 DDPTFDNFYAG-GNAELLAALRQLAA-----GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLP   73 (226)
T ss_pred             CchhhcCcCcC-CcHHHHHHHHHHHh-----cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe
Confidence            34567777631 22223333333322     23346999999999999999999998874   4455444

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.

>PRK12377 putative replication protein; Provisional

Probab=98.15  E-value=3.4e-06  Score=82.78  Aligned_cols=39  Identities=31%  Similarity=0.561  Sum_probs=30.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~  428 (458)
                      ..+++|+|||||||||||.+||+.+   |..+..++   .++++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~---~~~l~~  142 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT---VPDVMS  142 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE---HHHHHH
Confidence            3599999999999999999999998   45555454   444444

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=2e-06  Score=91.23  Aligned_cols=54  Identities=26%  Similarity=0.338  Sum_probs=42.3

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..|++|+|++.+...|...+..       +..+..+|||||||||||++|+.+|..++.
T Consensus        13 RP~~f~dvVGQe~iv~~L~~~i~~-------~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnc   66 (484)
T PRK14956         13 RPQFFRDVIHQDLAIGALQNALKS-------GKIGHAYIFFGPRGVGKTTIARILAKRLNC   66 (484)
T ss_pred             CCCCHHHHhChHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence            345899999999988876655432       222235899999999999999999999876

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=2.6e-06  Score=91.84  Aligned_cols=54  Identities=22%  Similarity=0.285  Sum_probs=42.4

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..|+||||++.+.+.|...+..       +..+..+|||||||||||++|+.+|+.+++
T Consensus        11 RP~~f~divGq~~v~~~L~~~~~~-------~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   64 (509)
T PRK14958         11 RPRCFQEVIGQAPVVRALSNALDQ-------QYLHHAYLFTGTRGVGKTTISRILAKCLNC   64 (509)
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHh-------CCCCeeEEEECCCCCCHHHHHHHHHHHhcC
Confidence            345799999999998877655432       222235899999999999999999999865

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.12  E-value=2.9e-06  Score=88.82  Aligned_cols=53  Identities=28%  Similarity=0.315  Sum_probs=41.5

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|++|+||+.+.+.|...+..       +..+..+|||||||||||++|+++|+.++.
T Consensus        12 P~~~~eiiGq~~~~~~L~~~~~~-------~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c   64 (397)
T PRK14955         12 PKKFADITAQEHITRTIQNSLRM-------GRVGHGYIFSGLRGVGKTTAARVFAKAVNC   64 (397)
T ss_pred             CCcHhhccChHHHHHHHHHHHHh-------CCcceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence            45799999999988876554332       222335999999999999999999999865

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.12  E-value=2.9e-06  Score=85.85  Aligned_cols=51  Identities=27%  Similarity=0.431  Sum_probs=40.1

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..|+++++++++...+..++..      +  ...++|||||||||||++|+++++.+.
T Consensus        11 P~~~~~~~g~~~~~~~L~~~~~~------~--~~~~lll~Gp~GtGKT~la~~~~~~l~   61 (337)
T PRK12402         11 PALLEDILGQDEVVERLSRAVDS------P--NLPHLLVQGPPGSGKTAAVRALARELY   61 (337)
T ss_pred             CCcHHHhcCCHHHHHHHHHHHhC------C--CCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            34688999999887777665432      1  123799999999999999999999884

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.12  E-value=4.3e-06  Score=86.30  Aligned_cols=54  Identities=26%  Similarity=0.418  Sum_probs=42.0

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..|++++|++.+.+.+......       +..+.++|||||||+|||++|++++..++.
T Consensus        12 rP~~~~~iig~~~~~~~l~~~i~~-------~~~~~~~L~~G~~G~GKt~~a~~la~~l~~   65 (367)
T PRK14970         12 RPQTFDDVVGQSHITNTLLNAIEN-------NHLAQALLFCGPRGVGKTTCARILARKINQ   65 (367)
T ss_pred             CCCcHHhcCCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            345799999999887765544322       334468999999999999999999998754

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=98.11  E-value=3.9e-06  Score=84.86  Aligned_cols=69  Identities=22%  Similarity=0.261  Sum_probs=52.0

Q ss_pred             ccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC--cceeeeccccchhhhhhhhh
Q 012671          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE--EMLHLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g--~~~~~~~~~~~se~~~~~~g  432 (458)
                      +.+|||.+..+...-+.......   ....+++||.||||||||-||-+||+++|  .||..|+   +|++.+--+.
T Consensus        39 dG~VGQ~~AReAaGvIv~mik~g---k~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~is---gsEiYS~E~k  109 (450)
T COG1224          39 DGLVGQEEAREAAGVIVKMIKQG---KMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAIS---GSEIYSLEVK  109 (450)
T ss_pred             CcccchHHHHHhhhHHHHHHHhC---cccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeec---cceeeeeccc
Confidence            45789988888666555554433   33468999999999999999999999998  6788888   6666554333

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

Probab=98.10  E-value=3.4e-06  Score=92.14  Aligned_cols=65  Identities=20%  Similarity=0.230  Sum_probs=53.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ..+||+||||||||++.+++|.++|++++.+.   +.++...--+-.   .......|..++.+.|+|||+
T Consensus       432 ~~vLLhG~~g~GK~t~V~~vas~lg~h~~evd---c~el~~~s~~~~---etkl~~~f~~a~~~~pavifl  496 (953)
T KOG0736|consen  432 PSVLLHGPPGSGKTTVVRAVASELGLHLLEVD---CYELVAESASHT---ETKLQAIFSRARRCSPAVLFL  496 (953)
T ss_pred             eEEEEeCCCCCChHHHHHHHHHHhCCceEecc---HHHHhhcccchh---HHHHHHHHHHHhhcCceEEEE
Confidence            37999999999999999999999999999988   777766554433   224456788899999999996

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.10  E-value=3.1e-06  Score=90.42  Aligned_cols=52  Identities=23%  Similarity=0.247  Sum_probs=40.7

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..|+|+|||+.+.+.+......       +..+.++||+||||||||++|+.+|..++
T Consensus         9 P~~f~dliGQe~vv~~L~~a~~~-------~ri~ha~Lf~Gp~G~GKTT~ArilAk~Ln   60 (491)
T PRK14964          9 PSSFKDLVGQDVLVRILRNAFTL-------NKIPQSILLVGASGVGKTTCARIISLCLN   60 (491)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCccHHHHHHHHHHHHc
Confidence            35899999999888866543322       33345899999999999999999998653

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.09  E-value=3.2e-06  Score=92.43  Aligned_cols=53  Identities=23%  Similarity=0.318  Sum_probs=42.4

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|++|||++.+.+.|...+..       +.....+|||||||||||++|+++|+.+++
T Consensus        11 PktFddVIGQe~vv~~L~~aI~~-------grl~HAyLF~GPpGvGKTTlAriLAK~LnC   63 (702)
T PRK14960         11 PRNFNELVGQNHVSRALSSALER-------GRLHHAYLFTGTRGVGKTTIARILAKCLNC   63 (702)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            45799999999988777654432       233457899999999999999999999875

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.07  E-value=3.8e-06  Score=90.29  Aligned_cols=54  Identities=22%  Similarity=0.162  Sum_probs=42.8

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..|+|++|++.+.+.+......       +..+.++||+||||||||++|+.+|+.++.
T Consensus        16 RP~~f~dliGq~~vv~~L~~ai~~-------~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc   69 (507)
T PRK06645         16 RPSNFAELQGQEVLVKVLSYTILN-------DRLAGGYLLTGIRGVGKTTSARIIAKAVNC   69 (507)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            455899999999988877653322       233458999999999999999999999865

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.07  E-value=1e-05  Score=88.15  Aligned_cols=75  Identities=12%  Similarity=0.170  Sum_probs=44.9

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh-----Ccceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----EEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-----g~~~~~~~~~~~se~  426 (458)
                      .....|++++..+........+.....+.   ...+..++||||+|||||||+++||+++     |..++.++   +.++
T Consensus       282 ~~~~TFDnFvvG~sN~~A~aaa~avae~~---~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit---aeef  355 (617)
T PRK14086        282 NPKYTFDTFVIGASNRFAHAAAVAVAEAP---AKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS---SEEF  355 (617)
T ss_pred             CCCCCHhhhcCCCccHHHHHHHHHHHhCc---cccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee---HHHH
Confidence            45667888875554332221111111111   1223459999999999999999999987     34555555   5555


Q ss_pred             hhhhhh
Q 012671          427 MRYLIG  432 (458)
Q Consensus       427 ~~~~~g  432 (458)
                      +..++.
T Consensus       356 ~~el~~  361 (617)
T PRK14086        356 TNEFIN  361 (617)
T ss_pred             HHHHHH
Confidence            554443

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.06  E-value=3.5e-06  Score=90.65  Aligned_cols=53  Identities=23%  Similarity=0.236  Sum_probs=41.7

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|+||+||+.+...|..++..       +..+..+|||||||||||++|+++|..+..
T Consensus        10 P~~~~dvvGq~~v~~~L~~~i~~-------~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c   62 (504)
T PRK14963         10 PITFDEVVGQEHVKEVLLAALRQ-------GRLGHAYLFSGPRGVGKTTTARLIAMAVNC   62 (504)
T ss_pred             CCCHHHhcChHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            45799999999998877766543       122234699999999999999999998853

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.06  E-value=4.2e-06  Score=87.45  Aligned_cols=60  Identities=22%  Similarity=0.345  Sum_probs=44.8

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHh-hh-hhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATAN-TK-IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~-~~-~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..|++|+|++.+.+.|...+..... .. .....+..+|||||||||||++|+.+|..+..+
T Consensus         2 ~~f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~   63 (394)
T PRK07940          2 SVWDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCT   63 (394)
T ss_pred             ChhhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            4689999999999988777665331 11 111234579999999999999999999987543

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.06  E-value=4e-06  Score=94.20  Aligned_cols=54  Identities=20%  Similarity=0.223  Sum_probs=41.8

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ...|++|||++.+...|..++..       +..+..+|||||||||||++|+++|+.+++.
T Consensus        12 P~tFddIIGQe~Iv~~LknaI~~-------~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce   65 (944)
T PRK14949         12 PATFEQMVGQSHVLHALTNALTQ-------QRLHHAYLFTGTRGVGKTSLARLFAKGLNCE   65 (944)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHh-------CCCCeEEEEECCCCCCHHHHHHHHHHhccCc
Confidence            35899999999988876654332       1222346999999999999999999998764

>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=98.05  E-value=3.4e-06  Score=74.58  Aligned_cols=31  Identities=42%  Similarity=0.606  Sum_probs=29.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +|||+||||||||.+++.||..++.++..+.
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~   31 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRIN   31 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEE
Confidence            6899999999999999999999999988876

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=98.05  E-value=8.1e-06  Score=80.65  Aligned_cols=32  Identities=38%  Similarity=0.567  Sum_probs=30.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .++||+||||||||++|++||..+|.+++.+.
T Consensus        22 ~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~   53 (262)
T TIGR02640        22 YPVHLRGPAGTGKTTLAMHVARKRDRPVMLIN   53 (262)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEe
Confidence            58999999999999999999999999998876

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).

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.03  E-value=1.6e-05  Score=84.35  Aligned_cols=68  Identities=16%  Similarity=0.304  Sum_probs=42.3

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhh-hhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTK-IHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~-~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+...|++++..+........+.....+.. ..+.++.+++||||||||||||+.++++.+   |..++.++
T Consensus       105 ~~~~tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~  176 (445)
T PRK12422        105 DPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR  176 (445)
T ss_pred             CccccccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee
Confidence            466788888754443322222222211111 112345689999999999999999999876   56666665

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.03  E-value=9.8e-06  Score=83.16  Aligned_cols=62  Identities=16%  Similarity=0.116  Sum_probs=43.5

Q ss_pred             CCc-cccCChHHHHHHHHHHHHHHhhhhh-cCCCcceeeecCCCCChHHHHHHHHHHhCc-------ceeeecc
Q 012671          356 NNG-DIILHPSLQRRIQHLAKATANTKIH-QAPFRNMLFYGPPGTGKTMVAREIARKSEE-------MLHLLVH  420 (458)
Q Consensus       356 ~~~-dvi~~~~l~~~l~~l~~~~~~~~~~-~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~-------~~~~~~~  420 (458)
                      -|+ ++.|+.+....+-   .+......+ ....+-++|+||||||||+||.+|+..++.       ++|.+..
T Consensus        48 ~F~~~~~G~~~~i~~lv---~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       48 FFDHDFFGMEEAIERFV---NYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             ccchhccCcHHHHHHHH---HHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            455 7888877655433   332222222 223457889999999999999999999987       8888874

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.02  E-value=1.4e-05  Score=80.48  Aligned_cols=71  Identities=20%  Similarity=0.278  Sum_probs=51.2

Q ss_pred             ccCChHHHHHHHHHHHHHHhh------hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhh
Q 012671          360 IILHPSLQRRIQHLAKATANT------KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~------~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~g  432 (458)
                      ||||.+.++.+.-..+..|-.      -++..-|+|+|+.||+|+|||.+|+.||...|.||+.+-...+.+.  +|+|
T Consensus        17 IIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATKfTEV--GYVG   93 (444)
T COG1220          17 IIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEV--GYVG   93 (444)
T ss_pred             hcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeeeeeec--cccc
Confidence            899999998664333322211      1223557999999999999999999999999999999864333332  5666

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.02  E-value=5.6e-06  Score=89.61  Aligned_cols=53  Identities=21%  Similarity=0.262  Sum_probs=41.1

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|++|+|++.+...+...+..       +..+..+|||||||||||++|+.+|..++.
T Consensus        12 P~~f~diiGq~~~v~~L~~~i~~-------~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c   64 (546)
T PRK14957         12 PQSFAEVAGQQHALNSLVHALET-------QKVHHAYLFTGTRGVGKTTLGRLLAKCLNC   64 (546)
T ss_pred             cCcHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35799999999988876544432       222345899999999999999999998764

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.01  E-value=5.3e-06  Score=91.33  Aligned_cols=55  Identities=22%  Similarity=0.277  Sum_probs=43.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ....|+||||++.+.+.|...+..       +..+.++|||||||||||++|++||+.+++.
T Consensus        11 RP~tFddIIGQe~vv~~L~~ai~~-------~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~   65 (709)
T PRK08691         11 RPKTFADLVGQEHVVKALQNALDE-------GRLHHAYLLTGTRGVGKTTIARILAKSLNCE   65 (709)
T ss_pred             CCCCHHHHcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence            345899999999988877655442       2334578999999999999999999987653

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.00  E-value=5.8e-06  Score=89.52  Aligned_cols=53  Identities=25%  Similarity=0.338  Sum_probs=41.6

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|++|+|++.+.+.+...+..       +..+..+|||||||||||++|+.+|..+++
T Consensus        12 P~~f~divGq~~v~~~L~~~i~~-------~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   64 (527)
T PRK14969         12 PKSFSELVGQEHVVRALTNALEQ-------QRLHHAYLFTGTRGVGKTTLARILAKSLNC   64 (527)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHc-------CCCCEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            35799999999988876654432       222335799999999999999999999865

>PRK05642 DNA replication initiation factor; Validated

Probab=97.97  E-value=4e-05  Score=74.52  Aligned_cols=65  Identities=8%  Similarity=0.030  Sum_probs=38.3

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+..+|++++.... ...+..+..+..  .....+..+++||||+|||||||+.++|+++   |..++.++
T Consensus        13 ~~~~tfdnF~~~~~-~~a~~~~~~~~~--~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~   80 (234)
T PRK05642         13 RDDATFANYYPGAN-AAALGYVERLCE--ADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP   80 (234)
T ss_pred             CCcccccccCcCCh-HHHHHHHHHHhh--ccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee
Confidence            45667887773332 112222222211  1112234689999999999999999999764   44444444

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.96  E-value=8e-06  Score=89.16  Aligned_cols=53  Identities=25%  Similarity=0.290  Sum_probs=41.1

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|++|+||+.+.+.|...+..       +..+.-+|||||+|||||++|+++|+.++.
T Consensus         9 P~~f~eivGq~~i~~~L~~~i~~-------~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   61 (584)
T PRK14952          9 PATFAEVVGQEHVTEPLSSALDA-------GRINHAYLFSGPRGCGKTSSARILARSLNC   61 (584)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            45799999999988877655432       111223799999999999999999998764

>PHA02244 ATPase-like protein

Probab=97.96  E-value=1.7e-05  Score=81.67  Aligned_cols=33  Identities=21%  Similarity=0.335  Sum_probs=30.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      .+|||+||||||||++|++||..+|.+|+.++.
T Consensus       120 ~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~  152 (383)
T PHA02244        120 IPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNA  152 (383)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEEEec
Confidence            489999999999999999999999999998873

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.95  E-value=8.8e-06  Score=88.60  Aligned_cols=52  Identities=23%  Similarity=0.307  Sum_probs=40.6

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..|++++|++.+...+......       +..+..+|||||||||||++|+.+|..+.
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~-------~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~   63 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILN-------NKLTHAYIFSGPRGIGKTSIAKIFAKAIN   63 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            44799999999988766543321       23335799999999999999999999875

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.95  E-value=1.1e-05  Score=82.44  Aligned_cols=53  Identities=28%  Similarity=0.377  Sum_probs=41.3

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ....|++++|++.+...+...+..       +..+..+|||||||+|||++|++++..+.
T Consensus         9 rp~~~~~iig~~~~~~~l~~~~~~-------~~~~~~~Ll~G~~G~GKt~~a~~la~~l~   61 (355)
T TIGR02397         9 RPQTFEDVIGQEHIVQTLKNAIKN-------GRIAHAYLFSGPRGTGKTSIARIFAKALN   61 (355)
T ss_pred             CCCcHhhccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            345789999999988876654422       23345789999999999999999998874

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.94  E-value=9.2e-06  Score=88.80  Aligned_cols=54  Identities=20%  Similarity=0.312  Sum_probs=42.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ....|+||||++.+.+.|..++...       .....+||+||+|||||++|+.||+.+++
T Consensus        11 RPqtFddVIGQe~vv~~L~~al~~g-------RLpHA~LFtGP~GvGKTTLAriLAkaLnC   64 (700)
T PRK12323         11 RPRDFTTLVGQEHVVRALTHALEQQ-------RLHHAYLFTGTRGVGKTTLSRILAKSLNC   64 (700)
T ss_pred             CCCcHHHHcCcHHHHHHHHHHHHhC-------CCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            3457999999999988776554431       22235799999999999999999999876

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=97.93  E-value=1.7e-05  Score=87.36  Aligned_cols=88  Identities=22%  Similarity=0.252  Sum_probs=56.9

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcce-e-e--eccc---cchhh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEML-H-L--LVHR---LLPRS  426 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~-~-~--~~~~---~~se~  426 (458)
                      ..-|++|+|+.++...+...+..          .+|++|+||||||||++|++++..++.+. + .  +...   ..+-+
T Consensus        14 ~~~~~~viG~~~a~~~l~~a~~~----------~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~~~~~~~   83 (608)
T TIGR00764        14 ERLIDQVIGQEEAVEIIKKAAKQ----------KRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPEDPNMPRI   83 (608)
T ss_pred             hhhHhhccCHHHHHHHHHHHHHc----------CCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCCCchHHH
Confidence            34678899999988877655432          24999999999999999999999997652 1 1  1111   11223


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhcCCc
Q 012671          427 MRYLIGRRNQRKACCFLLTRLMHFYASA  454 (458)
Q Consensus       427 ~~~~~ge~~~~~~~i~~lf~~a~~~~p~  454 (458)
                      ..-+.|...++..   ..|..+++..|+
T Consensus        84 ~~v~~~~g~~~~~---~~~~~~~~~~~~  108 (608)
T TIGR00764        84 VEVPAGEGREIVE---DYKKKAFKQPSS  108 (608)
T ss_pred             HHHHHhhchHHHH---HHHHHhhcccch
Confidence            3344444544433   456666666654

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.93  E-value=1e-05  Score=88.77  Aligned_cols=53  Identities=19%  Similarity=0.291  Sum_probs=41.3

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|++|||++.+.+.|..+....       ..+..+|||||+|||||++|++||+.+++
T Consensus        12 P~~f~dviGQe~vv~~L~~~l~~~-------rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC   64 (618)
T PRK14951         12 PRSFSEMVGQEHVVQALTNALTQQ-------RLHHAYLFTGTRGVGKTTVSRILAKSLNC   64 (618)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcC-------CCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            358999999999888776554431       22235799999999999999999998864

>PRK08727 hypothetical protein; Validated

Probab=97.92  E-value=6e-06  Score=80.16  Aligned_cols=52  Identities=25%  Similarity=0.300  Sum_probs=33.9

Q ss_pred             CCCCCCccccCChHH-HHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          352 EAIKNNGDIILHPSL-QRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l-~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+...|+++++.+.. ...+..++.        +.....++||||||||||||++++|..+
T Consensus        13 ~~~~~f~~f~~~~~n~~~~~~~~~~--------~~~~~~l~l~G~~G~GKThL~~a~~~~~   65 (233)
T PRK08727         13 PSDQRFDSYIAAPDGLLAQLQALAA--------GQSSDWLYLSGPAGTGKTHLALALCAAA   65 (233)
T ss_pred             CCcCChhhccCCcHHHHHHHHHHHh--------ccCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            355578877765542 122222211        1223459999999999999999998775

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.92  E-value=1.1e-05  Score=87.97  Aligned_cols=52  Identities=25%  Similarity=0.374  Sum_probs=41.4

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..|++|+|++.+.+.+...+..       +.....+|||||||||||++|+.+|..++
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~-------~~~~hayLf~Gp~GtGKTt~Ak~lAkal~   63 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQ-------GKISHAYLFSGPRGTGKTSAAKIFAKAVN   63 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            45799999999988877655443       22334689999999999999999999875

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.91  E-value=1.2e-05  Score=85.61  Aligned_cols=53  Identities=23%  Similarity=0.275  Sum_probs=41.3

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|+||+|++.+...+...+..       +..+..+|||||||||||++|+++|..+..
T Consensus        13 P~~~~diiGq~~~v~~L~~~i~~-------~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c   65 (451)
T PRK06305         13 PQTFSEILGQDAVVAVLKNALRF-------NRAAHAYLFSGIRGTGKTTLARIFAKALNC   65 (451)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCceEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            35899999999988766654432       223347899999999999999999998753

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.90  E-value=1e-05  Score=89.53  Aligned_cols=54  Identities=22%  Similarity=0.308  Sum_probs=41.7

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ....|++||||+.+.+.|...+..       +.....+|||||+|||||++|+.||+.+++
T Consensus        11 RPqtFdEVIGQe~Vv~~L~~aL~~-------gRL~HAyLFtGPpGvGKTTlAriLAKaLnC   64 (830)
T PRK07003         11 RPKDFASLVGQEHVVRALTHALDG-------GRLHHAYLFTGTRGVGKTTLSRIFAKALNC   64 (830)
T ss_pred             CCCcHHHHcCcHHHHHHHHHHHhc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            345799999999988877654322       222335799999999999999999998865

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.89  E-value=1.7e-05  Score=81.02  Aligned_cols=40  Identities=33%  Similarity=0.517  Sum_probs=31.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~  430 (458)
                      .|++||||||||||||+.+||.++   |..++.++   .++++..+
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t---~~~l~~~l  226 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT---ADELIEIL  226 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE---HHHHHHHH
Confidence            699999999999999999999987   55555555   55555544

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.89  E-value=1.2e-05  Score=88.26  Aligned_cols=53  Identities=25%  Similarity=0.281  Sum_probs=41.3

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|++|+||+.+...|...+..       +.-+..+|||||||||||++|+.+|+.+++
T Consensus        12 P~~f~eivGQe~i~~~L~~~i~~-------~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c   64 (620)
T PRK14954         12 PSKFADITAQEHITHTIQNSLRM-------DRVGHGYIFSGLRGVGKTTAARVFAKAVNC   64 (620)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            45799999999988876553322       122236999999999999999999999876

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.88  E-value=1.3e-05  Score=88.35  Aligned_cols=54  Identities=19%  Similarity=0.244  Sum_probs=41.8

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ...|++|||++.+.+.|...+..       +.....+|||||||||||++|+.+|+.+++.
T Consensus        12 P~~f~divGQe~vv~~L~~~l~~-------~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~   65 (647)
T PRK07994         12 PQTFAEVVGQEHVLTALANALDL-------GRLHHAYLFSGTRGVGKTTIARLLAKGLNCE   65 (647)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhhhhc
Confidence            35899999999988877654432       1122346999999999999999999998763

>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=97.88  E-value=1.1e-05  Score=69.37  Aligned_cols=31  Identities=29%  Similarity=0.564  Sum_probs=28.0

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      |++.||||+|||++|+.|+..+|+.++.+..
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d~   32 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMDD   32 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence            6889999999999999999999988877663

...

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.88  E-value=1.3e-05  Score=89.07  Aligned_cols=54  Identities=30%  Similarity=0.383  Sum_probs=42.1

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..|++|+||+.+.+.|...+..       +..+..+|||||||||||++|+.+|..+.+
T Consensus        13 RP~~f~dIiGQe~~v~~L~~aI~~-------~rl~HAYLF~GP~GtGKTt~AriLAk~LnC   66 (725)
T PRK07133         13 RPKTFDDIVGQDHIVQTLKNIIKS-------NKISHAYLFSGPRGTGKTSVAKIFANALNC   66 (725)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence            345799999999988876655432       223346899999999999999999998765

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.88  E-value=1.4e-05  Score=87.65  Aligned_cols=53  Identities=21%  Similarity=0.317  Sum_probs=41.2

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|++|||++.+.+.|...+..       +.....+|||||||||||++|+.+|..++.
T Consensus        12 P~~~~eiiGq~~~~~~L~~~i~~-------~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c   64 (585)
T PRK14950         12 SQTFAELVGQEHVVQTLRNAIAE-------GRVAHAYLFTGPRGVGKTSTARILAKAVNC   64 (585)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHh-------CCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            45799999999988877654432       112236799999999999999999998753

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

Probab=97.87  E-value=5.7e-05  Score=72.73  Aligned_cols=56  Identities=25%  Similarity=0.369  Sum_probs=32.4

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..+|+++|..+.....+. .+.....  .....+..+++|||+|+|||||..+++++.
T Consensus         3 ~~~tFdnfv~g~~N~~a~~-~~~~ia~--~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~   58 (219)
T PF00308_consen    3 PKYTFDNFVVGESNELAYA-AAKAIAE--NPGERYNPLFLYGPSGLGKTHLLQAIANEA   58 (219)
T ss_dssp             TT-SCCCS--TTTTHHHHH-HHHHHHH--STTTSSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCccccCCcCCcHHHHHH-HHHHHHh--cCCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4557887764443222222 1111111  112234468999999999999999999875

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.87  E-value=1.5e-05  Score=87.48  Aligned_cols=54  Identities=22%  Similarity=0.266  Sum_probs=43.0

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ...|++|+|++.+.+.|......       +..+..+|||||||||||++|++||+.+++.
T Consensus        20 P~~f~dliGq~~~v~~L~~~~~~-------gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~   73 (598)
T PRK09111         20 PQTFDDLIGQEAMVRTLTNAFET-------GRIAQAFMLTGVRGVGKTTTARILARALNYE   73 (598)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence            45899999999888877654332       2334579999999999999999999998654

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=97.86  E-value=1e-05  Score=82.13  Aligned_cols=33  Identities=24%  Similarity=0.197  Sum_probs=31.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .++|||.||||||||++++.||..+|++++.+.
T Consensus        64 ~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~   96 (327)
T TIGR01650        64 DRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVN   96 (327)
T ss_pred             CCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEE
Confidence            468999999999999999999999999999886

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.

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

Probab=97.86  E-value=1.6e-05  Score=77.39  Aligned_cols=61  Identities=18%  Similarity=0.253  Sum_probs=42.7

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +...+++++|.+.-++.|.   ..+... ..+.|..|+||||++|||||+++++|..+....-+.
T Consensus        22 ~~~~l~~L~Gie~Qk~~l~---~Nt~~F-l~G~pannvLL~G~rGtGKSSlVkall~~y~~~GLR   82 (249)
T PF05673_consen   22 DPIRLDDLIGIERQKEALI---ENTEQF-LQGLPANNVLLWGARGTGKSSLVKALLNEYADQGLR   82 (249)
T ss_pred             CCCCHHHhcCHHHHHHHHH---HHHHHH-HcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcCce
Confidence            5567888888776555433   222111 234677899999999999999999999987544333

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.85  E-value=1.6e-05  Score=86.97  Aligned_cols=53  Identities=25%  Similarity=0.307  Sum_probs=41.6

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|++|+|++++.+.|...+..       +..+..+|||||||||||++|+++|..++.
T Consensus        12 P~~f~~iiGq~~v~~~L~~~i~~-------~~~~hayLf~Gp~G~GKtt~A~~lak~l~c   64 (576)
T PRK14965         12 PQTFSDLTGQEHVSRTLQNAIDT-------GRVAHAFLFTGARGVGKTSTARILAKALNC   64 (576)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence            35899999999988777654432       223346799999999999999999999864

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.84  E-value=1.7e-05  Score=86.49  Aligned_cols=53  Identities=23%  Similarity=0.283  Sum_probs=42.0

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|++|+||+.+...+...+..       +..+..+|||||||||||++|+++|+.++.
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~-------~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c   64 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIES-------NKIANAYIFSGPRGVGKTSSARAFARCLNC   64 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhhcc
Confidence            45799999999988877655432       222346999999999999999999998864

>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=97.83  E-value=9e-06  Score=71.66  Aligned_cols=31  Identities=32%  Similarity=0.520  Sum_probs=23.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ||||.|+||+|||++|++||..+|.+|..|-
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq   31 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQ   31 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEE
Confidence            6899999999999999999999999998764

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.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.82  E-value=1.9e-05  Score=86.39  Aligned_cols=54  Identities=20%  Similarity=0.263  Sum_probs=42.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ....|++|+|++.+.+.|...+..       +.-..++|||||||||||++|+.||+.++.
T Consensus        11 RP~sf~dIiGQe~v~~~L~~ai~~-------~ri~ha~Lf~GPpG~GKTtiArilAk~L~C   64 (624)
T PRK14959         11 RPQTFAEVAGQETVKAILSRAAQE-------NRVAPAYLFSGTRGVGKTTIARIFAKALNC   64 (624)
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence            345799999999988777655432       111248999999999999999999999875

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=97.81  E-value=1.6e-05  Score=81.37  Aligned_cols=51  Identities=20%  Similarity=0.238  Sum_probs=38.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ....|++|+|+++++..+.-.+..   .     ...|+||+||||||||++|++|+..+
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~---~-----~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAID---P-----GIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhc---c-----CCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            345788999999887765422111   1     12489999999999999999999998

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.80  E-value=1.9e-05  Score=71.81  Aligned_cols=33  Identities=21%  Similarity=0.234  Sum_probs=29.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ++.+|+|+||||||||++|+.||..+|.+++..
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l~~~~~d~   35 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDT   35 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            456899999999999999999999999988764

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.78  E-value=2.4e-05  Score=88.64  Aligned_cols=54  Identities=24%  Similarity=0.278  Sum_probs=41.5

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ....|++||||+.+.+.|...+..       +.....+|||||+|||||++|+.||+.+++
T Consensus        10 RP~~f~eiiGqe~v~~~L~~~i~~-------~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C   63 (824)
T PRK07764         10 RPATFAEVIGQEHVTEPLSTALDS-------GRINHAYLFSGPRGCGKTSSARILARSLNC   63 (824)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHh-------CCCCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence            345799999999988876655432       111224899999999999999999999864

>PRK06921 hypothetical protein; Provisional

Probab=97.78  E-value=4.4e-05  Score=75.73  Aligned_cols=33  Identities=21%  Similarity=0.311  Sum_probs=27.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      ..+++|+||||||||||+.+||+++    |..++.++
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            5689999999999999999999986    44555554

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.78  E-value=7.4e-05  Score=79.51  Aligned_cols=73  Identities=12%  Similarity=0.196  Sum_probs=44.1

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh-----Ccceeeeccccchhhhh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----EEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-----g~~~~~~~~~~~se~~~  428 (458)
                      ...|++++..+.....+......   ....+.++.+++||||||||||||+.++++++     +..++.++   ..+++.
T Consensus       111 ~~tFdnFv~g~~n~~A~~aa~~~---a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~---~~~f~~  184 (450)
T PRK14087        111 ENTFENFVIGSSNEQAFIAVQTV---SKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS---GDEFAR  184 (450)
T ss_pred             ccchhcccCCCcHHHHHHHHHHH---HhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE---HHHHHH
Confidence            46788777555432222211111   11223345679999999999999999999965     34555555   455555


Q ss_pred             hhhh
Q 012671          429 YLIG  432 (458)
Q Consensus       429 ~~~g  432 (458)
                      .+..
T Consensus       185 ~~~~  188 (450)
T PRK14087        185 KAVD  188 (450)
T ss_pred             HHHH
Confidence            4443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.77  E-value=3e-05  Score=77.82  Aligned_cols=50  Identities=32%  Similarity=0.563  Sum_probs=38.6

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..|++++++.+....+...+..      +.  ..++|||||||||||+++++++..+.
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~------~~--~~~~ll~G~~G~GKt~~~~~l~~~l~   63 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKE------KN--MPHLLFAGPPGTGKTTAALALARELY   63 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhC------CC--CCeEEEECCCCCCHHHHHHHHHHHHc
Confidence            5788899998877766544321      11  23799999999999999999999873

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.77  E-value=2.9e-05  Score=80.32  Aligned_cols=44  Identities=27%  Similarity=0.466  Sum_probs=35.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-hhhhhh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-YLIGRR  434 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-~~~ge~  434 (458)
                      .||||.||+|+|||+||+.||+.++.||++-.   +..+-. +|+|+-
T Consensus       227 SNvLllGPtGsGKTllaqTLAr~ldVPfaIcD---cTtLTQAGYVGeD  271 (564)
T KOG0745|consen  227 SNVLLLGPTGSGKTLLAQTLARVLDVPFAICD---CTTLTQAGYVGED  271 (564)
T ss_pred             ccEEEECCCCCchhHHHHHHHHHhCCCeEEec---ccchhhccccccc
Confidence            49999999999999999999999999998855   433332 666643

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

Probab=97.77  E-value=4.8e-05  Score=80.24  Aligned_cols=27  Identities=44%  Similarity=0.744  Sum_probs=24.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+|++|+||||||||++|+.||..++.
T Consensus       194 ~~~iil~GppGtGKT~lA~~la~~l~~  220 (459)
T PRK11331        194 KKNIILQGPPGVGKTFVARRLAYLLTG  220 (459)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhcC
Confidence            369999999999999999999998853

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.76  E-value=2.8e-05  Score=83.47  Aligned_cols=54  Identities=30%  Similarity=0.340  Sum_probs=40.7

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..|++++|++.+...+...+..       +.....+|||||||||||++|+.+|..++.
T Consensus        11 RP~~f~diiGq~~i~~~L~~~i~~-------~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c   64 (486)
T PRK14953         11 RPKFFKEVIGQEIVVRILKNAVKL-------QRVSHAYIFAGPRGTGKTTIARILAKVLNC   64 (486)
T ss_pred             CCCcHHHccChHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            345799999999988866544322       122235789999999999999999998763

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.76  E-value=3.1e-05  Score=85.40  Aligned_cols=54  Identities=22%  Similarity=0.305  Sum_probs=43.2

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ....|++++|++.+...|..++...       .-..++|||||||||||++|+++|+.++.
T Consensus        11 RP~~f~~liGq~~i~~~L~~~l~~~-------rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c   64 (620)
T PRK14948         11 RPQRFDELVGQEAIATTLKNALISN-------RIAPAYLFTGPRGTGKTSSARILAKSLNC   64 (620)
T ss_pred             CCCcHhhccChHHHHHHHHHHHHcC-------CCCceEEEECCCCCChHHHHHHHHHHhcC
Confidence            3457999999999888776655431       12248999999999999999999999876

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=97.76  E-value=0.00016  Score=74.21  Aligned_cols=51  Identities=22%  Similarity=0.359  Sum_probs=34.5

Q ss_pred             ccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +++++.+.-.+.|.........    +..+.++++|||||||||++++.++.++.
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~----~~~~~~i~I~G~~GtGKT~l~~~~~~~l~   65 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILR----GSRPSNVFIYGKTGTGKTAVTKYVMKELE   65 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHc----CCCCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence            3567766555544443332211    23346899999999999999999998763

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.

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.74  E-value=3.2e-05  Score=83.50  Aligned_cols=52  Identities=27%  Similarity=0.286  Sum_probs=41.0

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..|++|+||+.+.+.+...+..       +..+..+|||||||||||++|++++..+.
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~-------grl~hayLf~Gp~G~GKTt~Ar~LAk~L~   61 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDN-------NRLAHAYLFSGLRGSGKTSSARIFARALV   61 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-------CCCCeeEEEECCCCCcHHHHHHHHHHHhc
Confidence            45899999999998877655432       22234569999999999999999999874

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.73  E-value=0.00017  Score=74.94  Aligned_cols=35  Identities=31%  Similarity=0.561  Sum_probs=28.4

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh-----Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS-----EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~-----g~~~~~~~  419 (458)
                      ..+.++++|||||||||++++.++.++     +..++.++
T Consensus        53 ~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in   92 (394)
T PRK00411         53 SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYIN   92 (394)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEE
Confidence            344689999999999999999999887     45565555

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=97.71  E-value=5.5e-05  Score=74.90  Aligned_cols=69  Identities=20%  Similarity=0.259  Sum_probs=50.6

Q ss_pred             ccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC--cceeeeccccchhhhhhhhh
Q 012671          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE--EMLHLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g--~~~~~~~~~~~se~~~~~~g  432 (458)
                      +.+||+....+...-+.......+.   ..|.+||.||||||||-||-++++++|  .+|.-|+   +|+..+.-+.
T Consensus        38 ~g~vGQ~~AReAagiivdlik~Kkm---aGravLlaGppgtGKTAlAlaisqELG~kvPFcpmv---gSEvyS~EvK  108 (456)
T KOG1942|consen   38 AGFVGQENAREAAGIIVDLIKSKKM---AGRAVLLAGPPGTGKTALALAISQELGPKVPFCPMV---GSEVYSNEVK  108 (456)
T ss_pred             cccccchhhhhhhhHHHHHHHhhhc---cCcEEEEecCCCCchhHHHHHHHHHhCCCCCccccc---chhhhhhhhh
Confidence            3478888877765544444433333   357999999999999999999999997  6888888   6666554333

>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=97.70  E-value=7.2e-05  Score=65.95  Aligned_cols=23  Identities=35%  Similarity=0.904  Sum_probs=22.0

Q ss_pred             eeeecCCCCChHHHHHHHHHHhC
Q 012671          390 MLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      |+|+||||+|||++|+.|+..++
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC
Confidence            68999999999999999999998

...

>PHA00729 NTP-binding motif containing protein

Probab=97.70  E-value=2.3e-05  Score=75.72  Aligned_cols=26  Identities=35%  Similarity=0.575  Sum_probs=24.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +.|++++|||||||||||.+|+..++
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35999999999999999999999876

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.68  E-value=0.00018  Score=63.31  Aligned_cols=49  Identities=24%  Similarity=0.313  Sum_probs=34.5

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCccee--eecCCCCChHHHHHHHHHHh
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNML--FYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvL--l~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.||+-+.+.+-..+......   ..|.+.++  |+||||||||++++.||..+
T Consensus        27 l~GQhla~~~v~~ai~~~l~~---~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   27 LFGQHLAVEVVVNAIKGHLAN---PNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             ccCcHHHHHHHHHHHHHHHcC---CCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            788888777554444333221   24444444  89999999999999999996

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

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.68  E-value=3.3e-05  Score=65.85  Aligned_cols=43  Identities=26%  Similarity=0.468  Sum_probs=30.5

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcce------eeeccccchhhhhhhhh
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEML------HLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~------~~~~~~~~se~~~~~~g  432 (458)
                      |.||||||||||++|..|+..+...+      ....+....++.++|.|
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~~~w~gY~~   49 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGDKFWDGYQG   49 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCccchhhccCC
Confidence            57999999999999999887765221      11123446777777777

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

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

Probab=97.64  E-value=7.1e-05  Score=80.45  Aligned_cols=69  Identities=26%  Similarity=0.385  Sum_probs=57.8

Q ss_pred             hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          383 HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       383 ~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +..|++++++|||||||||+++++++.. +..+..+.   .+..+.+++|....   ..+.+|..++.+.|+|||+
T Consensus        14 ~~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~---~~~~~~~~~~~~~~---~~~~~~~~a~~~~~~ii~~   82 (494)
T COG0464          14 GIEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSIN---GPEILSKYVGESEL---RLRELFEEAEKLAPSIIFI   82 (494)
T ss_pred             CCCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccC---cchhhhhhhhHHHH---HHHHHHHHHHHhCCCeEee
Confidence            4578899999999999999999999999 55553444   89999999998754   4567888899999999985

>PRK09087 hypothetical protein; Validated

Probab=97.64  E-value=7.8e-05  Score=72.20  Aligned_cols=61  Identities=21%  Similarity=0.291  Sum_probs=38.9

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .+..+|++++..+.....+..+..+.      ..+...++||||||||||||++++|...+..|+..
T Consensus        15 ~~~~~~~~Fi~~~~N~~a~~~l~~~~------~~~~~~l~l~G~~GsGKThLl~~~~~~~~~~~i~~   75 (226)
T PRK09087         15 DPAYGRDDLLVTESNRAAVSLVDHWP------NWPSPVVVLAGPVGSGKTHLASIWREKSDALLIHP   75 (226)
T ss_pred             CCCCChhceeecCchHHHHHHHHhcc------cCCCCeEEEECCCCCCHHHHHHHHHHhcCCEEecH
Confidence            35557888885443233333222211      11223489999999999999999998877666543

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

Probab=97.63  E-value=8.3e-05  Score=80.99  Aligned_cols=91  Identities=15%  Similarity=0.146  Sum_probs=59.9

Q ss_pred             ccccCChHHHHHHHH-HHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc-eeeeccccchhhhhhhhhhhh
Q 012671          358 GDIILHPSLQRRIQH-LAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM-LHLLVHRLLPRSMRYLIGRRN  435 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~-l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~-~~~~~~~~~se~~~~~~ge~~  435 (458)
                      .|++.-+..++.... ....       .....||||+||+|||||.|+++|+.+...+ ++++...+++.+-.+-+-   
T Consensus       408 ~d~i~~~s~kke~~n~~~sp-------v~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e---  477 (952)
T KOG0735|consen  408 HDFIQVPSYKKENANQELSP-------VFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLE---  477 (952)
T ss_pred             Cceeecchhhhhhhhhhccc-------ccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHH---
Confidence            356666666663322 1111       2234599999999999999999999998644 444555557665544322   


Q ss_pred             hhhhhhHHHHHHhhhcCCceeeC
Q 012671          436 QRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       436 ~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++...+-..|.++.-++|+||++
T Consensus       478 ~iQk~l~~vfse~~~~~PSiIvL  500 (952)
T KOG0735|consen  478 KIQKFLNNVFSEALWYAPSIIVL  500 (952)
T ss_pred             HHHHHHHHHHHHHHhhCCcEEEE
Confidence            23335556777899999999974

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.63  E-value=8.2e-05  Score=80.35  Aligned_cols=62  Identities=19%  Similarity=0.306  Sum_probs=42.6

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ...+|+..++.-   +.++..|.........+.+-+||+||||||||++.+.||.++|..+....
T Consensus        16 ~~~~eLavhkkK---v~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew~   77 (519)
T PF03215_consen   16 KTLDELAVHKKK---VEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEWI   77 (519)
T ss_pred             CCHHHhhccHHH---HHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEec
Confidence            356667777643   33333443332233334456778999999999999999999999887753

>PRK13947 shikimate kinase; Provisional

Probab=97.59  E-value=5.5e-05  Score=69.16  Aligned_cols=31  Identities=29%  Similarity=0.334  Sum_probs=28.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .||++.||||||||++++.||..+|.+|+..
T Consensus         2 ~~I~l~G~~GsGKst~a~~La~~lg~~~id~   32 (171)
T PRK13947          2 KNIVLIGFMGTGKTTVGKRVATTLSFGFIDT   32 (171)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            4899999999999999999999999998764

>PRK08118 topology modulation protein; Reviewed

Probab=97.58  E-value=5.4e-05  Score=69.83  Aligned_cols=32  Identities=28%  Similarity=0.547  Sum_probs=28.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..|+++||||+|||++|+.|+..+|++++.+.
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD   33 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLD   33 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecc
Confidence            36899999999999999999999999977765

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.56  E-value=9.3e-05  Score=78.74  Aligned_cols=44  Identities=20%  Similarity=0.318  Sum_probs=33.6

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      |+|.+++.+.+...+..          ..|+||+||||||||++|++|+..++.
T Consensus        22 i~gre~vI~lll~aala----------g~hVLL~GpPGTGKT~LAraLa~~~~~   65 (498)
T PRK13531         22 LYERSHAIRLCLLAALS----------GESVFLLGPPGIAKSLIARRLKFAFQN   65 (498)
T ss_pred             ccCcHHHHHHHHHHHcc----------CCCEEEECCCChhHHHHHHHHHHHhcc
Confidence            67777766655433222          359999999999999999999998754

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=97.56  E-value=6.2e-05  Score=67.25  Aligned_cols=31  Identities=32%  Similarity=0.350  Sum_probs=28.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +|+|+||||+|||++|+.|+..+|++++...
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~~~~d   31 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVDLD   31 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            6899999999999999999999999887643

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.

>PRK14532 adenylate kinase; Provisional

Probab=97.54  E-value=6.3e-05  Score=70.06  Aligned_cols=30  Identities=23%  Similarity=0.531  Sum_probs=27.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +++|+||||+|||++|+.||..+|+.++.+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~is~   31 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQLST   31 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEeC
Confidence            689999999999999999999999877654

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.54  E-value=0.00011  Score=79.77  Aligned_cols=51  Identities=25%  Similarity=0.395  Sum_probs=38.5

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ....|++++|+....+.+....        ....+.++|||||||||||++|++|...+
T Consensus        60 rp~~f~~iiGqs~~i~~l~~al--------~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        60 RPKSFDEIIGQEEGIKALKAAL--------CGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             CcCCHHHeeCcHHHHHHHHHHH--------hCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            3467999999998777665321        11224599999999999999999998753

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.

>PRK00625 shikimate kinase; Provisional

Probab=97.52  E-value=7.1e-05  Score=69.55  Aligned_cols=31  Identities=19%  Similarity=0.248  Sum_probs=28.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ||+|.|+||+|||++++.||..+|++|+.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D   32 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTD   32 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence            7999999999999999999999999887654

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.51  E-value=0.00017  Score=72.41  Aligned_cols=24  Identities=50%  Similarity=0.915  Sum_probs=23.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+|||||||||||.+|.+||+.++
T Consensus        26 alL~~Gp~G~Gktt~a~~lA~~l~   49 (325)
T COG0470          26 ALLFYGPPGVGKTTAALALAKELL   49 (325)
T ss_pred             eeeeeCCCCCCHHHHHHHHHHHHh
Confidence            499999999999999999999998

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.51  E-value=5.3e-05  Score=68.21  Aligned_cols=32  Identities=34%  Similarity=0.503  Sum_probs=30.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .|||+.|-||||||+++..||..+|+.|+.|+
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~~~~~i~is   39 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKTGLEYIEIS   39 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHhCCceEehh
Confidence            39999999999999999999999999998876

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=97.51  E-value=7.3e-05  Score=76.21  Aligned_cols=32  Identities=38%  Similarity=0.605  Sum_probs=30.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +++||-||||||||++|+.+|..+|.+|+.+.
T Consensus        44 ~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~   75 (329)
T COG0714          44 GHVLLEGPPGVGKTLLARALARALGLPFVRIQ   75 (329)
T ss_pred             CCEEEECCCCccHHHHHHHHHHHhCCCeEEEe
Confidence            59999999999999999999999999999876

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.50  E-value=0.00038  Score=70.55  Aligned_cols=56  Identities=20%  Similarity=0.241  Sum_probs=42.2

Q ss_pred             hHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          364 PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       364 ~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ++-.+.+..++...........|..+|+|.|+||||||++++.||..+|.+|+.+.
T Consensus       110 ~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        110 PAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             HHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            44444555565554444444567789999999999999999999999999998643

>PRK03839 putative kinase; Provisional

Probab=97.48  E-value=8.4e-05  Score=68.79  Aligned_cols=31  Identities=32%  Similarity=0.365  Sum_probs=28.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .|+|.||||+|||++++.||..+|.+++.+.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d   32 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLT   32 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            4889999999999999999999999887654

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.48  E-value=8.9e-05  Score=68.52  Aligned_cols=29  Identities=21%  Similarity=0.257  Sum_probs=26.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      |+++||||+|||++|+.||..+|+.++.+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~is~   30 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTHLSA   30 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            68899999999999999999999877665

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.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.46  E-value=0.00014  Score=79.47  Aligned_cols=67  Identities=22%  Similarity=0.271  Sum_probs=48.0

Q ss_pred             CCccccCChHHHH-HHHHHHHHHHhhhh------------------------hcCCC-cceeeecCCCCChHHHHHHHHH
Q 012671          356 NNGDIILHPSLQR-RIQHLAKATANTKI------------------------HQAPF-RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       356 ~~~dvi~~~~l~~-~l~~l~~~~~~~~~------------------------~~~p~-rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|.|+.+.+...+ .|.||..|+.....                        ...|. +-+||+||||-|||+||..+|+
T Consensus       269 ~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTTLAHViAk  348 (877)
T KOG1969|consen  269 KFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTTLAHVIAK  348 (877)
T ss_pred             HHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCChhHHHHHHHH
Confidence            5667777776666 56666665322111                        01333 4677899999999999999999


Q ss_pred             HhCcceeeecccc
Q 012671          410 KSEEMLHLLVHRL  422 (458)
Q Consensus       410 ~~g~~~~~~~~~~  422 (458)
                      ++|+.++.|+..|
T Consensus       349 qaGYsVvEINASD  361 (877)
T KOG1969|consen  349 QAGYSVVEINASD  361 (877)
T ss_pred             hcCceEEEecccc
Confidence            9999999998554

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

Probab=97.46  E-value=0.00016  Score=76.48  Aligned_cols=69  Identities=25%  Similarity=0.277  Sum_probs=50.2

Q ss_pred             cCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceee
Q 012671          384 QAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVY  457 (458)
Q Consensus       384 ~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iif  457 (458)
                      ..|..++||+||||+|||.||-.+|..++.||+.+.   .++.|-++.- ..+ -.++.-.|+.+.+..=+||.
T Consensus       535 ~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKii---Spe~miG~sE-saK-c~~i~k~F~DAYkS~lsiiv  603 (744)
T KOG0741|consen  535 RSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKII---SPEDMIGLSE-SAK-CAHIKKIFEDAYKSPLSIIV  603 (744)
T ss_pred             cCcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEe---ChHHccCccH-HHH-HHHHHHHHHHhhcCcceEEE
Confidence            456789999999999999999999999999999987   4554433322 322 34566667777655555554

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=97.46  E-value=0.00015  Score=67.05  Aligned_cols=32  Identities=22%  Similarity=0.283  Sum_probs=29.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .|++|.|++|+|||++.+.||+.+|++|+.+.
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D   34 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTD   34 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCcccch
Confidence            58999999999999999999999999998754

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.45  E-value=0.00014  Score=80.10  Aligned_cols=52  Identities=23%  Similarity=0.342  Sum_probs=40.7

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ...|++|+|++.+...|...+..       +..+..+|||||+|+|||++|+.+|..+.
T Consensus        13 P~~f~~viGq~~~~~~L~~~i~~-------~~l~hayLf~Gp~G~GKtt~A~~lAk~l~   64 (614)
T PRK14971         13 PSTFESVVGQEALTTTLKNAIAT-------NKLAHAYLFCGPRGVGKTTCARIFAKTIN   64 (614)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999988876554332       22234589999999999999999999875

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.45  E-value=0.00011  Score=80.87  Aligned_cols=62  Identities=19%  Similarity=0.344  Sum_probs=45.0

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .+..++++++++.....|..++...   .....+.+-++|+||||||||++++.||..++.++..
T Consensus        79 rP~~ldel~~~~~ki~~l~~~l~~~---~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~E  140 (637)
T TIGR00602        79 KPETQHELAVHKKKIEEVETWLKAQ---VLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQE  140 (637)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHhc---ccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHH
Confidence            4557889999998777655443322   1222333458899999999999999999999877644

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

>PRK14531 adenylate kinase; Provisional

Probab=97.44  E-value=0.00011  Score=68.54  Aligned_cols=31  Identities=29%  Similarity=0.463  Sum_probs=27.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|+++||||+|||++++.||..+|++++.+
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g~~~is~   33 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHGLRHLST   33 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeEec
Confidence            3699999999999999999999999887654

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.42  E-value=0.00018  Score=72.87  Aligned_cols=50  Identities=28%  Similarity=0.341  Sum_probs=38.1

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .|++|+|++.+.+.+......       +..+..+|||||+|+|||.+|+.++..+.
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~-------~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~   51 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIK-------NRFSHAHIIVGEDGIGKSLLAKEIALKIL   51 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHc-------CCCCceEEeECCCCCCHHHHHHHHHHHHc
Confidence            488999999887766544321       22234679999999999999999999763

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=97.41  E-value=0.00012  Score=75.28  Aligned_cols=53  Identities=13%  Similarity=0.164  Sum_probs=40.6

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .....|++|+|+++++..|...+..        ....++||+||+|||||++++.++..+.
T Consensus        11 ~~~~pf~~ivGq~~~k~al~~~~~~--------p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         11 RPVFPFTAIVGQEEMKLALILNVID--------PKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CCCCCHHHHhChHHHHHHHHHhccC--------CCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            3566899999999988866432222        1235899999999999999999988763

>PRK13949 shikimate kinase; Provisional

Probab=97.41  E-value=0.00012  Score=67.60  Aligned_cols=32  Identities=25%  Similarity=0.324  Sum_probs=29.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ++|+|+||||+|||++++.||..+|++++.+.
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~~~~id~D   33 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELGLSFIDLD   33 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence            47999999999999999999999999887754

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.40  E-value=0.00013  Score=67.87  Aligned_cols=30  Identities=33%  Similarity=0.492  Sum_probs=27.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|+++||||+|||++|+.||..+|..++.+
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~~~~~~i~~   30 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKKYGLPHIST   30 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            489999999999999999999999887664

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.38  E-value=0.00024  Score=78.54  Aligned_cols=50  Identities=24%  Similarity=0.393  Sum_probs=36.5

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ...|++++|+......+...+   .     ...+.+++|+||||||||++|+.|.+.+
T Consensus       150 p~~~~~iiGqs~~~~~l~~~i---a-----~~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       150 PRAFSEIVGQERAIKALLAKV---A-----SPFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             cCcHHhceeCcHHHHHHHHHH---h-----cCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            347888999887666543221   1     1123589999999999999999998765

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.37  E-value=0.00024  Score=73.69  Aligned_cols=53  Identities=19%  Similarity=0.239  Sum_probs=40.8

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+..|++|+||+.+.+.+......       +..+..+||+||+|+||+++|.++|+.+-
T Consensus        14 ~P~~~~~iiGq~~~~~~L~~~~~~-------~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Ll   66 (365)
T PRK07471         14 HPRETTALFGHAAAEAALLDAYRS-------GRLHHAWLIGGPQGIGKATLAYRMARFLL   66 (365)
T ss_pred             CCCchhhccChHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence            344788899999988877644333       22233699999999999999999999874

>PTZ00121 MAEBL; Provisional

Probab=97.35  E-value=0.042  Score=64.09  Aligned_cols=21  Identities=10%  Similarity=0.031  Sum_probs=15.4

Q ss_pred             eeecCCCCChHH-HHHHHHHHh
Q 012671          391 LFYGPPGTGKTM-VAREIARKS  411 (458)
Q Consensus       391 Ll~GPPGTGKT~-lAkaLA~~~  411 (458)
                      +++|+.--.+|- ||+.|+..|
T Consensus      1961 issgtCS~eerk~LCCSISdYC 1982 (2084)
T PTZ00121       1961 ISSGNCSDEERKELCCSISDFC 1982 (2084)
T ss_pred             cCCCCCChhhhhchhhhHHHHH
Confidence            347777777775 888888766

>PRK13948 shikimate kinase; Provisional

Probab=97.34  E-value=0.0002  Score=67.14  Aligned_cols=35  Identities=23%  Similarity=0.191  Sum_probs=31.3

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .++++|+|.|++|||||++++.||..+|.+|+...
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D   42 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALMLHFIDTD   42 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence            45689999999999999999999999999987644

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.33  E-value=0.00029  Score=76.22  Aligned_cols=61  Identities=16%  Similarity=0.171  Sum_probs=41.2

Q ss_pred             CCccccCChHHHHHHHHHH-HHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC-cceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLA-KATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE-EMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~-~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g-~~~~~~~  419 (458)
                      -|+|+.|..+...++-... ......   ....+-++|+||||+|||+||++|+..+. .++|.+.
T Consensus        74 fF~d~yGlee~ieriv~~l~~Aa~gl---~~~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~k  136 (644)
T PRK15455         74 AFEEFYGMEEAIEQIVSYFRHAAQGL---EEKKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLK  136 (644)
T ss_pred             chhcccCcHHHHHHHHHHHHHHHHhc---CCCCceEEEecCCCCCchHHHHHHHHHHHhCcceeec
Confidence            5777888877766543333 222221   23345788999999999999999998874 4565554

>PRK14528 adenylate kinase; Provisional

Probab=97.32  E-value=0.00018  Score=67.45  Aligned_cols=31  Identities=29%  Similarity=0.525  Sum_probs=27.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ++++++||||+|||++|+.|+..+|.+++.+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~~~~~is~   32 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERLSIPQIST   32 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeeeC
Confidence            4799999999999999999999999887654

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=97.32  E-value=0.00018  Score=63.50  Aligned_cols=30  Identities=30%  Similarity=0.346  Sum_probs=27.7

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +++.||||||||++|+.|+..+|++++...
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            578999999999999999999999998765

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.31  E-value=0.00024  Score=78.40  Aligned_cols=52  Identities=27%  Similarity=0.378  Sum_probs=41.9

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      +...|++|+++.++...|...+..          .+++||+||||||||+++++++..++..
T Consensus        26 ~~~~~~~vigq~~a~~~L~~~~~~----------~~~~l~~G~~G~GKttla~~l~~~l~~~   77 (637)
T PRK13765         26 PERLIDQVIGQEHAVEVIKKAAKQ----------RRHVMMIGSPGTGKSMLAKAMAELLPKE   77 (637)
T ss_pred             CcccHHHcCChHHHHHHHHHHHHh----------CCeEEEECCCCCcHHHHHHHHHHHcChH
Confidence            446789999999988877654432          1489999999999999999999988643

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

Probab=97.31  E-value=0.00034  Score=73.07  Aligned_cols=59  Identities=15%  Similarity=0.258  Sum_probs=41.1

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..+..+|+++|..+...-.......+..   .++.++.-++||||+|.|||||..++|++..
T Consensus        80 l~~~ytFdnFv~g~~N~~A~aa~~~va~---~~g~~~nplfi~G~~GlGKTHLl~Aign~~~  138 (408)
T COG0593          80 LNPKYTFDNFVVGPSNRLAYAAAKAVAE---NPGGAYNPLFIYGGVGLGKTHLLQAIGNEAL  138 (408)
T ss_pred             CCCCCchhheeeCCchHHHHHHHHHHHh---ccCCcCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence            4577789888866664443332222222   2233567899999999999999999999884

>PRK14530 adenylate kinase; Provisional

Probab=97.31  E-value=0.00019  Score=68.63  Aligned_cols=30  Identities=23%  Similarity=0.354  Sum_probs=27.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|+|.||||+|||++|+.||..+|++++.+
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i~~   34 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFGVEHVTT   34 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            799999999999999999999999887743

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.31  E-value=0.0003  Score=71.49  Aligned_cols=50  Identities=20%  Similarity=0.206  Sum_probs=40.3

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .|++|+|++.+...+...+...       .-+..+|||||+|+||+.+|.++|..+.
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~~-------rl~ha~Lf~G~~G~Gk~~~A~~~a~~ll   51 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQN-------RIAPAYLFAGPEGVGRKLAALCFIEGLL   51 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHhC-------CCCceEEEECCCCCCHHHHHHHHHHHHc
Confidence            5889999999988777655432       2234899999999999999999999874

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=97.28  E-value=0.00025  Score=78.58  Aligned_cols=48  Identities=23%  Similarity=0.223  Sum_probs=36.5

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|.+|+|++.++..+.-.+..   ..     ..+|||+||||||||++|++|+..+
T Consensus         2 pf~~ivGq~~~~~al~~~av~---~~-----~g~vli~G~~GtgKs~lar~l~~~l   49 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAVD---PR-----IGGVLIRGEKGTAKSTAARGLAALL   49 (633)
T ss_pred             CcchhcChHHHHHHHHHHhhC---CC-----CCeEEEEcCCCCcHHHHHHHHHHhC
Confidence            467799999888655422221   11     2379999999999999999999988

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>PLN02200 adenylate kinase family protein

Probab=97.28  E-value=0.00026  Score=68.88  Aligned_cols=33  Identities=18%  Similarity=0.101  Sum_probs=27.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .+..++++||||+|||++|+.|+..+|+.++.+
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~g~~his~   74 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETFGFKHLSA   74 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhCCeEEEc
Confidence            345788999999999999999999999765543

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.28  E-value=0.0002  Score=66.07  Aligned_cols=32  Identities=22%  Similarity=0.296  Sum_probs=27.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +.++|.||||+|||++|+.|+..++.+++++.
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~~   34 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLAEPWLHFG   34 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCCCccccC
Confidence            57889999999999999999999887766543

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.26  E-value=0.00021  Score=64.84  Aligned_cols=28  Identities=21%  Similarity=0.425  Sum_probs=24.7

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ++|.||||||||++|+.|+..+|..++.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v~   28 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFIE   28 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEEe
Confidence            5789999999999999999999866654

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.

>PRK07261 topology modulation protein; Provisional

Probab=97.24  E-value=0.00025  Score=65.56  Aligned_cols=31  Identities=23%  Similarity=0.366  Sum_probs=27.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .|+++||||+|||+||+.|+..+|.+++.+.
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D   32 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLD   32 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecC
Confidence            4789999999999999999999998877754

>PRK13946 shikimate kinase; Provisional

Probab=97.23  E-value=0.00026  Score=66.06  Aligned_cols=33  Identities=24%  Similarity=0.229  Sum_probs=29.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .++|+|.|+||||||++++.||..+|++|+...
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D   42 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGLPFLDAD   42 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCeECcC
Confidence            368999999999999999999999999987644

>PRK06217 hypothetical protein; Validated

Probab=97.23  E-value=0.00027  Score=65.82  Aligned_cols=31  Identities=16%  Similarity=0.190  Sum_probs=28.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .|++.|+||+|||++|+.|+..+|.+++.+.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D   33 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDTD   33 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEcC
Confidence            6899999999999999999999999887654

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.23  E-value=0.00022  Score=65.85  Aligned_cols=30  Identities=27%  Similarity=0.321  Sum_probs=27.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ++++.|.||||||++|+.|+ .+|..++.++
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~lg~~~i~l~   31 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-ELGYKVIELN   31 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-HhCCceeeHH
Confidence            57899999999999999999 9999998865

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.21  E-value=0.00043  Score=71.38  Aligned_cols=53  Identities=21%  Similarity=0.290  Sum_probs=41.3

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|++++||..+...+......       +..+..+||+||+|+|||++|..+|+.+..
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~-------grl~ha~L~~G~~G~GKttlA~~lA~~Llc   71 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYRE-------GKLHHALLFEGPEGIGKATLAFHLANHILS   71 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHc-------CCCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence            44788899999888877655433       222346999999999999999999999865

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.21  E-value=0.00026  Score=64.65  Aligned_cols=28  Identities=43%  Similarity=0.538  Sum_probs=25.8

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +-+.||||||||++|+.||.++|++++.
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vs   30 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVS   30 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceee
Confidence            4578999999999999999999999987

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.19  E-value=0.00029  Score=62.98  Aligned_cols=28  Identities=21%  Similarity=0.401  Sum_probs=24.8

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ++|+||||+|||++|+.|+..++..++.
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i~   29 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFID   29 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEEe
Confidence            6789999999999999999998876654

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.16  E-value=0.00036  Score=63.87  Aligned_cols=32  Identities=22%  Similarity=0.242  Sum_probs=28.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .+++|.|+||||||++++.||..+|.+|+...
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg~~~~d~D   34 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALGYRFVDTD   34 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEEcc
Confidence            47899999999999999999999999987643

>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=97.16  E-value=0.00091  Score=61.82  Aligned_cols=33  Identities=30%  Similarity=0.344  Sum_probs=27.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      ..+||++|++||||+++|++|-..+.   .+|+.++
T Consensus        22 ~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vn   57 (168)
T PF00158_consen   22 DLPVLITGETGTGKELLARAIHNNSPRKNGPFISVN   57 (168)
T ss_dssp             TS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEE
T ss_pred             CCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEe
Confidence            36999999999999999999999874   5788877

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 ....

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.16  E-value=0.00034  Score=64.62  Aligned_cols=30  Identities=23%  Similarity=0.272  Sum_probs=26.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      -+++.||||+|||++|+.|+..+|+.++..
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~g~~~~~~   34 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKYGFTHLST   34 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            578899999999999999999998776543

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.

>TIGR01351 adk adenylate kinases

Probab=97.15  E-value=0.00033  Score=66.72  Aligned_cols=30  Identities=33%  Similarity=0.484  Sum_probs=26.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|+++||||+|||++|+.||..+|+.++.+
T Consensus         1 rI~i~G~pGsGKsT~a~~La~~~g~~~is~   30 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAEKYGLPHIST   30 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcCCCeeeh
Confidence            378999999999999999999999877654

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.

>PRK02496 adk adenylate kinase; Provisional

Probab=97.15  E-value=0.00034  Score=64.92  Aligned_cols=30  Identities=30%  Similarity=0.433  Sum_probs=26.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .++++||||+|||++|+.|+..+|.+++.+
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~~~~i~~   32 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLHIPHIST   32 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence            588999999999999999999998877653

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.14  E-value=0.0004  Score=64.30  Aligned_cols=33  Identities=27%  Similarity=0.446  Sum_probs=29.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..+|+|.||||+|||++++.|+..+|++++...
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D   36 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   36 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECC
Confidence            358999999999999999999999999887654

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=97.13  E-value=0.00035  Score=69.63  Aligned_cols=49  Identities=24%  Similarity=0.256  Sum_probs=34.0

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCc--ceeeecCCCCChHHHHHHHHHHh
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFR--NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~r--nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.||+-.+..|-..+...++..   .|.+  -+-|||+|||||.++++.||..+
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~---~p~KPLvLSfHG~tGTGKN~Va~iiA~n~  134 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANP---NPRKPLVLSFHGWTGTGKNYVAEIIAENL  134 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCC---CCCCCeEEEecCCCCCchhHHHHHHHHHH
Confidence            5677777765555544444332   2333  33489999999999999999987

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.12  E-value=0.00037  Score=67.65  Aligned_cols=31  Identities=23%  Similarity=0.439  Sum_probs=27.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .|+|+||||+|||++|+.||..+|++++.+.
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g~~~is~g   38 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKENLKHINMG   38 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEECC
Confidence            4999999999999999999999998887643

>PRK06762 hypothetical protein; Provisional

Probab=97.11  E-value=0.00046  Score=62.85  Aligned_cols=32  Identities=22%  Similarity=0.401  Sum_probs=26.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .-++|+|+||+|||++|+.|+..++..++.++
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~   34 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERLGRGTLLVS   34 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeEEec
Confidence            46789999999999999999999865555544

>PHA02624 large T antigen; Provisional

Probab=97.08  E-value=0.0007  Score=73.58  Aligned_cols=32  Identities=28%  Similarity=0.311  Sum_probs=26.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +.+|||||||||||+|+.+|...+|-..+.++
T Consensus       432 ~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVN  463 (647)
T PHA02624        432 RYWLFKGPVNSGKTTLAAALLDLCGGKSLNVN  463 (647)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCeEEEee
Confidence            47889999999999999999999944344454

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.08  E-value=0.00044  Score=66.04  Aligned_cols=30  Identities=33%  Similarity=0.439  Sum_probs=27.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|+++||||+|||++|+.||..+|+.++.+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            489999999999999999999999877764

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

Probab=97.07  E-value=0.00049  Score=59.60  Aligned_cols=24  Identities=42%  Similarity=0.841  Sum_probs=20.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.++++||||+|||++++.++..+
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHh
Confidence            478899999999999999999987

>TIGR01817 nifA Nif-specific regulatory protein

Probab=97.07  E-value=0.00096  Score=72.54  Aligned_cols=62  Identities=23%  Similarity=0.287  Sum_probs=45.0

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .....|++++|.......+...+....      ....+|||+|+||||||++|++|...+   +.+|+.++
T Consensus       190 ~~~~~~~~liG~s~~~~~~~~~~~~~a------~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~  254 (534)
T TIGR01817       190 RRSGKEDGIIGKSPAMRQVVDQARVVA------RSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVN  254 (534)
T ss_pred             cccCccCceEECCHHHHHHHHHHHHHh------CcCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEee
Confidence            445678889998876554443333321      223589999999999999999999886   45787776

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.

>PRK04040 adenylate kinase; Provisional

Probab=97.06  E-value=0.00049  Score=64.77  Aligned_cols=30  Identities=27%  Similarity=0.412  Sum_probs=25.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh--Cccee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS--EEMLH  416 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~--g~~~~  416 (458)
                      +..++++|+||||||++++.|+..+  +..++
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~~   33 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLKEDYKIV   33 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhccCCeEE
Confidence            4578999999999999999999999  55554

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.06  E-value=0.00042  Score=66.86  Aligned_cols=22  Identities=41%  Similarity=0.691  Sum_probs=20.0

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      ..+|||||||||||++|+.++.
T Consensus        13 ~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        13 NMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             cEEEEECCCCCCHHHHHHhcCC
Confidence            5699999999999999999973

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.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.06  E-value=0.0011  Score=64.64  Aligned_cols=30  Identities=30%  Similarity=0.550  Sum_probs=25.4

Q ss_pred             eeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          390 MLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      |+|+|+||+|||++|+.|+..+   |.++..+.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~   34 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILG   34 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEc
Confidence            6899999999999999999987   45665554

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.

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=97.05  E-value=0.00035  Score=70.13  Aligned_cols=53  Identities=28%  Similarity=0.358  Sum_probs=39.7

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ....++||+++.+....+..+.      ..+.-  .|+|||||||||||...-+.|..+-.
T Consensus        36 rP~~l~dv~~~~ei~st~~~~~------~~~~l--Ph~L~YgPPGtGktsti~a~a~~ly~   88 (360)
T KOG0990|consen   36 RPPFLGIVIKQEPIWSTENRYS------GMPGL--PHLLFYGPPGTGKTSTILANARDFYS   88 (360)
T ss_pred             CCchhhhHhcCCchhhHHHHhc------cCCCC--CcccccCCCCCCCCCchhhhhhhhcC
Confidence            4556788999988777666551      12222  39999999999999999999988754

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

Probab=97.05  E-value=0.00062  Score=62.32  Aligned_cols=30  Identities=33%  Similarity=0.524  Sum_probs=20.4

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..+++++++||||||||++.+.+...+...
T Consensus        22 ~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen   22 GSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             -----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            445799999999999999999888877554

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.04  E-value=0.00068  Score=71.00  Aligned_cols=37  Identities=24%  Similarity=0.394  Sum_probs=28.0

Q ss_pred             HHHHHHHH-HHhhhhhcCCCcceeeecCCCCChHHHHHHHHHH
Q 012671          369 RIQHLAKA-TANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       369 ~l~~l~~~-~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+..|+.. .+....     .|+++.|||||||||++++|+..
T Consensus       195 k~~~L~rl~~fve~~-----~Nli~lGp~GTGKThla~~l~~~  232 (449)
T TIGR02688       195 KLLLLARLLPLVEPN-----YNLIELGPKGTGKSYIYNNLSPY  232 (449)
T ss_pred             HHHHHHhhHHHHhcC-----CcEEEECCCCCCHHHHHHHHhHH
Confidence            45555555 333222     49999999999999999999887

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>PRK06547 hypothetical protein; Provisional

Probab=97.03  E-value=0.00082  Score=62.39  Aligned_cols=35  Identities=29%  Similarity=0.342  Sum_probs=29.3

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .++..|+++||||+|||++|+.|+..++..++.+.
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d   47 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAARTGFQLVHLD   47 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhCCCeeccc
Confidence            44557888999999999999999999988776654

>PF13245 AAA_19: Part of AAA domain

Probab=97.03  E-value=0.00079  Score=54.03  Aligned_cols=31  Identities=39%  Similarity=0.565  Sum_probs=20.9

Q ss_pred             ceeeecCCCCChH-HHHHHHHHHh------Ccceeeec
Q 012671          389 NMLFYGPPGTGKT-MVAREIARKS------EEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT-~lAkaLA~~~------g~~~~~~~  419 (458)
                      -+++.|||||||| +++..++...      +..++.++
T Consensus        12 ~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a   49 (76)
T PF13245_consen   12 LFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLA   49 (76)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEEC
Confidence            4556999999999 5555666555      44455554

>PRK14527 adenylate kinase; Provisional

Probab=97.02  E-value=0.00049  Score=64.47  Aligned_cols=32  Identities=28%  Similarity=0.428  Sum_probs=27.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +.-++++||||+|||++|+.|+..+|...+.+
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~~~~~~~is~   37 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQELGLKKLST   37 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCCCCCc
Confidence            34689999999999999999999998766543

>PLN02674 adenylate kinase

Probab=97.00  E-value=0.00058  Score=66.89  Aligned_cols=33  Identities=24%  Similarity=0.380  Sum_probs=28.4

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .+..+++|.||||+|||++|+.||..+|+.++.
T Consensus        29 ~~~~~i~l~G~PGsGKgT~a~~La~~~~~~his   61 (244)
T PLN02674         29 KPDKRLILIGPPGSGKGTQSPIIKDEYCLCHLA   61 (244)
T ss_pred             ccCceEEEECCCCCCHHHHHHHHHHHcCCcEEc
Confidence            334689999999999999999999999876654

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.00  E-value=0.00057  Score=63.81  Aligned_cols=28  Identities=36%  Similarity=0.653  Sum_probs=24.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      +|++.||||+|||++|+.|+..++++.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~hl   29 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLPHL   29 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            6899999999999999999999665443

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

Probab=96.98  E-value=0.0011  Score=68.73  Aligned_cols=46  Identities=33%  Similarity=0.439  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          368 RRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       368 ~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..++.+.......-.+ ..+.|+++|||||||||.+++-++.++..+
T Consensus        24 ~ei~~l~~~l~~~~~~-~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~   69 (366)
T COG1474          24 EEINQLASFLAPALRG-ERPSNIIIYGPTGTGKTATVKFVMEELEES   69 (366)
T ss_pred             HHHHHHHHHHHHHhcC-CCCccEEEECCCCCCHhHHHHHHHHHHHhh
Confidence            3455555554333333 344589999999999999999999998544

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=96.98  E-value=0.00072  Score=64.59  Aligned_cols=35  Identities=34%  Similarity=0.384  Sum_probs=27.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeeccccc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLL  423 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~  423 (458)
                      -++++||+|||||.+|..||+.+|.+++...++.+
T Consensus         3 v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq~   37 (233)
T PF01745_consen    3 VYLIVGPTGTGKTALAIALAQKTGAPVISLDRIQC   37 (233)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHHH--EEEEE-SGGG
T ss_pred             EEEEECCCCCChhHHHHHHHHHhCCCEEEecceec
Confidence            46899999999999999999999999998876533

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=96.96  E-value=0.0031  Score=71.13  Aligned_cols=23  Identities=30%  Similarity=0.431  Sum_probs=20.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+++|||||||||.+++.+..++
T Consensus       783 vLYIyG~PGTGKTATVK~VLrEL  805 (1164)
T PTZ00112        783 ILYISGMPGTGKTATVYSVIQLL  805 (1164)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            34699999999999999998776

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.96  E-value=0.00052  Score=64.75  Aligned_cols=22  Identities=45%  Similarity=0.693  Sum_probs=17.0

Q ss_pred             eeeecCCCCChHHHHHHHHHHh
Q 012671          390 MLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .++.||||||||++...+...+
T Consensus        20 ~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   20 TLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHHh
Confidence            7889999999998666666655

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.96  E-value=0.00074  Score=69.26  Aligned_cols=48  Identities=17%  Similarity=0.196  Sum_probs=35.9

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|..|+|+++++..+.-.+..        ....++|+.||||||||+++++|+..+
T Consensus         2 pf~~ivgq~~~~~al~~~~~~--------~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVID--------PKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             CccccccHHHHHHHHHHHhcC--------CCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            467799999888755322111        113489999999999999999999877

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.

>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=96.94  E-value=0.00059  Score=61.34  Aligned_cols=26  Identities=31%  Similarity=0.558  Sum_probs=23.1

Q ss_pred             eecCCCCChHHHHHHHHHHhCcceee
Q 012671          392 FYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       392 l~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ++||||+|||++|+.||...|+.++.
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~~is   26 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLVHIS   26 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSEEEE
T ss_pred             CcCCCCCChHHHHHHHHHhcCcceec
Confidence            57999999999999999999876654

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 ....

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=96.93  E-value=0.00088  Score=68.47  Aligned_cols=49  Identities=22%  Similarity=0.243  Sum_probs=36.1

Q ss_pred             CccccC-ChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          357 NGDIIL-HPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       357 ~~dvi~-~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      |+.|+| |+.+.+.+......       +..+..+|||||+|+|||.+|+.++..+.
T Consensus         4 ~~~i~~~q~~~~~~L~~~~~~-------~~l~ha~Lf~G~~G~gk~~~a~~la~~l~   53 (329)
T PRK08058          4 WEQLTALQPVVVKMLQNSIAK-------NRLSHAYLFEGAKGTGKKATALWLAKSLF   53 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHHC
Confidence            566777 77777766544322       23334679999999999999999998864

>PHA02774 E1; Provisional

Probab=96.90  E-value=0.0014  Score=70.98  Aligned_cols=31  Identities=29%  Similarity=0.558  Sum_probs=25.8

Q ss_pred             cCCC-cceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          384 QAPF-RNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       384 ~~p~-rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      +.|. .+++||||||||||+||-+|.+.++-.
T Consensus       430 ~~PKknciv~~GPP~TGKS~fa~sL~~~L~G~  461 (613)
T PHA02774        430 GIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGK  461 (613)
T ss_pred             cCCcccEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            3454 479999999999999999999998533

>PRK14526 adenylate kinase; Provisional

Probab=96.90  E-value=0.00077  Score=64.62  Aligned_cols=29  Identities=28%  Similarity=0.587  Sum_probs=25.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +++|+||||+|||++++.|+..+|+.++.
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~~~~~~~is   30 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSNELNYYHIS   30 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceee
Confidence            58899999999999999999998877654

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.89  E-value=0.0007  Score=58.05  Aligned_cols=23  Identities=39%  Similarity=0.664  Sum_probs=21.2

Q ss_pred             eeeecCCCCChHHHHHHHHHHhC
Q 012671          390 MLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      |++.|+||+|||++|+.|+..+|
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~~   23 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERLG   23 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CEEECCCCCCHHHHHHHHHHHHC
Confidence            67999999999999999999973

...

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.88  E-value=0.0018  Score=57.63  Aligned_cols=29  Identities=21%  Similarity=0.170  Sum_probs=25.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      +...++|.|+.|+|||+|++.++..+|.+
T Consensus        21 ~~~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150        21 FGTVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            34578899999999999999999999875

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.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.87  E-value=0.00071  Score=72.66  Aligned_cols=54  Identities=24%  Similarity=0.331  Sum_probs=43.4

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      +..|+||+|+..+.+.|.........       .-..||.||-|||||++|+.+|.-+++.
T Consensus        12 P~~F~evvGQe~v~~~L~nal~~~ri-------~hAYlfsG~RGvGKTt~Ari~AkalNC~   65 (515)
T COG2812          12 PKTFDDVVGQEHVVKTLSNALENGRI-------AHAYLFSGPRGVGKTTIARILAKALNCE   65 (515)
T ss_pred             cccHHHhcccHHHHHHHHHHHHhCcc-------hhhhhhcCCCCcCchhHHHHHHHHhcCC
Confidence            45799999999988888766554332       2378999999999999999999988654

>TIGR00368 Mg chelatase-related protein

Probab=96.87  E-value=0.00074  Score=72.77  Aligned_cols=47  Identities=34%  Similarity=0.491  Sum_probs=36.4

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+|++|+|+..+.+.+...+          ....+++|+||||||||++++.|+..+
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa----------~~g~~vlliG~pGsGKTtlar~l~~ll  235 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAA----------AGGHNLLLFGPPGSGKTMLASRLQGIL  235 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhc----------cCCCEEEEEecCCCCHHHHHHHHhccc
Confidence            47899999988766554221          223589999999999999999999754

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.86  E-value=0.001  Score=58.97  Aligned_cols=22  Identities=41%  Similarity=0.780  Sum_probs=20.6

Q ss_pred             eeeecCCCCChHHHHHHHHHHh
Q 012671          390 MLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++++||||||||+++..++..+
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~   23 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNI   23 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999887

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.

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=96.84  E-value=0.0017  Score=70.57  Aligned_cols=59  Identities=20%  Similarity=0.262  Sum_probs=43.1

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHH-----------hCcceeeec
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK-----------SEEMLHLLV  419 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~-----------~g~~~~~~~  419 (458)
                      ..|++++|.......+...+....      ....+||++|+|||||+++|++|-..           .+-+|+.++
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A------~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~in  285 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYA------RSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVN  285 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHh------CCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEee
Confidence            468889998876555544433221      12348999999999999999999887           346788877

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.82  E-value=0.0015  Score=69.81  Aligned_cols=35  Identities=23%  Similarity=0.325  Sum_probs=29.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .+.+-+||+||+|||||+..+-|+.++|..+...+
T Consensus       108 l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~  142 (634)
T KOG1970|consen  108 LGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWS  142 (634)
T ss_pred             CCceEEEEeCCCCCCchhHHHHHHHhhCceeeeec
Confidence            34456788999999999999999999999887744

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.80  E-value=0.0016  Score=60.01  Aligned_cols=31  Identities=32%  Similarity=0.364  Sum_probs=24.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+|++||||||||+|+..++...   |-..+.++
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            37899999999999998887654   55555555

A related protein is found in archaea.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.80  E-value=0.0024  Score=60.65  Aligned_cols=29  Identities=31%  Similarity=0.356  Sum_probs=25.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      .-++++|+||+|||++|+.|+..+|..++
T Consensus         4 ~~i~i~G~~G~GKst~a~~l~~~~~~~~~   32 (197)
T PRK12339          4 TIHFIGGIPGVGKTSISGYIARHRAIDIV   32 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCeEE
Confidence            46789999999999999999999987653

>PLN02459 probable adenylate kinase

Probab=96.78  E-value=0.0011  Score=65.48  Aligned_cols=30  Identities=27%  Similarity=0.330  Sum_probs=26.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +++|.||||+|||++|+.|+..+|+.++.+
T Consensus        31 ~ii~~G~PGsGK~T~a~~la~~~~~~~is~   60 (261)
T PLN02459         31 NWVFLGCPGVGKGTYASRLSKLLGVPHIAT   60 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeC
Confidence            688899999999999999999999877653

>PRK04182 cytidylate kinase; Provisional

Probab=96.77  E-value=0.0011  Score=60.51  Aligned_cols=29  Identities=41%  Similarity=0.489  Sum_probs=26.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .|++.|+||||||++++.||..+|++++.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~~~id   30 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGLKHVS   30 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence            47889999999999999999999998876

>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=96.76  E-value=0.0017  Score=50.85  Aligned_cols=30  Identities=27%  Similarity=0.448  Sum_probs=23.8

Q ss_pred             eeeecCCCCChHHHHHHHHHHh-Ccceeeec
Q 012671          390 MLFYGPPGTGKTMVAREIARKS-EEMLHLLV  419 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~-g~~~~~~~  419 (458)
                      +.+.||||+|||++++.|+..+ +.++..+.
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l~~~~~~~i~   32 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQLGGRSVVVLD   32 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCCEEEEe
Confidence            5688999999999999999986 34444443

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.

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.75  E-value=0.0019  Score=57.32  Aligned_cols=27  Identities=41%  Similarity=0.655  Sum_probs=23.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..+||++|+|||||+++|++|....+-
T Consensus        21 ~~pvli~GE~GtGK~~~A~~lh~~~~~   47 (138)
T PF14532_consen   21 SSPVLITGEPGTGKSLLARALHRYSGR   47 (138)
T ss_dssp             SS-EEEECCTTSSHHHHHHCCHHTTTT
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHhhcCc
Confidence            358999999999999999999998864

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.75  E-value=0.0012  Score=59.91  Aligned_cols=29  Identities=41%  Similarity=0.563  Sum_probs=26.5

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      |.++|+||+|||++|+.|+..+|.+++..
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~~~~   31 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKLISA   31 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence            67899999999999999999999887764

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.75  E-value=0.0042  Score=58.69  Aligned_cols=32  Identities=28%  Similarity=0.486  Sum_probs=24.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .-++++||||||||.+|..++...   |...+.++
T Consensus        13 ~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237        13 TITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            457789999999999999988654   44455554

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

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.74  E-value=0.0012  Score=60.93  Aligned_cols=28  Identities=21%  Similarity=0.280  Sum_probs=24.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ++..++|.||||+|||++++.|+..++.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~   33 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKL   33 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3458889999999999999999999863

>PRK06696 uridine kinase; Validated

Probab=96.73  E-value=0.0031  Score=60.62  Aligned_cols=33  Identities=21%  Similarity=0.142  Sum_probs=27.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +.-|.+.||||+|||+||+.|+..+   |.+++.++
T Consensus        22 ~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~   57 (223)
T PRK06696         22 PLRVAIDGITASGKTTFADELAEEIKKRGRPVIRAS   57 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence            4467789999999999999999998   66666643

>PRK14529 adenylate kinase; Provisional

Probab=96.72  E-value=0.0011  Score=64.10  Aligned_cols=29  Identities=28%  Similarity=0.466  Sum_probs=26.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +|+|.||||+|||++++.|+..++++++.
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~~~~is   30 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYDLAHIE   30 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCCCcc
Confidence            58999999999999999999999987763

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.72  E-value=0.0019  Score=72.46  Aligned_cols=59  Identities=24%  Similarity=0.299  Sum_probs=41.6

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      ..|++++|.......+..-+....      ....+||++|+||||||++|++|...+.   .+|+.++
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a------~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~  434 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVA------QSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMN  434 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHh------CCCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEe
Confidence            468889988765554433322211      1234899999999999999999998763   5677665

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=96.70  E-value=0.0017  Score=60.44  Aligned_cols=27  Identities=33%  Similarity=0.516  Sum_probs=23.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+..+|||||||+|||.+|+.++..+.
T Consensus        13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~   39 (188)
T TIGR00678        13 LAHAYLFAGPEGVGKELLALALAKALL   39 (188)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHc
Confidence            345799999999999999999999874

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.

>PRK01184 hypothetical protein; Provisional

Probab=96.70  E-value=0.0014  Score=60.81  Aligned_cols=29  Identities=28%  Similarity=0.394  Sum_probs=24.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|+++||||+|||++++ ++..+|++++..
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~~~g~~~i~~   31 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAREMGIPVVVM   31 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHHHcCCcEEEh
Confidence            57899999999999997 788888877553

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

Probab=96.70  E-value=0.0034  Score=61.41  Aligned_cols=25  Identities=28%  Similarity=0.519  Sum_probs=22.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..++|+||||+|||++++.++..+.
T Consensus        44 ~~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        44 GFILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHhcC
Confidence            3688999999999999999999875

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.

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

Probab=96.69  E-value=0.0029  Score=70.78  Aligned_cols=93  Identities=20%  Similarity=0.205  Sum_probs=61.2

Q ss_pred             CCCCccccCChHHHH-HHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cce----eeeccccchh
Q 012671          354 IKNNGDIILHPSLQR-RIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EML----HLLVHRLLPR  425 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~-~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~----~~~~~~~~se  425 (458)
                      .+.+|-|||.++-.+ .+.-|.+-+.|         |-+|.|+||+|||-++..||...-   .|.    ..+...|++.
T Consensus       166 ~gklDPvIGRd~EI~r~iqIL~RR~KN---------NPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~  236 (786)
T COG0542         166 EGKLDPVIGRDEEIRRTIQILSRRTKN---------NPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGS  236 (786)
T ss_pred             cCCCCCCcChHHHHHHHHHHHhccCCC---------CCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHH
Confidence            345666888876555 44433333322         889999999999999999998751   111    1122223555


Q ss_pred             hhh--hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          426 SMR--YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       426 ~~~--~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++-  +|-|+...+..   -+.++++...+.|+||
T Consensus       237 LvAGakyRGeFEeRlk---~vl~ev~~~~~vILFI  268 (786)
T COG0542         237 LVAGAKYRGEFEERLK---AVLKEVEKSKNVILFI  268 (786)
T ss_pred             HhccccccCcHHHHHH---HHHHHHhcCCCeEEEE
Confidence            554  78888876665   4556777777999997

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.67  E-value=0.0016  Score=58.70  Aligned_cols=30  Identities=27%  Similarity=0.441  Sum_probs=25.4

Q ss_pred             eeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          390 MLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ++|+|+||+|||++|+.|+..+   |...+.+.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~   34 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLD   34 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEc
Confidence            6789999999999999999998   65555554

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.67  E-value=0.0022  Score=62.22  Aligned_cols=67  Identities=18%  Similarity=0.216  Sum_probs=45.5

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeeccccc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLVHRLL  423 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~~~~~  423 (458)
                      +...+.+++|-+..++.+..   .+.. ...+.|-.||||+|.-||||++|.|++-.+.+   +.++.|...++
T Consensus        55 ~~i~L~~l~Gvd~qk~~L~~---NT~~-F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl  124 (287)
T COG2607          55 DPIDLADLVGVDRQKEALVR---NTEQ-FAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDL  124 (287)
T ss_pred             CCcCHHHHhCchHHHHHHHH---HHHH-HHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHH
Confidence            45567778887766664432   1111 12345667999999999999999999998884   55555654443

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.67  E-value=0.0012  Score=60.04  Aligned_cols=26  Identities=27%  Similarity=0.427  Sum_probs=20.7

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCccee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      |.|+|+||||||+|++.|+.. |.+++
T Consensus         2 I~i~G~~stGKTTL~~~L~~~-g~~~v   27 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR-GYPVV   27 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH-T-EEE
T ss_pred             EEEECCCCCCHHHHHHHHHHc-CCeEE
Confidence            789999999999999999998 77654

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.63  E-value=0.0015  Score=65.28  Aligned_cols=27  Identities=41%  Similarity=0.644  Sum_probs=23.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh-Ccc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS-EEM  414 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~-g~~  414 (458)
                      .-++|.||||||||++|+.|+..+ +..
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~~~~~   30 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKNPKAV   30 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHCCCCE
Confidence            467889999999999999999998 443

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.61  E-value=0.0016  Score=60.81  Aligned_cols=30  Identities=20%  Similarity=0.506  Sum_probs=25.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..++|.||+|+|||+|++.|+..++.++..
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~~~~~~~   32 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQREQTQLLV   32 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCCCeEEE
Confidence            478899999999999999999988766544

>PF13173 AAA_14: AAA domain

Probab=96.61  E-value=0.0043  Score=54.26  Aligned_cols=32  Identities=25%  Similarity=0.504  Sum_probs=26.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC--cceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE--EMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g--~~~~~~~  419 (458)
                      +.++++||.|||||++++.++..+.  ..++.++
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~   36 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYIN   36 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeec
Confidence            4688999999999999999998876  5555555

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=96.58  E-value=0.0032  Score=68.36  Aligned_cols=60  Identities=22%  Similarity=0.256  Sum_probs=43.6

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ...|++++|.......+...+....      ....+||++|+|||||+++|++|...+   +-+|+.++
T Consensus       208 ~~~f~~iiG~S~~m~~~~~~i~~~A------~~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~in  270 (526)
T TIGR02329       208 RYRLDDLLGASAPMEQVRALVRLYA------RSDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAIN  270 (526)
T ss_pred             ccchhheeeCCHHHHHHHHHHHHHh------CCCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEec
Confidence            4678889988775555444433221      123589999999999999999999876   45787776

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PRK13808 adenylate kinase; Provisional

Probab=96.58  E-value=0.0017  Score=66.37  Aligned_cols=30  Identities=23%  Similarity=0.479  Sum_probs=27.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|||+||||+|||++|..||..+|+.++.+
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~ygl~~is~   31 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQYGIVQLST   31 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceecc
Confidence            589999999999999999999999877664

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.57  E-value=0.004  Score=63.58  Aligned_cols=56  Identities=16%  Similarity=0.229  Sum_probs=37.9

Q ss_pred             CccccCChHHHH-HHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          357 NGDIILHPSLQR-RIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       357 ~~dvi~~~~l~~-~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      |++++|...... .+..+....       ....+||++|+|||||+++|++|...+.   -+|+.+.
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a-------~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~   64 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLA-------PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLN   64 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHh-------CCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEe
Confidence            455666665444 333333331       1134899999999999999999987764   5777776

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=96.54  E-value=0.0041  Score=67.51  Aligned_cols=60  Identities=20%  Similarity=0.198  Sum_probs=41.4

Q ss_pred             CCCCCccccCChHHHHH-HHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          353 AIKNNGDIILHPSLQRR-IQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~-l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      ...+|+++++....-.. +..+....       .....||++|++||||+++|++|-..+.   -+|+.++
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~~~A-------~~~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~in  262 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQARKLA-------MLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALN  262 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHHHHh-------CCCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEec
Confidence            45688889988764443 33332221       1134799999999999999999876653   5677776

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=96.47  E-value=0.0072  Score=57.03  Aligned_cols=39  Identities=18%  Similarity=0.307  Sum_probs=27.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh-Ccceeeeccccc
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS-EEMLHLLVHRLL  423 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~-g~~~~~~~~~~~  423 (458)
                      ..|.-+++.||||+|||+++..+-..+ +.+++.++..++
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~   52 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEF   52 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGG
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHH
Confidence            345678889999999999999999988 667777764443

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PRK08233 hypothetical protein; Provisional

Probab=96.46  E-value=0.0021  Score=59.00  Aligned_cols=24  Identities=21%  Similarity=0.321  Sum_probs=21.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      -|.+.||||+|||++|..|+..++
T Consensus         5 iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          5 IITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            456789999999999999999986

>PLN02199 shikimate kinase

Probab=96.45  E-value=0.0027  Score=63.73  Aligned_cols=33  Identities=24%  Similarity=0.233  Sum_probs=29.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .++|+|.|++|||||++++.||..+|++|+...
T Consensus       102 ~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD  134 (303)
T PLN02199        102 GRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCD  134 (303)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEehH
Confidence            469999999999999999999999999987643

>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=96.45  E-value=0.0042  Score=56.96  Aligned_cols=26  Identities=38%  Similarity=0.576  Sum_probs=22.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..+|||||+|+||+.+|.+++..+-
T Consensus        19 ~ha~L~~G~~g~gk~~~a~~~a~~ll   44 (162)
T PF13177_consen   19 PHALLFHGPSGSGKKTLALAFARALL   44 (162)
T ss_dssp             -SEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHHc
Confidence            34689999999999999999999874

...

>PTZ00121 MAEBL; Provisional

Probab=96.45  E-value=0.44  Score=56.13  Aligned_cols=11  Identities=9%  Similarity=0.045  Sum_probs=4.1

Q ss_pred             HHHhhhhHHHH
Q 012671          148 AQGLRNEDELA  158 (458)
Q Consensus       148 ~~~a~y~D~L~  158 (458)
                      ..+++..-.++
T Consensus      1175 Arr~EEaRraE 1185 (2084)
T PTZ00121       1175 AKKAEAARKAE 1185 (2084)
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=96.42  E-value=0.005  Score=68.40  Aligned_cols=59  Identities=22%  Similarity=0.309  Sum_probs=40.6

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      ..|+++++.......+...+....      ....+|||+|+|||||+++|++|...+.   -+|+.++
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~a------~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vn  383 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQAA------KSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVN  383 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHHh------CcCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEE
Confidence            357778877654443333222221      1234799999999999999999998764   5787776

>PF05729 NACHT: NACHT domain

Probab=96.41  E-value=0.0024  Score=57.00  Aligned_cols=23  Identities=30%  Similarity=0.639  Sum_probs=20.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -++++|+||+|||++++.++..+
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~   24 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQL   24 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHH
Confidence            47899999999999999999776

>PRK10536 hypothetical protein; Provisional

Probab=96.40  E-value=0.0048  Score=60.82  Aligned_cols=44  Identities=18%  Similarity=0.264  Sum_probs=29.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHH-h-C--cceeeecccc--chhhhhhhhh
Q 012671          389 NMLFYGPPGTGKTMVAREIARK-S-E--EMLHLLVHRL--LPRSMRYLIG  432 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~-~-g--~~~~~~~~~~--~se~~~~~~g  432 (458)
                      .+++.||+|||||+||.+++.+ + .  .+.+.+++..  ..+.+.-+.|
T Consensus        76 lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG  125 (262)
T PRK10536         76 LIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPG  125 (262)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCC
Confidence            8889999999999999999985 2 2  3334444433  2344444444

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.39  E-value=0.0046  Score=61.62  Aligned_cols=27  Identities=33%  Similarity=0.539  Sum_probs=22.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+++||+||||||||++.+.+=..+..
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l~~   59 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSLDS   59 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCSTT
T ss_pred             CCcEEEECCCCCchhHHHHhhhccCCc
Confidence            359999999999999999876655543

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.37  E-value=0.0027  Score=58.52  Aligned_cols=25  Identities=20%  Similarity=0.333  Sum_probs=22.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      -+++.||||+|||++++.|+..++.
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~~~   27 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARLAG   27 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCc
Confidence            5789999999999999999998754

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.

>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=96.36  E-value=0.0034  Score=61.93  Aligned_cols=60  Identities=18%  Similarity=0.261  Sum_probs=38.3

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc-eeeec
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM-LHLLV  419 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~-~~~~~  419 (458)
                      ...++++...+.....+.++....  .+    ...|+|+.||+|+|||++..++...+..+ ..+++
T Consensus       100 ~~sle~l~~~~~~~~~~~~~l~~~--v~----~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~  160 (270)
T PF00437_consen  100 PFSLEDLGESGSIPEEIAEFLRSA--VR----GRGNILISGPTGSGKTTLLNALLEEIPPEDERIVT  160 (270)
T ss_dssp             --CHCCCCHTHHCHHHHHHHHHHC--HH----TTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEE
T ss_pred             cccHhhccCchhhHHHHHHHHhhc--cc----cceEEEEECCCccccchHHHHHhhhccccccceEE
Confidence            335666655554444444333332  11    13599999999999999999999988766 44444

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 ....

>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=96.36  E-value=0.003  Score=58.43  Aligned_cols=23  Identities=30%  Similarity=0.742  Sum_probs=20.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      |++|.|+||+|||++.+.+...+
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHh
Confidence            68999999999999999999998

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.

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=96.35  E-value=0.0067  Score=61.97  Aligned_cols=32  Identities=16%  Similarity=0.199  Sum_probs=28.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..++|.|+||||||+|++.|+..+|.+++.-.
T Consensus       163 ~~~~~~G~~~~gkstl~~~l~~~~~~~~v~E~  194 (325)
T TIGR01526       163 KTVAILGGESTGKSTLVNKLAAVFNTTSAWEY  194 (325)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCCCEEeeh
Confidence            47899999999999999999999998885543

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.34  E-value=0.0059  Score=66.07  Aligned_cols=58  Identities=28%  Similarity=0.387  Sum_probs=41.0

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      .+++++|.......+...+...      .....+||++|++|||||++|++|...+.   .+|+.++
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~------a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~  245 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVV------AASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLN  245 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHH------hCCCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEE
Confidence            5667888776555443333322      12235999999999999999999998864   5777776

>PRK13764 ATPase; Provisional

Probab=96.31  E-value=0.0055  Score=67.29  Aligned_cols=31  Identities=29%  Similarity=0.502  Sum_probs=26.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..|+|++||||+|||+++.+|+.++.....+
T Consensus       257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~ri  287 (602)
T PRK13764        257 AEGILIAGAPGAGKSTFAQALAEFYADMGKI  287 (602)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhCCCE
Confidence            3699999999999999999999988644333

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.31  E-value=0.0037  Score=58.13  Aligned_cols=28  Identities=21%  Similarity=0.470  Sum_probs=24.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      ..++++||||+|||+++++|+..++..+
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~~~~   31 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFSAKF   31 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCEE
Confidence            4678999999999999999999987643

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.29  E-value=0.012  Score=56.75  Aligned_cols=33  Identities=18%  Similarity=0.337  Sum_probs=25.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ...++++||||||||+|+..++...   |-..+.++
T Consensus        25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         25 PSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             CcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            4578889999999999999997553   55555544

>PRK12338 hypothetical protein; Provisional

Probab=96.29  E-value=0.0035  Score=63.68  Aligned_cols=30  Identities=27%  Similarity=0.261  Sum_probs=26.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      +..+++.|+||||||++|..||..+|+..+
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l~~~~~   33 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTLNIKHL   33 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHCCCeEE
Confidence            457889999999999999999999998764

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=96.29  E-value=0.0036  Score=63.05  Aligned_cols=29  Identities=24%  Similarity=0.255  Sum_probs=26.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      --+|+.||||||||++|..||..+|.+++
T Consensus        93 ~iIlI~G~sgsGKStlA~~La~~l~~~~v  121 (301)
T PRK04220         93 IIILIGGASGVGTSTIAFELASRLGIRSV  121 (301)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            46889999999999999999999998853

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.28  E-value=0.0049  Score=56.65  Aligned_cols=26  Identities=38%  Similarity=0.516  Sum_probs=23.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ...++|.|+||+|||++++.|+..+.
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~   29 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLR   29 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35788999999999999999999873

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.27  E-value=0.0038  Score=58.76  Aligned_cols=27  Identities=19%  Similarity=0.432  Sum_probs=24.1

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..-++|.||||+|||+|++.|+..+.
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            456789999999999999999999875

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=96.27  E-value=0.0049  Score=64.58  Aligned_cols=50  Identities=24%  Similarity=0.333  Sum_probs=39.5

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .+++|.-+.+.+.++|..-             -+++|+.||||.|||+||.+||..+...-.+
T Consensus       244 ~~ledY~L~dkl~eRL~er-------------aeGILIAG~PGaGKsTFaqAlAefy~~~Gki  293 (604)
T COG1855         244 LSLEDYGLSDKLKERLEER-------------AEGILIAGAPGAGKSTFAQALAEFYASQGKI  293 (604)
T ss_pred             echhhcCCCHHHHHHHHhh-------------hcceEEecCCCCChhHHHHHHHHHHHhcCcE
Confidence            4677788888888887631             2599999999999999999999987554443

>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=96.25  E-value=0.0067  Score=66.21  Aligned_cols=32  Identities=25%  Similarity=0.246  Sum_probs=29.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..++|.|+||||||++++.||..+|++|+.+.
T Consensus         7 ~~i~LiG~~GaGKttvg~~LA~~L~~~fiD~D   38 (542)
T PRK14021          7 PQAVIIGMMGAGKTRVGKEVAQMMRLPFADAD   38 (542)
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            38999999999999999999999999998754

>PRK08356 hypothetical protein; Provisional

Probab=96.24  E-value=0.0042  Score=58.43  Aligned_cols=30  Identities=20%  Similarity=0.018  Sum_probs=24.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..++|+||||+|||++|+.|. ..|+..+.+
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~-~~g~~~is~   35 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFE-EKGFCRVSC   35 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHH-HCCCcEEeC
Confidence            357899999999999999996 467764443

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.24  E-value=0.0082  Score=61.42  Aligned_cols=32  Identities=34%  Similarity=0.436  Sum_probs=27.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      .+|||+|+|||||+++|++|...+.   .+|+.++
T Consensus        23 ~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vn   57 (329)
T TIGR02974        23 RPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLN   57 (329)
T ss_pred             CCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEe
Confidence            5899999999999999999987764   5787776

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

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.21  E-value=0.0031  Score=59.95  Aligned_cols=24  Identities=38%  Similarity=0.688  Sum_probs=22.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      -++|.|+||+|||++|+.|++.+.
T Consensus         3 LiIlTGyPgsGKTtfakeLak~L~   26 (261)
T COG4088           3 LIILTGYPGSGKTTFAKELAKELR   26 (261)
T ss_pred             eEEEecCCCCCchHHHHHHHHHHH
Confidence            478999999999999999999884

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.21  E-value=0.0041  Score=58.12  Aligned_cols=27  Identities=26%  Similarity=0.367  Sum_probs=24.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..++++.||+|+|||++.++|+.....
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~~   51 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIPP   51 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCC
Confidence            468999999999999999999988753

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.

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=96.19  E-value=0.0081  Score=58.45  Aligned_cols=53  Identities=25%  Similarity=0.375  Sum_probs=34.5

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +|.-|...+....+..+...       ..+..++||+|||||...+.||..+|..++...
T Consensus        12 lv~Tplt~r~~~~l~~al~~-------~~~~~~~GpagtGKtetik~La~~lG~~~~vfn   64 (231)
T PF12774_consen   12 LVITPLTDRCFLTLTQALSL-------NLGGALSGPAGTGKTETIKDLARALGRFVVVFN   64 (231)
T ss_dssp             ----HHHHHHHHHHHHHHCT-------TTEEEEESSTTSSHHHHHHHHHHCTT--EEEEE
T ss_pred             ceechHHHHHHHHHHHHhcc-------CCCCCCcCCCCCCchhHHHHHHHHhCCeEEEec
Confidence            44455555555444444321       235678999999999999999999999988876

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=96.16  E-value=0.0059  Score=55.55  Aligned_cols=37  Identities=16%  Similarity=0.329  Sum_probs=30.9

Q ss_pred             cCCCc-ceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          384 QAPFR-NMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       384 ~~p~r-nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      ..|++ -+++.|++|||||+++++|+.++|++|+.-..
T Consensus         8 ~~~~k~~i~vmGvsGsGKSTigk~L~~~l~~~F~dgDd   45 (191)
T KOG3354|consen    8 MGPFKYVIVVMGVSGSGKSTIGKALSEELGLKFIDGDD   45 (191)
T ss_pred             cCCCceeEEEEecCCCChhhHHHHHHHHhCCccccccc
Confidence            35666 56678999999999999999999999976443

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=96.15  E-value=0.016  Score=57.61  Aligned_cols=54  Identities=19%  Similarity=0.267  Sum_probs=40.0

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +|+-+++...+..+.+..      ..|..|+||.|++||||+++++..|.-++++++.+.
T Consensus        10 lVlf~~ai~hi~ri~RvL------~~~~Gh~LLvG~~GsGr~sl~rLaa~i~~~~~~~i~   63 (268)
T PF12780_consen   10 LVLFDEAIEHIARISRVL------SQPRGHALLVGVGGSGRQSLARLAAFICGYEVFQIE   63 (268)
T ss_dssp             ----HHHHHHHHHHHHHH------CSTTEEEEEECTTTSCHHHHHHHHHHHTTEEEE-TT
T ss_pred             eeeHHHHHHHHHHHHHHH------cCCCCCeEEecCCCccHHHHHHHHHHHhccceEEEE
Confidence            677777777766665554      345569999999999999999999998999988765

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.13  E-value=0.0064  Score=60.81  Aligned_cols=33  Identities=24%  Similarity=0.376  Sum_probs=26.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh----C-cceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS----E-EMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~----g-~~~~~~~  419 (458)
                      ++.++|+||+|+|||+++..||..+    | ..+..++
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~  231 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT  231 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEE
Confidence            4578899999999999999999876    3 4555554

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=96.11  E-value=1.1  Score=50.03  Aligned_cols=19  Identities=37%  Similarity=0.517  Sum_probs=9.6

Q ss_pred             HHHHHHHHhhhhHHHHHHH
Q 012671          143 KAQARAQGLRNEDELARKR  161 (458)
Q Consensus       143 ~~~~~~~~a~y~D~L~rkr  161 (458)
                      |.+.-+++.+.+.+|+|+|
T Consensus       363 qEqErk~qlElekqLerQR  381 (1118)
T KOG1029|consen  363 QEQERKAQLELEKQLERQR  381 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333444555556666544

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=96.11  E-value=0.0046  Score=52.51  Aligned_cols=25  Identities=32%  Similarity=0.426  Sum_probs=21.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ++++++||||+|||+++..++..+.
T Consensus         1 ~~~~i~~~~G~GKT~~~~~~~~~~~   25 (144)
T cd00046           1 RDVLLAAPTGSGKTLAALLPILELL   25 (144)
T ss_pred             CCEEEECCCCCchhHHHHHHHHHHH
Confidence            4899999999999998888887764

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.10  E-value=0.0053  Score=62.63  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=23.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..|+|+.||+|+|||++.++|....
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3599999999999999999999876

>PF13479 AAA_24: AAA domain

Probab=96.10  E-value=0.0018  Score=61.94  Aligned_cols=19  Identities=53%  Similarity=1.127  Sum_probs=18.1

Q ss_pred             ceeeecCCCCChHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREI  407 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaL  407 (458)
                      ++|+|||||+|||++|..+
T Consensus         5 ~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    5 KILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             EEEEECCCCCCHHHHHHhC
Confidence            7999999999999999988

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=96.07  E-value=0.015  Score=60.20  Aligned_cols=48  Identities=19%  Similarity=0.212  Sum_probs=32.9

Q ss_pred             hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhh
Q 012671          383 HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       383 ~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~g  432 (458)
                      ...+++|+.||||+|+|||||.-..-..+..  -.-.+..+.++|..+..
T Consensus        58 ~~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~--~~k~R~HFh~Fm~~vh~  105 (362)
T PF03969_consen   58 PPPPPKGLYLWGPVGRGKTMLMDLFYDSLPI--KRKRRVHFHEFMLDVHS  105 (362)
T ss_pred             cCCCCceEEEECCCCCchhHHHHHHHHhCCc--cccccccccHHHHHHHH
Confidence            3457899999999999999999888776643  22233344555554333

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PRK11545 gntK gluconate kinase 1; Provisional

Probab=96.07  E-value=0.0043  Score=56.87  Aligned_cols=25  Identities=32%  Similarity=0.457  Sum_probs=21.8

Q ss_pred             ecCCCCChHHHHHHHHHHhCcceee
Q 012671          393 YGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       393 ~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .||||||||+++++|+..+|..++.
T Consensus         1 ~G~sGsGKSTla~~la~~l~~~~~~   25 (163)
T PRK11545          1 MGVSGSGKSAVASEVAHQLHAAFLD   25 (163)
T ss_pred             CCCCCCcHHHHHHHHHHHhCCeEEe
Confidence            4999999999999999999865544

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.06  E-value=0.01  Score=57.51  Aligned_cols=30  Identities=40%  Similarity=0.598  Sum_probs=25.1

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..+-|.|+.||||||||++.+-||+.+...
T Consensus       135 ~g~lntLiigpP~~GKTTlLRdiaR~~s~g  164 (308)
T COG3854         135 NGWLNTLIIGPPQVGKTTLLRDIARLLSDG  164 (308)
T ss_pred             cCceeeEEecCCCCChHHHHHHHHHHhhcc
Confidence            335689999999999999999999887443

>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=96.06  E-value=0.013  Score=53.67  Aligned_cols=31  Identities=32%  Similarity=0.442  Sum_probs=25.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      -|.|.|.||+|||++|++|...+   |...+.+.
T Consensus         4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            57799999999999999999988   45566655

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 ....

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.05  E-value=0.014  Score=62.11  Aligned_cols=35  Identities=23%  Similarity=0.346  Sum_probs=27.3

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+..-+|++||||+|||+|+..++...   |..++.++
T Consensus        78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs  115 (446)
T PRK11823         78 VPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS  115 (446)
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            344577899999999999999998765   55555565

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.05  E-value=0.0089  Score=58.04  Aligned_cols=35  Identities=23%  Similarity=0.321  Sum_probs=26.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHH---hCcceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARK---SEEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~---~g~~~~~~~  419 (458)
                      .+...+|++||||||||.||..++..   .|...+.++
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs   56 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA   56 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            34568889999999999999876554   366666655

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.02  E-value=0.012  Score=56.72  Aligned_cols=45  Identities=20%  Similarity=0.239  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          369 RIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       369 ~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ....+.....+...+..++.-+.|.||+|+|||+|++.|+..+..
T Consensus        15 ~~~~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         15 VHKPLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            344444444443334344556778899999999999999988753

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.02  E-value=0.0041  Score=57.19  Aligned_cols=24  Identities=21%  Similarity=0.558  Sum_probs=21.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      -++|.||||+|||++++.|+....
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~~   26 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEEDP   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccCc
Confidence            478999999999999999998754

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.

>PLN02165 adenylate isopentenyltransferase

Probab=96.01  E-value=0.006  Score=62.28  Aligned_cols=31  Identities=16%  Similarity=0.310  Sum_probs=26.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ...++|.||+|+|||.||..||..++..++.
T Consensus        43 g~iivIiGPTGSGKStLA~~LA~~l~~eIIs   73 (334)
T PLN02165         43 DKVVVIMGATGSGKSRLSVDLATRFPSEIIN   73 (334)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHcCCceec
Confidence            3478899999999999999999998865444

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.00  E-value=0.0066  Score=63.09  Aligned_cols=25  Identities=28%  Similarity=0.468  Sum_probs=22.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ...++|+||||+|||+++..||..+
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999999764

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

Probab=95.99  E-value=0.012  Score=59.18  Aligned_cols=50  Identities=26%  Similarity=0.373  Sum_probs=38.8

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+.+.....+..+.......+...-  .|+|++|++|.|||++++..+...
T Consensus        36 WIgY~~A~~~L~~L~~Ll~~P~~~Rm--p~lLivG~snnGKT~Ii~rF~~~h   85 (302)
T PF05621_consen   36 WIGYPRAKEALDRLEELLEYPKRHRM--PNLLIVGDSNNGKTMIIERFRRLH   85 (302)
T ss_pred             eecCHHHHHHHHHHHHHHhCCcccCC--CceEEecCCCCcHHHHHHHHHHHC
Confidence            67788888777776666555444433  399999999999999999999765

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

>PRK09862 putative ATP-dependent protease; Provisional

Probab=95.96  E-value=0.0055  Score=66.08  Aligned_cols=47  Identities=36%  Similarity=0.487  Sum_probs=34.8

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+|.++.++..+.+.+...          .....+++|+||||||||++++.|+..+
T Consensus       188 ~d~~~v~Gq~~~~~al~la----------a~~G~~llliG~~GsGKTtLak~L~gll  234 (506)
T PRK09862        188 HDLSDVIGQEQGKRGLEIT----------AAGGHNLLLIGPPGTGKTMLASRINGLL  234 (506)
T ss_pred             cCeEEEECcHHHHhhhhee----------ccCCcEEEEECCCCCcHHHHHHHHhccC
Confidence            4788888877655544311          1234589999999999999999999765

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=95.95  E-value=0.014  Score=52.83  Aligned_cols=51  Identities=22%  Similarity=0.349  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          365 SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       365 ~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .-.+.+..+.......    ...+++||.+|+|+|||.++-.++..+...++.++
T Consensus         7 ~Q~~ai~~i~~~~~~~----~~~~~~ll~~~tGsGKT~~~~~~~~~l~~~~l~~~   57 (184)
T PF04851_consen    7 YQQEAIARIINSLENK----KEERRVLLNAPTGSGKTIIALALILELARKVLIVA   57 (184)
T ss_dssp             HHHHHHHHHHHHHHTT----SGCSEEEEEESTTSSHHHHHHHHHHHHHCEEEEEE
T ss_pred             HHHHHHHHHHHHHHhc----CCCCCEEEEECCCCCcChhhhhhhhccccceeEec
Confidence            3344555554443322    22469999999999999999987777766666665

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

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

Probab=95.95  E-value=0.0098  Score=56.99  Aligned_cols=35  Identities=29%  Similarity=0.411  Sum_probs=25.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh----Ccceeeecc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLVH  420 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~~  420 (458)
                      +...+|++||||||||.|+..++...    |...+.++.
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~   56 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF   56 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe
Confidence            34578899999999999998876443    777666663

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 ....

>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=95.94  E-value=0.0096  Score=54.98  Aligned_cols=30  Identities=27%  Similarity=0.341  Sum_probs=24.9

Q ss_pred             eeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          390 MLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      |.|.||+|+|||++++.|+..+   |..+..+.
T Consensus         3 I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~   35 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAERLEARGYEVVLTR   35 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            5788999999999999999998   65655443

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK13975 thymidylate kinase; Provisional

Probab=95.94  E-value=0.0081  Score=56.00  Aligned_cols=27  Identities=33%  Similarity=0.469  Sum_probs=24.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      -|.|.||+|+|||++++.|+..++..+
T Consensus         4 ~I~ieG~~GsGKtT~~~~L~~~l~~~~   30 (196)
T PRK13975          4 FIVFEGIDGSGKTTQAKLLAEKLNAFW   30 (196)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            578899999999999999999998543

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.91  E-value=0.02  Score=53.02  Aligned_cols=29  Identities=24%  Similarity=0.338  Sum_probs=24.7

Q ss_pred             cCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          384 QAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       384 ~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..++.-++|.|+||+|||++++.|+..+.
T Consensus        15 ~~~~~~i~i~G~~GsGKstla~~l~~~l~   43 (184)
T TIGR00455        15 GHRGVVIWLTGLSGSGKSTIANALEKKLE   43 (184)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34556788999999999999999999873

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.90  E-value=0.0058  Score=57.39  Aligned_cols=23  Identities=35%  Similarity=0.609  Sum_probs=21.3

Q ss_pred             eeeecCCCCChHHHHHHHHHHhC
Q 012671          390 MLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      |-+.||||+|||+||+.|+..++
T Consensus         2 IgI~G~sgSGKTTla~~L~~~L~   24 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQILN   24 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45789999999999999999997

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 ....

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.90  E-value=0.0085  Score=56.77  Aligned_cols=26  Identities=31%  Similarity=0.247  Sum_probs=22.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +.-|.+.||||||||+|++.|+..++
T Consensus         6 ~~iI~I~G~sGsGKTTl~~~l~~~l~   31 (209)
T PRK05480          6 PIIIGIAGGSGSGKTTVASTIYEELG   31 (209)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34677899999999999999999983

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=95.90  E-value=0.011  Score=58.24  Aligned_cols=35  Identities=31%  Similarity=0.435  Sum_probs=27.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHR  421 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~  421 (458)
                      .+.+|++||||||||.|+...+...   |.+.+.++..
T Consensus        23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~   60 (260)
T COG0467          23 GSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTE   60 (260)
T ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEec
Confidence            4578899999999999888777554   6677777633

>TIGR00017 cmk cytidylate kinase

Probab=95.89  E-value=0.0068  Score=58.34  Aligned_cols=29  Identities=31%  Similarity=0.399  Sum_probs=25.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .+.+.||+|||||++++.|+..+|+.++.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~~~~~~~~   32 (217)
T TIGR00017         4 IIAIDGPSGAGKSTVAKAVAEKLGYAYLD   32 (217)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceee
Confidence            46788999999999999999999977653

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.

>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2

Probab=95.88  E-value=0.012  Score=53.50  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=22.4

Q ss_pred             CCCChHHHHHHHHHHhCcceeeec
Q 012671          396 PGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       396 PGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ||||||++++.||..+|.+|+.+.
T Consensus         1 ~GsGKStvg~~lA~~L~~~fiD~D   24 (158)
T PF01202_consen    1 MGSGKSTVGKLLAKRLGRPFIDLD   24 (158)
T ss_dssp             TTSSHHHHHHHHHHHHTSEEEEHH
T ss_pred             CCCcHHHHHHHHHHHhCCCccccC
Confidence            799999999999999999998864

7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=95.88  E-value=0.0067  Score=63.70  Aligned_cols=31  Identities=16%  Similarity=0.264  Sum_probs=27.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .++|.+.|++|||||+|+..|+..+|..++.
T Consensus       219 ~~~IvI~G~~gsGKTTL~~~La~~~g~~~v~  249 (399)
T PRK08099        219 VRTVAILGGESSGKSTLVNKLANIFNTTSAW  249 (399)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHhCCCeee
Confidence            4689999999999999999999999887543

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=95.88  E-value=0.012  Score=55.61  Aligned_cols=30  Identities=17%  Similarity=0.149  Sum_probs=26.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .+.++||||+|||++++.|+..+|.+++..
T Consensus         3 ~i~itG~~gsGKst~~~~l~~~~g~~~i~~   32 (195)
T PRK14730          3 RIGLTGGIASGKSTVGNYLAQQKGIPILDA   32 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCCeEeeC
Confidence            578999999999999999999888887753

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=95.87  E-value=0.014  Score=61.04  Aligned_cols=66  Identities=21%  Similarity=0.159  Sum_probs=43.9

Q ss_pred             CCCCCccccCChHH-HHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----Ccceeeeccccchhhh
Q 012671          353 AIKNNGDIILHPSL-QRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLVHRLLPRSM  427 (458)
Q Consensus       353 ~~~~~~dvi~~~~l-~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~~~~~se~~  427 (458)
                      ....++++||...- ++.+.++..       ......+||++|++||||+++|..|...+    +-+|+.++   |..+.
T Consensus        73 ~~~~~~~LIG~~~~~~~~~eqik~-------~ap~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~N---Ca~~~  142 (403)
T COG1221          73 KSEALDDLIGESPSLQELREQIKA-------YAPSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFN---CAAYS  142 (403)
T ss_pred             cchhhhhhhccCHHHHHHHHHHHh-------hCCCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEE---HHHhC
Confidence            34456777776654 334444433       12223599999999999999999998554    45777777   65554


Q ss_pred             h
Q 012671          428 R  428 (458)
Q Consensus       428 ~  428 (458)
                      +
T Consensus       143 e  143 (403)
T COG1221         143 E  143 (403)
T ss_pred             c
Confidence            4

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=95.85  E-value=0.0062  Score=62.71  Aligned_cols=34  Identities=26%  Similarity=0.441  Sum_probs=28.2

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ...|+|+.||+|+|||++.++|......+.-.++
T Consensus       161 ~~~nilI~G~tGSGKTTll~aLl~~i~~~~rivt  194 (344)
T PRK13851        161 GRLTMLLCGPTGSGKTTMSKTLISAIPPQERLIT  194 (344)
T ss_pred             cCCeEEEECCCCccHHHHHHHHHcccCCCCCEEE
Confidence            3569999999999999999999998765544444

>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=95.83  E-value=0.0083  Score=55.88  Aligned_cols=23  Identities=30%  Similarity=0.592  Sum_probs=20.9

Q ss_pred             eeeecCCCCChHHHHHHHHHHhC
Q 012671          390 MLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      |.+.|+||+|||+||..|+..++
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~   24 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLR   24 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999999973

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.82  E-value=0.0074  Score=53.71  Aligned_cols=24  Identities=21%  Similarity=0.592  Sum_probs=21.0

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCc
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ++|.||+|+|||++++.|+.....
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~~~   25 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEFDP   25 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCc
Confidence            578999999999999999988543

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.

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=95.82  E-value=0.016  Score=62.18  Aligned_cols=62  Identities=29%  Similarity=0.277  Sum_probs=45.1

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ...+.|+++++....-.++...+.      ..-....+||++|-+||||.+||++|-+.+   +-+|+.++
T Consensus       239 ~a~y~f~~Iig~S~~m~~~~~~ak------r~A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiN  303 (560)
T COG3829         239 KAKYTFDDIIGESPAMLRVLELAK------RIAKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAIN  303 (560)
T ss_pred             ccccchhhhccCCHHHHHHHHHHH------hhcCCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEe
Confidence            456789999987764443333322      222334699999999999999999999888   46788777

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=95.81  E-value=0.0081  Score=55.74  Aligned_cols=28  Identities=21%  Similarity=0.172  Sum_probs=24.5

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      |.++|+||+|||++++.|+. +|.+++..
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~i~~   29 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPVIDA   29 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCEEec
Confidence            67899999999999999999 88777653

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>PRK13951 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional

Probab=95.80  E-value=0.0073  Score=65.04  Aligned_cols=31  Identities=13%  Similarity=0.307  Sum_probs=28.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +++|.|+||||||++++.||..+|.+|+.+.
T Consensus         2 ~I~l~G~~GsGKSTv~~~La~~lg~~~id~D   32 (488)
T PRK13951          2 RIFLVGMMGSGKSTIGKRVSEVLDLQFIDMD   32 (488)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCeEEECc
Confidence            6899999999999999999999999998654

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.80  E-value=0.023  Score=53.58  Aligned_cols=28  Identities=25%  Similarity=0.309  Sum_probs=24.0

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..+.-+.|.|+||+|||++++.|+..+.
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~   49 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALH   49 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4455788999999999999999999873

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.79  E-value=0.0079  Score=55.68  Aligned_cols=30  Identities=23%  Similarity=0.299  Sum_probs=25.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .+|+.||||+|||.+|..++..++.+++.+
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~i   32 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGLQVLYI   32 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCCCcEeC
Confidence            588999999999999999999988654443

>cd01394 radB RadB

Probab=95.79  E-value=0.0098  Score=56.60  Aligned_cols=24  Identities=46%  Similarity=0.764  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .-++++||||||||+||..+|...
T Consensus        20 ~i~~i~G~~GsGKT~l~~~~a~~~   43 (218)
T cd01394          20 TVTQVYGPPGTGKTNIAIQLAVET   43 (218)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999999775

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

>PRK00023 cmk cytidylate kinase; Provisional

Probab=95.78  E-value=0.0073  Score=58.41  Aligned_cols=30  Identities=30%  Similarity=0.318  Sum_probs=26.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..+.+.||||||||++++.||..+|++++.
T Consensus         5 ~~i~i~g~~gsGksti~~~la~~~~~~~~~   34 (225)
T PRK00023          5 IVIAIDGPAGSGKGTVAKILAKKLGFHYLD   34 (225)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            367789999999999999999999988764

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=95.78  E-value=0.0082  Score=56.56  Aligned_cols=29  Identities=21%  Similarity=0.175  Sum_probs=23.5

Q ss_pred             eeeecCCCCChHHHHHHHHHHh-Ccceeee
Q 012671          390 MLFYGPPGTGKTMVAREIARKS-EEMLHLL  418 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~-g~~~~~~  418 (458)
                      |.+.|+||+|||++|+.|+..+ +..++.+
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~~~~~~i~~   31 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRILPNCCVIHQ   31 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeEEcc
Confidence            4678999999999999999998 4444443

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.78  E-value=0.0065  Score=55.68  Aligned_cols=26  Identities=38%  Similarity=0.608  Sum_probs=23.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      .+++.||||+|||+++..|+..+.-.
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L~~~   32 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKLREK   32 (179)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhc
Confidence            78899999999999999999888655

>TIGR00235 udk uridine kinase

Probab=95.77  E-value=0.0072  Score=57.31  Aligned_cols=24  Identities=38%  Similarity=0.418  Sum_probs=21.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      -+.+.||||+|||+|+++|+..++
T Consensus         8 vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         8 IIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            455789999999999999998875

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>smart00350 MCM minichromosome maintenance proteins

Probab=95.76  E-value=0.009  Score=64.69  Aligned_cols=24  Identities=29%  Similarity=0.642  Sum_probs=22.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ||||+|+||||||++|+.++..+.
T Consensus       238 ~vLL~G~pGtGKs~lar~l~~~~~  261 (509)
T smart00350      238 NILLLGDPGTAKSQLLKYVEKTAP  261 (509)
T ss_pred             eEEEeCCCChhHHHHHHHHHHHcC
Confidence            899999999999999999998774

>PTZ00202 tuzin; Provisional

Probab=95.75  E-value=0.053  Score=57.47  Aligned_cols=59  Identities=17%  Similarity=0.204  Sum_probs=41.2

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ...+++|.......|..+....     ....++-++|.||+|||||++++.+...++...+.++
T Consensus       260 ~~~~FVGReaEla~Lr~VL~~~-----d~~~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vN  318 (550)
T PTZ00202        260 VIRQFVSREAEESWVRQVLRRL-----DTAHPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVD  318 (550)
T ss_pred             CccCCCCcHHHHHHHHHHHhcc-----CCCCceEEEEECCCCCCHHHHHHHHHhcCCceEEEEC
Confidence            3445777776666666554421     1223356779999999999999999999886655554

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=95.75  E-value=0.012  Score=60.95  Aligned_cols=34  Identities=29%  Similarity=0.562  Sum_probs=27.2

Q ss_pred             cCCCcc-eeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          384 QAPFRN-MLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       384 ~~p~rn-vLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +.|.+| ++|||||+|||++++-.|-+.++-.++.
T Consensus       258 g~PKKnClvi~GPPdTGKS~F~~SLi~Fl~GkViS  292 (432)
T PF00519_consen  258 GIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVIS  292 (432)
T ss_dssp             TBTTSSEEEEESSCCCSHHHHHHHHHHHHTSEEE-
T ss_pred             CCCcccEEEEECCCCCchhHHHHHHHHHhCCEEEE
Confidence            466665 6689999999999999999998766544

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>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=95.75  E-value=0.01  Score=54.38  Aligned_cols=30  Identities=30%  Similarity=0.406  Sum_probs=23.7

Q ss_pred             eeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          390 MLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ++|.||||+|||+++..++..+   |..+..+.
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~   35 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA   35 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            6789999999999999999876   44444443

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.75  E-value=0.0092  Score=55.99  Aligned_cols=22  Identities=41%  Similarity=0.530  Sum_probs=20.2

Q ss_pred             eeeecCCCCChHHHHHHHHHHh
Q 012671          390 MLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      |.+.||||+|||+|+++|+..+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5688999999999999999987

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.70  E-value=0.0084  Score=56.29  Aligned_cols=26  Identities=12%  Similarity=0.280  Sum_probs=22.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +++-++|.||||+|||+|++.|....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45678899999999999999998765

>PRK05973 replicative DNA helicase; Provisional

Probab=95.68  E-value=0.013  Score=57.20  Aligned_cols=35  Identities=26%  Similarity=0.351  Sum_probs=26.0

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .|..-+|+.|+||+|||+|+-.++...   |.+.+.++
T Consensus        62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS   99 (237)
T PRK05973         62 KPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT   99 (237)
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            334467889999999999988877654   66655554

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.67  E-value=0.015  Score=57.96  Aligned_cols=27  Identities=37%  Similarity=0.556  Sum_probs=24.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +.|++++||||+|||+|.+.|+..+..
T Consensus       111 ~~~~~i~g~~g~GKttl~~~l~~~~~~  137 (270)
T TIGR02858       111 VLNTLIISPPQCGKTTLLRDLARILST  137 (270)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHhCccCC
Confidence            469999999999999999999988753

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.

>PRK06761 hypothetical protein; Provisional

Probab=95.63  E-value=0.01  Score=59.49  Aligned_cols=26  Identities=23%  Similarity=0.365  Sum_probs=23.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      -++|.||||+|||++++.|+..+...
T Consensus         5 lIvI~G~~GsGKTTla~~L~~~L~~~   30 (282)
T PRK06761          5 LIIIEGLPGFGKSTTAKMLNDILSQN   30 (282)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCcC
Confidence            47889999999999999999998653

>TIGR00376 DNA helicase, putative

Probab=95.61  E-value=0.0077  Score=66.93  Aligned_cols=32  Identities=34%  Similarity=0.462  Sum_probs=24.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ..+|++||||||||+++..+..++   |..++..+
T Consensus       174 ~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a  208 (637)
T TIGR00376       174 DLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTA  208 (637)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEc
Confidence            378899999999999888877664   55554443

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=95.59  E-value=0.03  Score=52.15  Aligned_cols=48  Identities=21%  Similarity=0.248  Sum_probs=35.0

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhhhh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~~g  432 (458)
                      ..+.-+.|.|.||.|||++|.+|...+   |...+.+.+.+.-.-+++-+|
T Consensus        21 ~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR~gL~~dLg   71 (197)
T COG0529          21 QKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVRHGLNRDLG   71 (197)
T ss_pred             CCCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhHhhcccCCCC
Confidence            334577899999999999999999887   667777765544444444444

>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=95.59  E-value=0.0088  Score=56.67  Aligned_cols=26  Identities=27%  Similarity=0.484  Sum_probs=21.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      |+-++|.||+|+|||+.+-.||..+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~   26 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLK   26 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHh
Confidence            35688999999999998888887663

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 ....

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=95.58  E-value=0.011  Score=59.07  Aligned_cols=65  Identities=17%  Similarity=0.225  Sum_probs=45.2

Q ss_pred             ccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc--ceeeeccccchhhhh
Q 012671          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE--MLHLLVHRLLPRSMR  428 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~--~~~~~~~~~~se~~~  428 (458)
                      +..||+-...+...-+......   +....+.+|+.||||||||-+|-.+++.+|.  +|..++   +|++.+
T Consensus        40 ~GmVGQ~~AR~Aagvi~kmi~e---gkiaGraiLiaG~pgtGKtAiAmg~sksLG~~tpF~~i~---gSEI~S  106 (454)
T KOG2680|consen   40 EGMVGQVKARKAAGVILKMIRE---GKIAGRAILIAGQPGTGKTAIAMGMSKSLGDDTPFTSIS---GSEIYS  106 (454)
T ss_pred             ccchhhHHHHHHhHHHHHHHHc---CcccceEEEEecCCCCCceeeeeehhhhhCCCCceeeee---cceeee
Confidence            3456666665555444444333   2334679999999999999999999999985  677777   555443

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=95.58  E-value=0.012  Score=60.19  Aligned_cols=27  Identities=30%  Similarity=0.381  Sum_probs=24.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..+||+||+|+|||.+|..+|..+..
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC   48 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLC   48 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcC
Confidence            447999999999999999999998854

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.58  E-value=0.013  Score=56.23  Aligned_cols=35  Identities=26%  Similarity=0.278  Sum_probs=25.0

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+...++++||||||||+|+..++...   |...+.++
T Consensus        18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881        18 PRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             cCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            344588899999999999998876432   44444444

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.

>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=95.56  E-value=0.014  Score=57.43  Aligned_cols=26  Identities=38%  Similarity=0.561  Sum_probs=22.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHH
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ...+-|.++|++|+|||.||..+++.
T Consensus        17 ~~~~~v~I~G~~G~GKT~LA~~~~~~   42 (287)
T PF00931_consen   17 NEVRVVAIVGMGGIGKTTLARQVARD   42 (287)
T ss_dssp             TSSEEEEEEESTTSSHHHHHHHHHCH
T ss_pred             CCeEEEEEEcCCcCCcceeeeecccc
Confidence            34567889999999999999999977

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.

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=95.55  E-value=0.015  Score=59.24  Aligned_cols=25  Identities=36%  Similarity=0.596  Sum_probs=22.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..|+|+.||||+|||+++.+|+...
T Consensus       148 ~~~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        148 HRNILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhh
Confidence            4699999999999999999999874

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=95.54  E-value=0.0099  Score=66.98  Aligned_cols=29  Identities=28%  Similarity=0.328  Sum_probs=26.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .+.+-||||||||++|+.||..+|+.|+.
T Consensus         3 ~i~I~G~~GsGKST~ak~la~~l~~~~~~   31 (712)
T PRK09518          3 IVAIDGPAGVGKSSVSRALAQYLGYAYLD   31 (712)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEee
Confidence            57789999999999999999999987764

>PRK12337 2-phosphoglycerate kinase; Provisional

Probab=95.54  E-value=0.011  Score=62.69  Aligned_cols=31  Identities=23%  Similarity=0.229  Sum_probs=27.5

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      .+.-++|+|+||||||++|..||..+|+..+
T Consensus       254 ~p~vil~~G~~G~GKSt~a~~LA~~lg~~~i  284 (475)
T PRK12337        254 RPLHVLIGGVSGVGKSVLASALAYRLGITRI  284 (475)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHcCCcEE
Confidence            4678899999999999999999999998643

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=95.53  E-value=0.017  Score=56.58  Aligned_cols=61  Identities=18%  Similarity=0.195  Sum_probs=42.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhh--hhhhhhhhhHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIG--RRNQRKACCFLLTRLM  448 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~g--e~~~~~~~i~~lf~~a  448 (458)
                      +.-+|+-|+||+|||++|.-||..+|.+-++-+ ..+-++++++++  ...-+....|..++..
T Consensus        89 p~IILIGGasGVGkStIA~ElA~rLgI~~visT-D~IREvlR~ii~~~l~PtLh~Ssy~Awkal  151 (299)
T COG2074          89 PLIILIGGASGVGKSTIAGELARRLGIRSVIST-DSIREVLRKIISPELLPTLHTSSYDAWKAL  151 (299)
T ss_pred             CeEEEecCCCCCChhHHHHHHHHHcCCceeecc-hHHHHHHHHhCCHHhcchhhHhHHHHHHHh
Confidence            457788899999999999999999998875533 334667777776  2233334455555544

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=95.51  E-value=0.011  Score=51.85  Aligned_cols=29  Identities=31%  Similarity=0.273  Sum_probs=24.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      ..-|+|+|+=|+|||+|++.++..+|.+-
T Consensus        15 g~vi~L~GdLGaGKTtf~r~l~~~lg~~~   43 (123)
T PF02367_consen   15 GDVILLSGDLGAGKTTFVRGLARALGIDE   43 (123)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHHHHTT--S
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHcCCCC
Confidence            35688999999999999999999998864

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.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=95.51  E-value=0.025  Score=53.65  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=20.0

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      +-++|.||+|+|||+|.+.|+.
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~   47 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGV   47 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHH
Confidence            5778999999999999999994

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.50  E-value=0.018  Score=55.90  Aligned_cols=33  Identities=18%  Similarity=0.207  Sum_probs=23.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ...++++||||||||++|..++...   |...+.++
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            4578899999999999986655433   44444444

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.49  E-value=0.01  Score=56.06  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=22.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      -+++.||+|+|||++..+|...+..
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~   27 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINK   27 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh
Confidence            4788999999999999999988753

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.

>PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional

Probab=95.49  E-value=0.012  Score=63.67  Aligned_cols=29  Identities=31%  Similarity=0.501  Sum_probs=25.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      ..+.+.||||||||++|+.||..+|+.++
T Consensus       285 ~ii~i~G~sgsGKst~a~~la~~l~~~~~  313 (512)
T PRK13477        285 PIIAIDGPAGAGKSTVTRAVAKKLGLLYL  313 (512)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCeEe
Confidence            47788999999999999999999986654

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.47  E-value=0.014  Score=55.78  Aligned_cols=32  Identities=28%  Similarity=0.529  Sum_probs=24.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .-++++||||+|||.+|..++...   |...+.++
T Consensus        24 ~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~   58 (225)
T PRK09361         24 TITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID   58 (225)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            357899999999999999999754   55555444

>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=95.47  E-value=0.021  Score=56.86  Aligned_cols=31  Identities=23%  Similarity=0.402  Sum_probs=21.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      -|+|+|.||+|||++|+.|...+   +..+.+++
T Consensus         3 Liil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~   36 (270)
T PF08433_consen    3 LIILCGLPCSGKTTRAKELKKYLEEKGKEVVIIS   36 (270)
T ss_dssp             EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEc
Confidence            47899999999999999999985   45665555

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=95.46  E-value=0.013  Score=60.02  Aligned_cols=33  Identities=24%  Similarity=0.375  Sum_probs=27.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..|+|+.||+|+|||++..+|......+..+++
T Consensus       160 ~~nili~G~tgSGKTTll~aL~~~ip~~~ri~t  192 (332)
T PRK13900        160 KKNIIISGGTSTGKTTFTNAALREIPAIERLIT  192 (332)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHhhCCCCCeEEE
Confidence            469999999999999999999998876554444

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.46  E-value=0.034  Score=57.93  Aligned_cols=35  Identities=23%  Similarity=0.355  Sum_probs=26.3

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+..-+|++||||+|||+|+..++...   |..++.++
T Consensus        80 ~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          80 VPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            344567899999999999999998765   33455555

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.

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=95.46  E-value=0.012  Score=59.59  Aligned_cols=29  Identities=28%  Similarity=0.520  Sum_probs=24.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      .-+++.||+|+|||.+|..||..++..++
T Consensus         5 ~~i~i~GptgsGKt~la~~la~~~~~~ii   33 (307)
T PRK00091          5 KVIVIVGPTASGKTALAIELAKRLNGEII   33 (307)
T ss_pred             eEEEEECCCCcCHHHHHHHHHHhCCCcEE
Confidence            35778999999999999999999876543

>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=95.45  E-value=0.015  Score=54.68  Aligned_cols=26  Identities=38%  Similarity=0.802  Sum_probs=23.4

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +...+++|||.|+|||+|++.+...+
T Consensus        19 ~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen   19 PSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             -SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             cCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            34689999999999999999999988

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

>PRK07667 uridine kinase; Provisional

Probab=95.45  E-value=0.01  Score=55.89  Aligned_cols=25  Identities=16%  Similarity=0.154  Sum_probs=21.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .-|.+.|+||+|||++|..|+..++
T Consensus        18 ~iIgI~G~~gsGKStla~~L~~~l~   42 (193)
T PRK07667         18 FILGIDGLSRSGKTTFVANLKENMK   42 (193)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3566899999999999999999874

>TIGR00152 dephospho-CoA kinase

Probab=95.43  E-value=0.023  Score=53.01  Aligned_cols=29  Identities=28%  Similarity=0.203  Sum_probs=25.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      |.++|++|||||++++.|+...|.+++..
T Consensus         2 i~itG~~gsGKst~~~~l~~~~~~~~i~~   30 (188)
T TIGR00152         2 IGLTGGIGSGKSTVANYLADKYHFPVIDA   30 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCeEEeC
Confidence            57899999999999999999876777654

This model produces scores in the range of 0-25 bits against adenylate, guanylate, uridine, and thymidylate kinases.

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.42  E-value=0.011  Score=56.29  Aligned_cols=24  Identities=25%  Similarity=0.429  Sum_probs=20.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ++-++|+||||+|||+|+..|...
T Consensus        13 ~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         13 PLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhc
Confidence            346778999999999999999753

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.40  E-value=0.012  Score=58.08  Aligned_cols=33  Identities=15%  Similarity=0.305  Sum_probs=24.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ..-+|++||||||||.||..++.+.   |-+.+.++
T Consensus        36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis   71 (259)
T TIGR03878        36 YSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT   71 (259)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            3467789999999999999877643   55555554

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

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.37  E-value=0.016  Score=54.73  Aligned_cols=32  Identities=31%  Similarity=0.448  Sum_probs=23.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +-+++.||||||||++.+.+...+   |..++.+.
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~a   53 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLA   53 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEEC
Confidence            357788999999999999887665   44555543

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.36  E-value=0.047  Score=55.04  Aligned_cols=27  Identities=19%  Similarity=0.352  Sum_probs=23.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+...+.|.||||+|||+|+..|+..+
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~~~   58 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGMEL   58 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            445688899999999999999999876

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.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.36  E-value=0.0092  Score=61.41  Aligned_cols=22  Identities=41%  Similarity=0.611  Sum_probs=19.6

Q ss_pred             eeeecCCCCChHHHHHHHHHHh
Q 012671          390 MLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +-|.||+|||||++.++||..-
T Consensus        34 ~~lLGPSGcGKTTlLR~IAGfe   55 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAGFE   55 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5589999999999999999754

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=95.35  E-value=0.023  Score=54.39  Aligned_cols=34  Identities=21%  Similarity=0.212  Sum_probs=25.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +...++++||||+|||.+|..++...   |...+.++
T Consensus        15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s   51 (224)
T TIGR03880        15 EGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYIS   51 (224)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            34578889999999999999888553   55554544

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.33  E-value=0.013  Score=62.31  Aligned_cols=26  Identities=31%  Similarity=0.459  Sum_probs=23.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++..++|+||||+|||+++..||..+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L  119 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYF  119 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46789999999999999999999877

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=95.33  E-value=0.019  Score=53.28  Aligned_cols=29  Identities=24%  Similarity=0.589  Sum_probs=24.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      .+-++|.||+|+|||+|++.|.......|
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~   30 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKF   30 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhccccc
Confidence            36789999999999999999998875433

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 ....

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=95.32  E-value=0.017  Score=59.06  Aligned_cols=26  Identities=38%  Similarity=0.362  Sum_probs=23.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..+||+||+|+|||.+|..+|..+.
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~ll   46 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQALL   46 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHc
Confidence            34799999999999999999999874

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=95.26  E-value=0.033  Score=59.34  Aligned_cols=58  Identities=24%  Similarity=0.350  Sum_probs=42.8

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      .+.++||....-..+...+.....+      ..+||++|.+||||.++|++|...+.   -+|+.++
T Consensus       139 ~~~~liG~S~am~~l~~~i~kvA~s------~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavN  199 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKVAPS------DASVLITGESGTGKELVARAIHQASPRAKGPFIAVN  199 (464)
T ss_pred             ccCCceecCHHHHHHHHHHHHHhCC------CCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeee
Confidence            4556777776666555554443221      24899999999999999999999984   5888877

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=95.25  E-value=0.012  Score=60.39  Aligned_cols=25  Identities=36%  Similarity=0.594  Sum_probs=21.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .-+.|.||+|||||++.+.||.--.
T Consensus        30 ef~vllGPSGcGKSTlLr~IAGLe~   54 (338)
T COG3839          30 EFVVLLGPSGCGKSTLLRMIAGLEE   54 (338)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4577899999999999999997553

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.25  E-value=0.053  Score=58.39  Aligned_cols=35  Identities=26%  Similarity=0.324  Sum_probs=26.8

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+...+|+.||||||||+|+...+...   |-..+.++
T Consensus       261 ~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s  298 (484)
T TIGR02655       261 FKDSIILATGATGTGKTLLVSKFLENACANKERAILFA  298 (484)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            344578899999999999998888755   55555555

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=95.25  E-value=0.012  Score=56.29  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=19.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+++.||.|||||+||.+.|.++
T Consensus        21 ~v~~~G~AGTGKT~LA~a~Al~~   43 (205)
T PF02562_consen   21 LVIVNGPAGTGKTFLALAAALEL   43 (205)
T ss_dssp             EEEEE--TTSSTTHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Confidence            78889999999999999999766

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=95.21  E-value=0.024  Score=58.66  Aligned_cols=25  Identities=24%  Similarity=0.372  Sum_probs=22.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ...++++||+|+|||++.++|..++
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~i  158 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIREL  158 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578999999999999999999887

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.

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=95.21  E-value=0.019  Score=57.95  Aligned_cols=26  Identities=31%  Similarity=0.496  Sum_probs=23.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..|+|+.||+|+|||+++++|.....
T Consensus       132 ~~~ilI~G~tGSGKTTll~al~~~i~  157 (299)
T TIGR02782       132 RKNILVVGGTGSGKTTLANALLAEIA  157 (299)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            46999999999999999999998863

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.

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=95.20  E-value=0.014  Score=64.35  Aligned_cols=33  Identities=27%  Similarity=0.283  Sum_probs=27.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc--ceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE--MLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~--~~~~~~  419 (458)
                      ..+|||.|+||||||++|++|+..++.  +|+.+.
T Consensus        16 ~g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~   50 (589)
T TIGR02031        16 LGGVAIRARAGTGKTALARALAEILPPIMPFVELP   50 (589)
T ss_pred             cceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecC
Confidence            459999999999999999999998864  466555

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.17  E-value=0.029  Score=54.05  Aligned_cols=35  Identities=23%  Similarity=0.282  Sum_probs=26.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      .+..-+++.||||+|||+|+..++...    |.+++.++
T Consensus        11 ~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s   49 (242)
T cd00984          11 QPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS   49 (242)
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe
Confidence            344578889999999999998887665    66665555

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.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=95.13  E-value=0.018  Score=55.18  Aligned_cols=25  Identities=24%  Similarity=0.309  Sum_probs=21.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.++||||||||.||..++...
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~~   43 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVTV   43 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHe
Confidence            3467799999999999999998653

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 .

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=95.11  E-value=0.02  Score=57.56  Aligned_cols=29  Identities=24%  Similarity=0.485  Sum_probs=24.6

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +++.||+|+|||.||..|+..++..++.+
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~~~~iis~   30 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKLNAEIISV   30 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCcEEEe
Confidence            67899999999999999999987655443

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.10  E-value=0.025  Score=56.39  Aligned_cols=27  Identities=33%  Similarity=0.426  Sum_probs=23.1

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+++-++|+||||+|||+++..||..+
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l   96 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKL   96 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            345678899999999999999999877

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=95.09  E-value=0.015  Score=52.39  Aligned_cols=24  Identities=29%  Similarity=0.731  Sum_probs=21.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.++|.||+|||||+|+.+|-..-
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            468999999999999999998643

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK04328 hypothetical protein; Provisional

Probab=95.08  E-value=0.031  Score=54.84  Aligned_cols=34  Identities=24%  Similarity=0.330  Sum_probs=24.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHH---hCcceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARK---SEEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~---~g~~~~~~~  419 (458)
                      +...+|++||||||||.||..++..   .|.+.+.++
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            3457888999999999998876644   255555554

>smart00072 GuKc Guanylate kinase homologues

Probab=95.07  E-value=0.02  Score=53.25  Aligned_cols=24  Identities=29%  Similarity=0.612  Sum_probs=22.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +-++|.||||+||++++..|....
T Consensus         3 r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        3 RPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhcC
Confidence            568899999999999999999885

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.

>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=95.07  E-value=0.033  Score=57.24  Aligned_cols=59  Identities=22%  Similarity=0.233  Sum_probs=38.5

Q ss_pred             cccCChHHHHHHHHHHHHHHhhhhhcCC-CcceeeecCCCCChHHHHHHHHHHhC-cceeeecc
Q 012671          359 DIILHPSLQRRIQHLAKATANTKIHQAP-FRNMLFYGPPGTGKTMVAREIARKSE-EMLHLLVH  420 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~~~~~~~p-~rnvLl~GPPGTGKT~lAkaLA~~~g-~~~~~~~~  420 (458)
                      ++.|.   .+.|..|+........+... .+-++|+||+|+|||+|+..|.+-+- .++|.+..
T Consensus        62 ~~~G~---~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y~~Y~l~~  122 (358)
T PF08298_consen   62 EFYGM---EETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEYPIYTLKG  122 (358)
T ss_pred             cccCc---HHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheEEEEEecC
Confidence            45543   44555556554444443333 34677899999999999999998773 45555543

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=95.04  E-value=0.019  Score=53.50  Aligned_cols=27  Identities=26%  Similarity=0.391  Sum_probs=23.2

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCccee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      |.+.|++|||||++++.|+..+|..++
T Consensus         2 I~ieG~~GsGKSTl~~~L~~~~~~~~~   28 (193)
T cd01673           2 IVVEGNIGAGKSTLAKELAEHLGYEVV   28 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCccc
Confidence            578999999999999999998876443

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.03  E-value=0.028  Score=60.54  Aligned_cols=35  Identities=26%  Similarity=0.276  Sum_probs=26.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHH----hCcceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARK----SEEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~----~g~~~~~~~  419 (458)
                      .+.+.+|++||||||||+||...+.+    .|-+.+.++
T Consensus        19 p~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs   57 (484)
T TIGR02655        19 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVT   57 (484)
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            34568999999999999999988543    256666665

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.

>PRK00081 coaE dephospho-CoA kinase; Reviewed

Probab=95.01  E-value=0.022  Score=53.65  Aligned_cols=28  Identities=25%  Similarity=0.169  Sum_probs=24.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .|.++||+|+|||++++.|+. +|.+++.
T Consensus         4 ~i~ltG~~gsGKst~~~~l~~-~g~~~i~   31 (194)
T PRK00081          4 IIGLTGGIGSGKSTVANLFAE-LGAPVID   31 (194)
T ss_pred             EEEEECCCCCCHHHHHHHHHH-cCCEEEE
Confidence            588999999999999999998 8877655

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.00  E-value=0.017  Score=53.84  Aligned_cols=26  Identities=27%  Similarity=0.317  Sum_probs=22.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..|.|.||||+|||++++.|+.+++.
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            35778999999999999999999843

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.

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=94.99  E-value=0.028  Score=60.59  Aligned_cols=50  Identities=24%  Similarity=0.381  Sum_probs=33.7

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ...|+++.+.++....+..++..         +..-+|++||+|+|||++..++-..+.
T Consensus       218 ~~~l~~Lg~~~~~~~~l~~~~~~---------~~GlilitGptGSGKTTtL~a~L~~l~  267 (486)
T TIGR02533       218 RLDLETLGMSPELLSRFERLIRR---------PHGIILVTGPTGSGKTTTLYAALSRLN  267 (486)
T ss_pred             CCCHHHcCCCHHHHHHHHHHHhc---------CCCEEEEEcCCCCCHHHHHHHHHhccC
Confidence            34666666666655555543322         222478999999999999998777664

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>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=94.97  E-value=0.018  Score=49.28  Aligned_cols=22  Identities=36%  Similarity=0.456  Sum_probs=19.9

Q ss_pred             CcceeeecCCCCChHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIA  408 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA  408 (458)
                      ...++|.||+|+|||+|++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3578999999999999999987

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

>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=94.96  E-value=0.013  Score=51.28  Aligned_cols=28  Identities=25%  Similarity=0.415  Sum_probs=24.0

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+...+.+.||+|+|||+|.++|+....
T Consensus         9 ~~g~~~~i~G~nGsGKStLl~~l~g~~~   36 (137)
T PF00005_consen    9 KPGEIVAIVGPNGSGKSTLLKALAGLLP   36 (137)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHTTSSH
T ss_pred             cCCCEEEEEccCCCccccceeeeccccc
Confidence            3456888999999999999999998764

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 ....

>PLN02840 tRNA dimethylallyltransferase

Probab=94.94  E-value=0.021  Score=60.10  Aligned_cols=30  Identities=27%  Similarity=0.465  Sum_probs=25.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      -+++.||+|+|||.|+..|+..++..++.+
T Consensus        23 vi~I~GptgsGKTtla~~La~~~~~~iis~   52 (421)
T PLN02840         23 VIVISGPTGAGKSRLALELAKRLNGEIISA   52 (421)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCCeEec
Confidence            578899999999999999999998665443

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=94.92  E-value=0.032  Score=55.36  Aligned_cols=48  Identities=23%  Similarity=0.329  Sum_probs=31.9

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .|+++...++....+..+..         .+...+|+.||+|+|||++..++...+.
T Consensus        58 ~l~~lg~~~~~~~~l~~~~~---------~~~GlilisG~tGSGKTT~l~all~~i~  105 (264)
T cd01129          58 DLEKLGLKPENLEIFRKLLE---------KPHGIILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             CHHHcCCCHHHHHHHHHHHh---------cCCCEEEEECCCCCcHHHHHHHHHhhhC
Confidence            45555555554444433321         1223689999999999999999987764

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.

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

Probab=94.92  E-value=0.02  Score=56.36  Aligned_cols=28  Identities=29%  Similarity=0.373  Sum_probs=24.5

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ....++++||||||||+|++.|++.+..
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccc
Confidence            3458999999999999999999988754

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.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=94.88  E-value=0.021  Score=57.85  Aligned_cols=29  Identities=21%  Similarity=0.398  Sum_probs=25.0

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ...++++.||+|+|||++.++|...+..+
T Consensus       143 ~~~~ili~G~tGsGKTTll~al~~~~~~~  171 (308)
T TIGR02788       143 SRKNIIISGGTGSGKTTFLKSLVDEIPKD  171 (308)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccCCcc
Confidence            35699999999999999999999887543

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.

>PRK05439 pantothenate kinase; Provisional

Probab=94.82  E-value=0.05  Score=55.26  Aligned_cols=25  Identities=20%  Similarity=0.130  Sum_probs=21.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      --|.+.||||+|||++|+.|+..++
T Consensus        87 ~iIgIaG~~gsGKSTla~~L~~~l~  111 (311)
T PRK05439         87 FIIGIAGSVAVGKSTTARLLQALLS  111 (311)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3566899999999999999998764

>PRK10646 ADP-binding protein; Provisional

Probab=94.80  E-value=0.056  Score=49.28  Aligned_cols=28  Identities=25%  Similarity=0.389  Sum_probs=25.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..-|+|.|+=|+|||+|+++|++.+|.+
T Consensus        28 g~vi~L~GdLGaGKTtf~rgl~~~Lg~~   55 (153)
T PRK10646         28 ATVIYLYGDLGAGKTTFSRGFLQALGHQ   55 (153)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            3467899999999999999999999974

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=94.79  E-value=0.067  Score=58.79  Aligned_cols=27  Identities=30%  Similarity=0.426  Sum_probs=24.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|+|+|+||||||++|+.|+..++.
T Consensus       392 g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        392 GFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             CeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            347889999999999999999999986

>PTZ00301 uridine kinase; Provisional

Probab=94.78  E-value=0.032  Score=53.48  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.4

Q ss_pred             eeeecCCCCChHHHHHHHHHHh
Q 012671          390 MLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      |.+.||||+|||+||..|+..+
T Consensus         6 IgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          6 IGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             EEEECCCcCCHHHHHHHHHHHH
Confidence            5578999999999999998765

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=94.78  E-value=0.023  Score=52.74  Aligned_cols=29  Identities=21%  Similarity=0.292  Sum_probs=24.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+...+++.||+||||++|-|.||.....
T Consensus        27 ~~Ge~iaitGPSG~GKStllk~va~Lisp   55 (223)
T COG4619          27 RAGEFIAITGPSGCGKSTLLKIVASLISP   55 (223)
T ss_pred             cCCceEEEeCCCCccHHHHHHHHHhccCC
Confidence            34558899999999999999999986543

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=94.76  E-value=0.03  Score=57.55  Aligned_cols=26  Identities=23%  Similarity=0.353  Sum_probs=23.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..++|+.||+|+|||++.++|...+.
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~  147 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYIN  147 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            35889999999999999999998775

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.

>TIGR02012 tigrfam_recA protein RecA

Probab=94.76  E-value=0.024  Score=57.77  Aligned_cols=24  Identities=33%  Similarity=0.559  Sum_probs=20.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +-+++|||||||||+||..++...
T Consensus        56 ~iteI~G~~GsGKTtLaL~~~~~~   79 (321)
T TIGR02012        56 RIIEIYGPESSGKTTLALHAIAEA   79 (321)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            467799999999999988776554

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.

>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=94.75  E-value=0.024  Score=47.95  Aligned_cols=24  Identities=25%  Similarity=0.436  Sum_probs=20.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCc
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      |++.|++|+|||+|.+.|+.....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~~   25 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEFP   25 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS--
T ss_pred             EEEECcCCCCHHHHHHHHhcCCCc
Confidence            788999999999999999976544

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.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=94.73  E-value=0.035  Score=57.17  Aligned_cols=28  Identities=25%  Similarity=0.253  Sum_probs=24.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..+||+||+|+|||.+|..+|..+..
T Consensus        20 l~ha~Lf~Gp~G~GK~~lA~~~A~~LlC   47 (342)
T PRK06964         20 LPHALLLHGQAGIGKLDFAQHLAQGLLC   47 (342)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHHcC
Confidence            3458999999999999999999988855

>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=94.71  E-value=0.025  Score=55.25  Aligned_cols=27  Identities=26%  Similarity=0.468  Sum_probs=21.5

Q ss_pred             ecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          393 YGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       393 ~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      .||||+|||++++++..++.   .+++.++
T Consensus         2 iGpaGSGKTT~~~~~~~~~~~~~~~~~~vN   31 (238)
T PF03029_consen    2 IGPAGSGKTTFCKGLSEWLESNGRDVYIVN   31 (238)
T ss_dssp             EESTTSSHHHHHHHHHHHHTTT-S-EEEEE
T ss_pred             CCCCCCCHHHHHHHHHHHHHhccCCceEEE
Confidence            69999999999999999884   4455554

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

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

Probab=94.70  E-value=0.043  Score=53.92  Aligned_cols=35  Identities=20%  Similarity=0.148  Sum_probs=27.0

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      .+...+++.||||+|||+++..++...    |..++.++
T Consensus        28 ~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS   66 (271)
T cd01122          28 RKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS   66 (271)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence            344578899999999999999887764    66665555

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

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=94.68  E-value=3.5  Score=46.20  Aligned_cols=21  Identities=14%  Similarity=0.159  Sum_probs=10.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 012671          101 KQEQTRLAELDVEKVHYEAIQ  121 (458)
Q Consensus       101 ~~e~t~q~e~~~~~~e~~~~~  121 (458)
                      .||..|+.-|+.-.+|++...
T Consensus       313 TFEDKrkeNy~kGqaELerRR  333 (1118)
T KOG1029|consen  313 TFEDKRKENYEKGQAELERRR  333 (1118)
T ss_pred             chhhhhHHhHhhhhHHHHHHH
Confidence            355555555555555554443

>PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae

Probab=94.67  E-value=0.034  Score=51.81  Aligned_cols=31  Identities=26%  Similarity=0.458  Sum_probs=27.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      -|+|.|||-+|||++|++|...+..+|+++.
T Consensus         3 iI~LNG~sSSGKSsia~~Lq~~~~~p~~~l~   33 (174)
T PF07931_consen    3 IIILNGPSSSGKSSIARALQERLPEPWLHLS   33 (174)
T ss_dssp             EEEEEE-TTSSHHHHHHHHHHHSSS-EEEEE
T ss_pred             EEEEeCCCCCCHHHHHHHHHHhCcCCeEEEe
Confidence            5789999999999999999999999998887

Chloramphenicol (Cm) is a metabolite produced by this bacterium that can inhibit ribosomal peptidyl transferase activity and therefore protein production. By transferring a phosphate group to the C-3 hydroxyl group of Cm, CPT inactivates this potentially lethal metabolite [, ]. ; GO: 0005524 ATP binding, 0016740 transferase activity; PDB: 1QHX_A 1QHN_A 1GRR_A 1QHY_A 1QHS_A 1GRQ_A.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.67  E-value=0.065  Score=56.53  Aligned_cols=24  Identities=38%  Similarity=0.678  Sum_probs=21.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .-++|.||+|+|||+++..||...
T Consensus       224 ~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        224 KVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            458899999999999999999754

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.67  E-value=0.045  Score=57.36  Aligned_cols=25  Identities=28%  Similarity=0.517  Sum_probs=22.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++.++|.||+|+|||+++..||..+
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L  265 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQF  265 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHH
Confidence            4688999999999999999999876

>PRK04132 replication factor C small subunit; Provisional

Probab=94.66  E-value=0.02  Score=65.28  Aligned_cols=42  Identities=31%  Similarity=0.646  Sum_probs=32.4

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHH
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTM  402 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~  402 (458)
                      .+..|+|++|++.+...+...+..        ....++||+||||+||++
T Consensus        14 RP~~f~dIiGqe~i~~~Lk~~i~~--------~~i~h~l~~g~~g~~~cl   55 (846)
T PRK04132         14 RPQRLDDIVGQEHIVKRLKHYVKT--------GSMPHLLFAGPPGVGKCL   55 (846)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc--------CCCCeEEEECCCCCCccc
Confidence            345899999999999877765543        233478999999999964

>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=94.65  E-value=0.024  Score=54.58  Aligned_cols=23  Identities=22%  Similarity=0.241  Sum_probs=20.2

Q ss_pred             eeeecCCCCChHHHHHHHHHHhC
Q 012671          390 MLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +-+.||||+|||+||+.|+..+.
T Consensus         2 igI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHh
Confidence            34779999999999999999873

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A

Probab=94.63  E-value=0.021  Score=52.61  Aligned_cols=28  Identities=25%  Similarity=0.396  Sum_probs=23.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      .-.+|+||.|||||+++.+|...++-..
T Consensus        20 g~~vi~G~Ng~GKStil~ai~~~L~~~~   47 (202)
T PF13476_consen   20 GLNVIYGPNGSGKSTILEAIRYALGGQS   47 (202)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHSS-
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence            3567899999999999999998886543

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.59  E-value=0.026  Score=59.73  Aligned_cols=25  Identities=28%  Similarity=0.405  Sum_probs=21.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+.++|.||+|+|||+++..||..+
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~  245 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY  245 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3588999999999999998888654

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.59  E-value=0.026  Score=59.10  Aligned_cols=25  Identities=32%  Similarity=0.501  Sum_probs=22.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..++|+||+|+|||+++..||..+
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~  198 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIY  198 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999999765

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=94.58  E-value=0.064  Score=57.15  Aligned_cols=66  Identities=26%  Similarity=0.276  Sum_probs=46.4

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeeccccchhhhh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLVHRLLPRSMR  428 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~~~~~se~~~  428 (458)
                      ...+.++||....-..+.+.+.....      ...+||++|-+||||..+|++|-..++   -+|+.++   ++.+.+
T Consensus       219 ~~~~~~iIG~S~am~~ll~~i~~VA~------Sd~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~N---CAAlPe  287 (550)
T COG3604         219 VLEVGGIIGRSPAMRQLLKEIEVVAK------SDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLN---CAALPE  287 (550)
T ss_pred             hcccccceecCHHHHHHHHHHHHHhc------CCCeEEEecCCCccHHHHHHHHHhhCcccCCCceeee---ccccch
Confidence            55677789888766644444333211      124899999999999999999999884   6787777   544433

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=94.58  E-value=0.036  Score=51.31  Aligned_cols=29  Identities=21%  Similarity=0.316  Sum_probs=24.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|+.||||+|||.+|..++...|.+.+.+
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~   30 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPVTYI   30 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEE
Confidence            57899999999999999998877555443

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.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=94.57  E-value=0.059  Score=57.34  Aligned_cols=58  Identities=24%  Similarity=0.285  Sum_probs=38.1

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      .+.++++.......+...+...      ......+|++|++|||||++|++|...+.   .+|+.++
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~------~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~  196 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRL------SRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALN  196 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHH------hccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeee
Confidence            3455666654444333222211      12234899999999999999999999874   5677776

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

Probab=94.57  E-value=0.035  Score=52.94  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=20.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .-+.++||||||||.||..++...
T Consensus        20 ~v~~I~G~~GsGKT~l~~~ia~~~   43 (226)
T cd01393          20 RITEIFGEFGSGKTQLCLQLAVEA   43 (226)
T ss_pred             cEEEEeCCCCCChhHHHHHHHHHh
Confidence            356799999999999999998764

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.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=94.56  E-value=0.025  Score=56.11  Aligned_cols=48  Identities=27%  Similarity=0.523  Sum_probs=32.7

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+.++.+.+....+..+..        ..-+.|+|||||+|+||-+.+.||-+++
T Consensus        11 sl~~l~~~~e~~~~Lksl~~--------~~d~PHll~yGPSGaGKKTrimclL~el   58 (351)
T KOG2035|consen   11 SLDELIYHEELANLLKSLSS--------TGDFPHLLVYGPSGAGKKTRIMCLLREL   58 (351)
T ss_pred             hhhhcccHHHHHHHHHHhcc--------cCCCCeEEEECCCCCCchhhHHHHHHHH
Confidence            45556666655554443322        1223499999999999999999888887

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=94.55  E-value=0.045  Score=43.82  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=20.2

Q ss_pred             eeeecCCCCChHHHHHHHHHHh
Q 012671          390 MLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++++|.+|+|||+++..|+..+
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l   23 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAAL   23 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5788999999999999999987

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.53  E-value=0.029  Score=57.18  Aligned_cols=26  Identities=31%  Similarity=0.314  Sum_probs=22.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++.-++|.||||+|||+++..||..+
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            34578899999999999999999877

>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional

Probab=94.51  E-value=0.031  Score=63.97  Aligned_cols=34  Identities=26%  Similarity=0.380  Sum_probs=28.5

Q ss_pred             cCCCc--ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          384 QAPFR--NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       384 ~~p~r--nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +.|..  .|.+-||||||||++|+.||..+|+.|+.
T Consensus        29 ~~~m~~~~i~idG~~gsGKst~~~~la~~l~~~~~~   64 (863)
T PRK12269         29 CRPMGTVIIALDGPAGSGKSSVCRLLASRLGAQCLN   64 (863)
T ss_pred             ecccCceEEEEECCCCCCHHHHHHHHHHHhCCcEEe
Confidence            44544  57788999999999999999999988765

>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase

Probab=94.50  E-value=0.032  Score=60.58  Aligned_cols=31  Identities=23%  Similarity=0.371  Sum_probs=25.8

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      .++.-|+|+|+||+|||++|+.++...|..+
T Consensus       367 ~~p~LVil~G~pGSGKST~A~~l~~~~g~~~  397 (526)
T TIGR01663       367 APCEMVIAVGFPGAGKSHFCKKFFQPAGYKH  397 (526)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHcCCeE
Confidence            3456888999999999999999999876443

Note that the EC number for the kinase function is: 2.7.1.78

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=94.48  E-value=0.038  Score=56.82  Aligned_cols=23  Identities=26%  Similarity=0.535  Sum_probs=20.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHhC
Q 012671          390 MLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ++|.|+||+|||+++++|+..+.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~   24 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLR   24 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999996664

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.48  E-value=0.039  Score=58.38  Aligned_cols=34  Identities=24%  Similarity=0.266  Sum_probs=27.0

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ++.-++|+||+|+|||+++..||..+   |..+..++
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~  135 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVC  135 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEc
Confidence            35678899999999999999999877   55555444

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.

>PLN03210 Resistant to P

Probab=94.44  E-value=0.044  Score=65.13  Aligned_cols=54  Identities=19%  Similarity=0.280  Sum_probs=37.1

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..+++++|.+.-.+.+..+...      .....+-+-++||+|+|||+||++|+..+...
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l------~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~  234 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHL------ESEEVRMVGIWGSSGIGKTTIARALFSRLSRQ  234 (1153)
T ss_pred             cccccccchHHHHHHHHHHHcc------ccCceEEEEEEcCCCCchHHHHHHHHHHHhhc
Confidence            3567788776555555444321      12334677899999999999999998876443

syringae 6; Provisional

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

Probab=94.42  E-value=0.032  Score=56.99  Aligned_cols=24  Identities=33%  Similarity=0.559  Sum_probs=20.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +-+++|||||||||+||-.++...
T Consensus        56 ~iteI~Gp~GsGKTtLal~~~~~~   79 (325)
T cd00983          56 RIIEIYGPESSGKTTLALHAIAEA   79 (325)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999887554

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=94.42  E-value=0.033  Score=56.20  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=20.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .-+++|||||||||.||..+|...
T Consensus        96 ~i~ei~G~~g~GKT~l~~~~~~~~  119 (310)
T TIGR02236        96 AITEVFGEFGSGKTQICHQLAVNV  119 (310)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            345799999999999999998774

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.

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=94.41  E-value=0.058  Score=50.88  Aligned_cols=21  Identities=29%  Similarity=0.596  Sum_probs=19.4

Q ss_pred             cceeeecCCCCChHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIA  408 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA  408 (458)
                      +.++|.||.|+|||+|.+.|+
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            359999999999999999998

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>PRK04296 thymidine kinase; Provisional

Probab=94.40  E-value=0.029  Score=52.66  Aligned_cols=30  Identities=17%  Similarity=0.178  Sum_probs=23.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~  418 (458)
                      -.|++||||+|||+++..++..+   |..++.+
T Consensus         4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~   36 (190)
T PRK04296          4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVF   36 (190)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEE
Confidence            46789999999999888888765   5555555

>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]

Probab=94.38  E-value=0.039  Score=55.77  Aligned_cols=33  Identities=24%  Similarity=0.337  Sum_probs=29.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ++-++++||+++|||-+|..||..+|..++.+.
T Consensus         3 ~~~i~I~GPTAsGKT~lai~LAk~~~~eIIs~D   35 (308)
T COG0324           3 PKLIVIAGPTASGKTALAIALAKRLGGEIISLD   35 (308)
T ss_pred             ccEEEEECCCCcCHHHHHHHHHHHcCCcEEecc
Confidence            346889999999999999999999999887754

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.38  E-value=0.047  Score=58.64  Aligned_cols=24  Identities=29%  Similarity=0.559  Sum_probs=21.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .-++|.||+|+|||+++..||..+
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHHHH
Confidence            468899999999999999999766

>PRK06851 hypothetical protein; Provisional

Probab=94.38  E-value=0.032  Score=57.86  Aligned_cols=30  Identities=27%  Similarity=0.510  Sum_probs=25.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~  417 (458)
                      +-++|.||||||||++.+.|+..+   |.++..
T Consensus       215 ~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~  247 (367)
T PRK06851        215 NRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEV  247 (367)
T ss_pred             eEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEE
Confidence            468999999999999999999887   655443

>KOG0060 consensus Long-chain acyl-CoA transporter, ABC superfamily (involved in peroxisome organization and biogenesis) [Lipid transport and metabolism; General function prediction only]

Probab=94.34  E-value=0.026  Score=60.95  Aligned_cols=27  Identities=33%  Similarity=0.477  Sum_probs=23.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ....|+|++||+|||||+|-+.||.-.
T Consensus       459 ~~g~~LLItG~sG~GKtSLlRvlggLW  485 (659)
T KOG0060|consen  459 PSGQNLLITGPSGCGKTSLLRVLGGLW  485 (659)
T ss_pred             cCCCeEEEECCCCCchhHHHHHHhccc
Confidence            335699999999999999999999654

>COG0283 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=94.33  E-value=0.037  Score=53.05  Aligned_cols=29  Identities=31%  Similarity=0.353  Sum_probs=25.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .|-+=||.|+||+++|+.||..+|++|+.
T Consensus         6 ~IAIDGPagsGKsTvak~lA~~Lg~~yld   34 (222)
T COG0283           6 IIAIDGPAGSGKSTVAKILAEKLGFHYLD   34 (222)
T ss_pred             EEEEeCCCccChHHHHHHHHHHhCCCeec
Confidence            45567999999999999999999999865

>PLN02842 nucleotide kinase

Probab=94.33  E-value=0.033  Score=59.99  Aligned_cols=27  Identities=22%  Similarity=0.249  Sum_probs=24.6

Q ss_pred             eeecCCCCChHHHHHHHHHHhCcceee
Q 012671          391 LFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       391 Ll~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ++.||||+|||++|+.|+..+|..++.
T Consensus         1 ~I~G~PGSGKSTqa~~Lak~lg~~hIs   27 (505)
T PLN02842          1 MISGAPASGKGTQCELIVHKFGLVHIS   27 (505)
T ss_pred             CeeCCCCCCHHHHHHHHHHHhCCCEEE
Confidence            578999999999999999999987765

>PRK14733 coaE dephospho-CoA kinase; Provisional

Probab=94.32  E-value=0.041  Score=52.54  Aligned_cols=29  Identities=17%  Similarity=0.142  Sum_probs=26.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .|-++|++|||||++++.++..+|.+++.
T Consensus         8 ~IglTG~iGsGKStv~~~l~~~lg~~vid   36 (204)
T PRK14733          8 PIGITGGIASGKSTATRILKEKLNLNVVC   36 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEe
Confidence            57799999999999999999989988765

>PRK13695 putative NTPase; Provisional

Probab=94.30  E-value=0.035  Score=51.06  Aligned_cols=23  Identities=39%  Similarity=0.603  Sum_probs=20.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +++|.|+||+|||+|+..|+..+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l   24 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL   24 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999988775

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.30  E-value=0.046  Score=56.98  Aligned_cols=34  Identities=18%  Similarity=0.319  Sum_probs=26.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +.+.++|+||+|+|||+++..||..+   |..+..++
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIt  241 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFIT  241 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            45688999999999999999999766   44444443

>TIGR00767 rho transcription termination factor Rho

Probab=94.29  E-value=0.11  Score=54.55  Aligned_cols=28  Identities=29%  Similarity=0.417  Sum_probs=24.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+...++++||||||||++++.|++...
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~  193 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAIT  193 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhc
Confidence            4456799999999999999999999753

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

>cd01918 HprK_C 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

Probab=94.26  E-value=0.033  Score=50.58  Aligned_cols=24  Identities=33%  Similarity=0.562  Sum_probs=21.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ..++||.||||+|||++|.+|...
T Consensus        14 g~gvLi~G~sG~GKStlal~L~~~   37 (149)
T cd01918          14 GIGVLITGPSGIGKSELALELIKR   37 (149)
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            369999999999999999888875

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=94.24  E-value=0.035  Score=51.44  Aligned_cols=23  Identities=43%  Similarity=0.676  Sum_probs=20.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -++|+||||+|||+++..++..+
T Consensus        34 l~~i~g~~g~GKT~~~~~l~~~~   56 (193)
T PF13481_consen   34 LTLIAGPPGSGKTTLALQLAAAL   56 (193)
T ss_dssp             EEEEEECSTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            57889999999999999888765

>COG3265 GntK Gluconate kinase [Carbohydrate transport and metabolism]

Probab=94.23  E-value=0.034  Score=50.31  Aligned_cols=25  Identities=24%  Similarity=0.365  Sum_probs=23.0

Q ss_pred             ecCCCCChHHHHHHHHHHhCcceee
Q 012671          393 YGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       393 ~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .|.+|||||+++.+||..+|..|+.
T Consensus         1 MGVsG~GKStvg~~lA~~lg~~fid   25 (161)
T COG3265           1 MGVSGSGKSTVGSALAERLGAKFID   25 (161)
T ss_pred             CCCCccCHHHHHHHHHHHcCCceec
Confidence            3899999999999999999988876

>TIGR00416 sms DNA repair protein RadA

Probab=94.22  E-value=0.12  Score=55.29  Aligned_cols=35  Identities=23%  Similarity=0.333  Sum_probs=26.1

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+..-+|++|+||+|||+|+..++...   |..++.++
T Consensus        92 ~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs  129 (454)
T TIGR00416        92 VPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS  129 (454)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            344567889999999999999987765   34555555

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)).

>cd00876 Ras Ras family

Probab=94.20  E-value=0.033  Score=49.07  Aligned_cols=22  Identities=18%  Similarity=0.493  Sum_probs=19.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|++.||||+|||+|..++...
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998753

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>PRK12608 transcription termination factor Rho; Provisional

Probab=94.19  E-value=0.034  Score=57.69  Aligned_cols=26  Identities=31%  Similarity=0.509  Sum_probs=22.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|++||||||||+|++.|++.+..
T Consensus       134 QR~LIvG~pGtGKTTLl~~la~~i~~  159 (380)
T PRK12608        134 QRGLIVAPPRAGKTVLLQQIAAAVAA  159 (380)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999987743

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=94.17  E-value=0.033  Score=58.19  Aligned_cols=26  Identities=31%  Similarity=0.437  Sum_probs=22.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..-.|++||||||||+|++.|++...
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~  194 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSIT  194 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHH
Confidence            34688899999999999999998774

>PRK06851 hypothetical protein; Provisional

Probab=94.15  E-value=0.027  Score=58.41  Aligned_cols=24  Identities=33%  Similarity=0.652  Sum_probs=21.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +-++|.||||||||++.+.|+..+
T Consensus        31 ~~~il~G~pGtGKStl~~~i~~~~   54 (367)
T PRK06851         31 RIFILKGGPGTGKSTLMKKIGEEF   54 (367)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999887

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=94.14  E-value=0.038  Score=49.51  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ||+|.|+||+|||+|...+....
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~   23 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLF   23 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhc
Confidence            68999999999999999997643

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>PRK14974 cell division protein FtsY; Provisional

Probab=94.13  E-value=0.04  Score=56.62  Aligned_cols=25  Identities=32%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.-++|.||||+|||+++..||..+
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l  164 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYL  164 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4678899999999999888888766

>KOG1803 consensus DNA helicase [Replication, recombination and repair]

Probab=94.12  E-value=0.023  Score=61.51  Aligned_cols=19  Identities=53%  Similarity=0.830  Sum_probs=14.9

Q ss_pred             ceeeecCCCCChHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREI  407 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaL  407 (458)
                      -++++||||||||....-|
T Consensus       203 l~~I~GPPGTGKT~TlvEi  221 (649)
T KOG1803|consen  203 LLIIHGPPGTGKTRTLVEI  221 (649)
T ss_pred             ceEeeCCCCCCceeeHHHH
Confidence            6788999999999844433

>cd01878 HflX HflX subfamily

Probab=94.11  E-value=0.085  Score=49.35  Aligned_cols=24  Identities=13%  Similarity=0.265  Sum_probs=21.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ...+++.|+||+|||+|...+...
T Consensus        41 ~~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CCeEEEECCCCCCHHHHHHHHhcc
Confidence            458999999999999999998865

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=94.11  E-value=0.06  Score=56.08  Aligned_cols=25  Identities=28%  Similarity=0.388  Sum_probs=22.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .++|++||+|+|||++..+|..+..
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~  174 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCG  174 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3789999999999999999998874

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=94.10  E-value=0.035  Score=52.71  Aligned_cols=26  Identities=19%  Similarity=0.310  Sum_probs=22.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +...+.+.||+|+|||+|.++|+...
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            44578899999999999999999875

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.10  E-value=0.034  Score=54.34  Aligned_cols=25  Identities=32%  Similarity=0.413  Sum_probs=21.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..=+-+.||+|||||+|-+.||...
T Consensus        29 GEfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          29 GEFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3456688999999999999999765

>PRK13973 thymidylate kinase; Provisional

Probab=94.09  E-value=0.064  Score=51.21  Aligned_cols=31  Identities=23%  Similarity=0.244  Sum_probs=26.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      =|.|-|++|+|||++++.|+..+   |..++...
T Consensus         5 ~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~   38 (213)
T PRK13973          5 FITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTR   38 (213)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            35678999999999999999999   77776654

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=94.05  E-value=0.052  Score=41.87  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=20.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..+|+||+|+|||++.-++...+
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999988665

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.04  E-value=0.035  Score=53.34  Aligned_cols=25  Identities=24%  Similarity=0.417  Sum_probs=21.1

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHH
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +..-+.++||+|+|||+|.+||-.-
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~L   51 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGL   51 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3457889999999999999999853

>PRK10867 signal recognition particle protein; Provisional

Probab=94.03  E-value=0.054  Score=57.51  Aligned_cols=35  Identities=26%  Similarity=0.410  Sum_probs=26.4

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      .++.-++|+||||+|||+++-.||..+    |..+..++
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~  136 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVA  136 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEE
Confidence            345678899999999999888888765    44555544

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=94.02  E-value=0.048  Score=56.14  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=18.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -..+|||||||||.||..+|-.
T Consensus       128 ItEI~G~~GsGKTql~lqlav~  149 (344)
T PLN03187        128 ITEAFGEFRSGKTQLAHTLCVT  149 (344)
T ss_pred             EEEEecCCCCChhHHHHHHHHH
Confidence            4559999999999999988754

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.00  E-value=0.043  Score=52.13  Aligned_cols=28  Identities=32%  Similarity=0.337  Sum_probs=24.0

Q ss_pred             cCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          384 QAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       384 ~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..+..-+.+.||+|||||+|...+|...
T Consensus        28 ia~ge~vv~lGpSGcGKTTLLnl~AGf~   55 (259)
T COG4525          28 IASGELVVVLGPSGCGKTTLLNLIAGFV   55 (259)
T ss_pred             ecCCCEEEEEcCCCccHHHHHHHHhcCc
Confidence            4556688899999999999999999765

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=93.99  E-value=0.11  Score=53.21  Aligned_cols=32  Identities=19%  Similarity=0.313  Sum_probs=24.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .-|-+.||||+|||+|+..|...+   |..+..+.
T Consensus        57 ~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~   91 (332)
T PRK09435         57 LRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLA   91 (332)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            356689999999999999988776   44554444

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=93.96  E-value=0.1  Score=49.97  Aligned_cols=22  Identities=27%  Similarity=0.542  Sum_probs=20.1

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      +.++|+||.|+|||++.+.++.
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            6789999999999999999983

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PLN02348 phosphoribulokinase

Probab=93.96  E-value=0.061  Score=56.17  Aligned_cols=25  Identities=16%  Similarity=0.177  Sum_probs=22.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .-|-+.||||+|||+||+.|+..+|
T Consensus        50 ~IIGIaG~SGSGKSTfA~~L~~~Lg   74 (395)
T PLN02348         50 VVIGLAADSGCGKSTFMRRLTSVFG   74 (395)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3455789999999999999999986

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	458
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		1e-04
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		1e-04
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		1e-04
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		1e-04
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		1e-04
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		2e-04
3vfd_A	389	Human Spastin Aaa Domain Length = 389		7e-04

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIG--RRNQRKA 439
           I   P R +L YGPPGTGKT++AR +A ++     L+     P  M  L G    N RKA
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLING---PEIMSKLAGESESNLRKA 289

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIG--RRNQRKA 439
           I   P R +L YGPPGTGKT++AR +A ++     L+     P  M  L G    N RKA
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLING---PEIMSKLAGESESNLRKA 289

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIG--RRNQRKA 439
           I   P R +L YGPPGTGKT++AR +A ++     L+     P  M  L G    N RKA
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLING---PEIMSKLAGESESNLRKA 289

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIG--RRNQRKA 439
           I   P R +L YGPPGTGKT++AR +A ++     L+     P  M  L G    N RKA
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLING---PEIMSKLAGESESNLRKA 289

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIG--RRNQRKA 439
           I   P R +L YGPPGTGKT++AR +A ++     L+     P  M  L G    N RKA
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLING---PEIMSKLAGESESNLRKA 289

>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain Of Membrane Fusion Atpase P97 Length = 458

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIG--RRNQRKA 439
           I   P R +L YGPPGTGKT++AR +A ++     L+     P  M  L G    N RKA
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLING---PEIMSKLAGESESNLRKA 289

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 28/87 (32%), Positives = 46/87 (52%), Gaps = 12/87 (13%)
Query: 328 SGLLSQAMNKVIRNKTSA---GTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQ 384
           S L +  MN+++ N T+      AG   A +   +I++ PSL+  +    +A        
Sbjct: 95  SNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRA-------- 146
Query: 385 APFRNMLFYGPPGTGKTMVAREIARKS 411
            P R +L +GPPG GKTM+A+ +A +S
Sbjct: 147 -PARGLLLFGPPGNGKTMLAKAVAAES 172

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	458
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	1e-09
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	2e-05
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	6e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-04
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-04
2chg_A	226	Replication factor C small subunit; DNA-binding pr	2e-06
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	4e-06
2chq_A	319	Replication factor C small subunit; DNA-binding pr	5e-06
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	2e-05
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	2e-05
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	3e-05
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	4e-05
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	5e-05
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	1e-04
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	5e-05
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	5e-05
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	6e-05
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	8e-05
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-04
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	2e-04
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	3e-04
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	4e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-04
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	5e-04
3pvs_A	447	Replication-associated recombination protein A; ma	7e-04
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	8e-04
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	8e-04

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 59.8 bits (144), Expect = 1e-09
 Identities = 33/191 (17%), Positives = 68/191 (35%), Gaps = 2/191 (1%)

Query: 64  EEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQ 123
           E    +G D   L +A      F  +     + D+   +   +     +++    AI+  
Sbjct: 607 EMSEDTGPDGTLLPKARDQAV-FPQNGLVVSSVDVQSVEPVDQRTRDALQRSVQLAIEIT 665

Query: 124 VDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDH-EAQRRHNTELVKMQEE 182
            + +      E  R   + + +   Q + ++ E  + R +    EA           + E
Sbjct: 666 TNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAE 725

Query: 183 SSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRM 242
           +  R E AR   E  +   +   +    E E E  RVK + E E     A+L  + ++  
Sbjct: 726 AESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREMELIYARAQLELEVSKAQ 785

Query: 243 LIERINGEREK 253
            +  +  ++ K
Sbjct: 786 QLANVEAKKFK 796

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 46.3 bits (109), Expect = 2e-05
 Identities = 31/182 (17%), Positives = 58/182 (31%), Gaps = 7/182 (3%)

Query: 74  EALERAAKALRE--FNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRK 131
           +  + +A+ +R   F          D     +    A      +   ++    DV+    
Sbjct: 590 DFHKNSARIIRMAVFGFEMSEDTGPDGTLLPKARDQAVFPQNGLVVSSV----DVQSVEP 645

Query: 132 LAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQAR 191
           + +  R+ +Q+  Q   +   N  E A K      E + R   E  K+ ++S   K +  
Sbjct: 646 VDQRTRDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKE 705

Query: 192 RSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRML-IERINGE 250
               E +      T   +AE E      +   E      + K           +ER+   
Sbjct: 706 LLELEAMSMAVESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKV 765

Query: 251 RE 252
           RE
Sbjct: 766 RE 767

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A Length = 861

 Score = 41.3 bits (96), Expect = 6e-04
 Identities = 26/208 (12%), Positives = 63/208 (30%), Gaps = 12/208 (5%)

Query: 71  FDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVH------YEAIQSQV 124
           F+ +     A+A + F+      +A   +  + +  +A +  +  H              
Sbjct: 547 FELKNRNDPAEAAKLFSVPDFVGDACKAIASRVRGAVASVTFDDFHKNSARIIRMAVFGF 606

Query: 125 DVERQRKLAEEHRNLVQQKAQARAQGLRNED------ELARKRLQTDHEAQRRHNTELVK 178
           ++              + +A     GL          E   +R +   +   +   E+  
Sbjct: 607 EMSEDTGPDGTLLPKARDQAVFPQNGLVVSSVDVQSVEPVDQRTRDALQRSVQLAIEITT 666

Query: 179 MQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDH 238
             +E++ + E  R   E + + +++    +    +     ++  A +           + 
Sbjct: 667 NSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEA 726

Query: 239 NRRMLIERINGEREKWLAAINTTFSHIE 266
             R    RI GE     A +      IE
Sbjct: 727 ESRAEAARIEGEGSVLQAKLKAQALAIE 754

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 59.5 bits (143), Expect = 2e-09
 Identities = 61/448 (13%), Positives = 125/448 (27%), Gaps = 137/448 (30%)

Query: 63  PEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMR-KQEQT--RLAELDVEKVHYEA 119
            + P+      E ++     +   ++       F  +  KQE+   +  E +V +++Y+ 
Sbjct: 39  QDMPKSI-LSKEEID---HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVE-EVLRINYKF 93

Query: 120 IQSQVDVE-----RQRKLAEEHRNLVQ-----------------QKAQARAQGLRNEDE- 156
           + S +  E        ++  E R+ +                   K +     LR     
Sbjct: 94  LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153

Query: 157 ------------LARKRLQTDHEAQRRHNTEL--VKMQEESSIRKEQARRSTEEQIQAQQ 202
                       +A       ++ Q + + ++  + ++            S E  ++  Q
Sbjct: 154 LIDGVLGSGKTWVALDVCL-SYKVQCKMDFKIFWLNLKN---------CNSPETVLEMLQ 203

Query: 203 RLTEKERAEIERE-TIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGE-----REKWLA 256
           +L  +    I+   T R    +  + R H  +      RR+L  +              A
Sbjct: 204 KLLYQ----IDPNWTSRSDHSSNIKLRIHSIQ---AELRRLLKSKPYENCLLVLLNVQNA 256

Query: 257 AINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVN-------- 308
                F+      + LLT R K V        L+A   T       +             
Sbjct: 257 KAWNAFNL---SCKILLTTRFKQV-----TDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308

Query: 309 RILGQP--SLIRE---------SSIGKF---------PWSGLLSQAMNKVIRNKTSAGTA 348
           + L      L RE         S I +           W  +    +  +I  ++S    
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII--ESS---- 362

Query: 349 GPVEAIKNNGDIILHPSLQRRI-QHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREI 407
             +          L P+  R++   L+    +  I            P      +    I
Sbjct: 363 --LNV--------LEPAEYRKMFDRLSVFPPSAHI------------PTILLSLIWFDVI 400

Query: 408 ARKSEEMLHLLVHRLL----PRSMRYLI 431
                 +++ L    L    P+     I
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISI 428

>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 = 55.2 bits (132), Expect = 3e-08
 Identities = 33/199 (16%), Positives = 75/199 (37%), Gaps = 37/199 (18%)

Query: 262 FSHIEEGVRSLLTDRN-KLVMTVGGATALAAGIYTT--REGARVTWGYVNRILGQPSLIR 318
              +++  +S+L+      ++    A +    ++ T   +   +   +V  +L + +   
Sbjct: 35  CKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL-RIN--- 90

Query: 319 ESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKN--NGDIILHPSLQRRIQHLAKA 376
                 + +  L+S    K  + + S  T   +E      N + +       R+Q     
Sbjct: 91  ------YKF--LMSPI--KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY--- 137

Query: 377 TANTKIHQA-----PFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYL- 430
               K+ QA     P +N+L  G  G+GKT VA ++    +      V   +   + +L 
Sbjct: 138 ---LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYK------VQCKMDFKIFWLN 188

Query: 431 IGRRNQRKACCFLLTRLMH 449
           +   N  +    +L +L++
Sbjct: 189 LKNCNSPETVLEMLQKLLY 207

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 49.4 bits (118), Expect = 2e-06
 Identities = 40/228 (17%), Positives = 95/228 (41%), Gaps = 19/228 (8%)

Query: 52   EQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELD 111
            E+   A+   +  E + +    E      K   E      A E    +  ++Q     L 
Sbjct: 871  ERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILH 930

Query: 112  --VEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQ 169
                ++  E  +SQ     ++K+ ++  +L +Q           E+E AR++LQ     +
Sbjct: 931  EMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQL---------EEEEAARQKLQ---LEK 978

Query: 170  RRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTE-----KERAEIERETIRVKAMAE 224
               + ++ KM+++  I ++Q  + T+E+   ++R+++      E  E  +   ++K   E
Sbjct: 979  VTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHE 1038

Query: 225  AEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSL 272
            +     E +L ++   R  +E+I  + E   + ++   + ++  +  L
Sbjct: 1039 SMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAEL 1086

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 28/174 (16%), Positives = 65/174 (37%), Gaps = 7/174 (4%)

Query: 77   ERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEH 136
            ER +             +    ++ + ++ ++EL+V     E  + +++ + +RKL  E 
Sbjct: 1011 ERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELE-KIKRKLEGES 1069

Query: 137  RNLVQQKAQARAQGLRNEDELARK-----RLQTDHEAQRRHNTELVKMQEESSIRKEQAR 191
             +L +Q A+ +AQ    + +LA+K           E +       +K   E        +
Sbjct: 1070 SDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQ 1129

Query: 192  RSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIE 245
               E +  A+ +  EK++ ++  E   +K   E        +     +     +
Sbjct: 1130 EDLESEKAARNKA-EKQKRDLSEELEALKTELEDTLDTTATQQELRGSDYKDDD 1182

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 42.1 bits (99), Expect = 4e-04
 Identities = 28/209 (13%), Positives = 73/209 (34%), Gaps = 16/209 (7%)

Query: 78   RAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHR 137
            R   A + F   +   E+   ++   ++ +        H+  +     +    K+  +  
Sbjct: 803  RGYLARKAFAKRQQQLESIFCIQYNVRSFMN-----VXHWPWMXLFFXIXPLLKVTRQEE 857

Query: 138  NLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQ 197
             +  Q      Q  +   + A   L+   +   +   E   +QE+  ++ E    +  E+
Sbjct: 858  EM--QAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEK--LQAETELYAEAEE 913

Query: 198  IQAQQRLTEKERAEIERE-TIRVKAMAE------AEGRAHEAKLTEDHNRRMLIERINGE 250
            ++ +    ++E  EI  E   R++   E      AE +  + ++ +   +    E    +
Sbjct: 914  MRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQK 973

Query: 251  REKWLAAINTTFSHIEEGVRSLLTDRNKL 279
             +      +     +E+ +  +    NKL
Sbjct: 974  LQLEKVTADGKIKKMEDDILIMEDQNNKL 1002

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus} Length = 226

 Score = 47.6 bits (114), Expect = 2e-06
 Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 8/52 (15%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK 410
           +++    + +R++   +        +    ++LF GPPGTGKT  A  +AR 
Sbjct: 18  EVVGQDEVIQRLKGYVE--------RKNIPHLLFSGPPGTGKTATAIALARD 61

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20 Length = 327

 Score = 47.7 bits (114), Expect = 4e-06
 Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 8/52 (15%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK 410
           DI+    + +R++H  K             ++LF GPPG GKT  A  +AR+
Sbjct: 26  DIVGQEHIVKRLKHYVK--------TGSMPHLLFAGPPGVGKTTAALALARE 69

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A Length = 319

 Score = 47.3 bits (113), Expect = 5e-06
 Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 8/52 (15%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK 410
           +++    + +R++   +        +    ++LF GPPGTGKT  A  +AR 
Sbjct: 18  EVVGQDEVIQRLKGYVE--------RKNIPHLLFSGPPGTGKTATAIALARD 61

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score = 45.4 bits (108), Expect = 2e-05
 Identities = 12/29 (41%), Positives = 21/29 (72%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSEE 413
            P+R +L +GPPGTGK+ +A+ +A ++  
Sbjct: 43  TPWRGILLFGPPGTGKSYLAKAVATEANN 71

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C Length = 322

 Score = 45.4 bits (108), Expect = 2e-05
 Identities = 12/27 (44%), Positives = 19/27 (70%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSE 412
           P   +L YGPPGTGK+ +A+ +A ++ 
Sbjct: 50  PTSGILLYGPPGTGKSYLAKAVATEAN 76

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score = 44.6 bits (106), Expect = 3e-05
 Identities = 13/28 (46%), Positives = 20/28 (71%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSE 412
           AP + +L +GPPG GKT++AR +A +  
Sbjct: 52  APAKGLLLFGPPGNGKTLLARAVATECS 79

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens} Length = 357

 Score = 44.8 bits (106), Expect = 4e-05
 Identities = 13/28 (46%), Positives = 20/28 (71%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSE 412
            P + +L +GPPGTGKT++ + IA +S 
Sbjct: 115 GPPKGILLFGPPGTGKTLIGKCIASQSG 142

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 43.2 bits (101), Expect = 5e-05
 Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 3/81 (3%)

Query: 118 EAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELV 177
           +A +   + E  RK  EE R  +Q+   A     +   E A+K L    E  +R + ++ 
Sbjct: 76  QADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDL---EEWNQRQSEQVE 132

Query: 178 KMQEESSIRKEQARRSTEEQI 198
           K +  + I  +   +  +  I
Sbjct: 133 KNKINNRIADKAFYQQPDADI 153

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 41.7 bits (97), Expect = 1e-04
 Identities = 15/87 (17%), Positives = 31/87 (35%), Gaps = 22/87 (25%)

Query: 146 ARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQAR-----------RST 194
           A+A  L  E E  RK        +      L ++   S + +++ R           +  
Sbjct: 75  AQADRLTQEPESIRKW-------REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQ 127

Query: 195 EEQIQ---AQQRLTEKE-RAEIERETI 217
            EQ++      R+ +K    + + + I
Sbjct: 128 SEQVEKNKINNRIADKAFYQQPDADII 154

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score = 44.4 bits (105), Expect = 5e-05
 Identities = 15/28 (53%), Positives = 21/28 (75%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSE 412
           AP R +L +GPPG GKTM+A+ +A +S 
Sbjct: 146 APARGLLLFGPPGNGKTMLAKAVAAESN 173

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A* Length = 272

 Score = 44.0 bits (104), Expect = 5e-05
 Identities = 12/27 (44%), Positives = 18/27 (66%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSE 412
           P  ++L  GPP +GKT +A +IA +S 
Sbjct: 63  PLVSVLLEGPPHSGKTALAAKIAEESN 89

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 43.3 bits (103), Expect = 8e-05
 Identities = 11/27 (40%), Positives = 17/27 (62%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSE 412
               +L  GPPG GKT++A+ +A +S 
Sbjct: 43  TPAGVLLAGPPGCGKTLLAKAVANESG 69

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus} Length = 301

 Score = 42.6 bits (101), Expect = 1e-04
 Identities = 14/27 (51%), Positives = 21/27 (77%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSE 412
           P + +LFYGPPG GKT++A+ IA + +
Sbjct: 48  PSKGVLFYGPPGCGKTLLAKAIANECQ 74

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Length = 516

 Score = 42.9 bits (101), Expect = 2e-04
 Identities = 12/23 (52%), Positives = 15/23 (65%)

Query: 387 FRNMLFYGPPGTGKTMVAREIAR 409
           FR  + YGPPG GKT  A  +A+
Sbjct: 77  FRAAMLYGPPGIGKTTAAHLVAQ 99

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score = 42.1 bits (99), Expect = 3e-04
 Identities = 15/26 (57%), Positives = 21/26 (80%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKS 411
           P R +L YGPPGTGKT++AR +A ++
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANET 262

>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* Length = 334

 Score = 41.6 bits (98), Expect = 4e-04
 Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 4/48 (8%)

Query: 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIAR 409
            +P L+   + L  +    + H A    +L    PG G   +   ++R
Sbjct: 3   WYPWLRPDFEKLVASYQAGRGHHA----LLIQALPGMGDDALIYALSR 46

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 42.0 bits (99), Expect = 4e-04
 Identities = 30/219 (13%), Positives = 64/219 (29%), Gaps = 14/219 (6%)

Query: 75   ALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHY-EAIQSQVDVERQRKLA 133
              +R     + +   R A  A   + +    R     + + H    IQ  V     R   
Sbjct: 824  KFQRMYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHY 883

Query: 134  EEHRNLV--------QQKAQARAQGLRNEDELAR--KRLQTDHEAQRRHNTELVKMQEES 183
                  +        +  A+   + L+ E       K+L    E +       +  Q + 
Sbjct: 884  HRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKE 943

Query: 184  SIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHE--AKLTEDHNR- 240
                 +   + E     +      +   +       K          E  AKL ++ ++ 
Sbjct: 944  YKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQT 1003

Query: 241  RMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKL 279
            +   + I    +K+        S ++E    L T++ +L
Sbjct: 1004 QTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEEL 1042

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score = 40.7 bits (96), Expect = 5e-04
 Identities = 13/27 (48%), Positives = 21/27 (77%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSE 412
           P + +L YGPPGTGKT++A+ +A ++ 
Sbjct: 50  PPKGILLYGPPGTGKTLLAKAVATETN 76

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 41.0 bits (97), Expect = 7e-04
 Identities = 13/23 (56%), Positives = 17/23 (73%)

Query: 390 MLFYGPPGTGKTMVAREIARKSE 412
           M+ +GPPGTGKT +A  IAR + 
Sbjct: 53  MILWGPPGTGKTTLAEVIARYAN 75

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Length = 340

 Score = 40.5 bits (95), Expect = 8e-04
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 8/52 (15%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK 410
           ++     +   ++            + P  ++LFYGPPGTGKT     +AR+
Sbjct: 26  EVYGQNEVITTVRKFVDEG------KLP--HLLFYGPPGTGKTSTIVALARE 69

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A* Length = 592

 Score = 40.7 bits (94), Expect = 8e-04
 Identities = 31/182 (17%), Positives = 66/182 (36%), Gaps = 10/182 (5%)

Query: 74  EALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLA 133
             L+     L E   +    +        ++ +  +    +   + IQ++  ++   K  
Sbjct: 409 GLLQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEILQTYLKSK 468

Query: 134 EEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRS 193
           E   + + Q  Q   +  +  +    K      E+ +     L +MQ ++    EQ  RS
Sbjct: 469 ESMTDAILQTDQTLTEKEKEIEVERVKA-----ESAQASAKMLHEMQRKNEQMMEQKERS 523

Query: 194 TEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNR--RMLIERINGER 251
            +E ++      E +R ++ +E  R  A+   E    E  L E   +  R++   I   +
Sbjct: 524 YQEHLKQLTEKMENDRVQLLKEQERTLALKLQE---QEQLLKEGFQKESRIMKNEIQDLQ 580

Query: 252 EK 253
            K
Sbjct: 581 TK 582

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	458
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.88
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.8
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.77
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.76
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.73
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.71
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.55
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.53
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.47
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.45
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.45
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.4
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.39
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.37
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.36
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.35
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.33
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.32
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.31
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.31
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.31
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.3
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.29
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.29
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.29
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.24
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.22
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.15
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.08
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.06
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.03
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.01
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	98.98
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.83
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	98.81
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.81
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	98.8
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.78
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.77
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.76
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.72
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.7
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.67
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.66
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.65
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.63
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.62
3pvs_A	447	Replication-associated recombination protein A; ma	98.61
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.6
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.57
3co5_A	143	Putative two-component system transcriptional RES	98.57
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.57
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.57
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.52
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.52
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.51
3bos_A	242	Putative DNA replication factor; P-loop containing	98.48
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.44
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.43
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.42
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.39
2r44_A	331	Uncharacterized protein; putative ATPase, structur	98.36
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.36
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.36
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	98.35
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.25
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.24
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.24
2qgz_A	308	Helicase loader, putative primosome component; str	98.22
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.21
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	98.21
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	98.17
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.13
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.1
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.09
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.09
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.09
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.08
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.0
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.99
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.98
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.97
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.89
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.76
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.69
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.65
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.64
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.53
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.53
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.52
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.49
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.47
1via_A	175	Shikimate kinase; structural genomics, transferase	97.43
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.4
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.38
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.37
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.37
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.36
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.36
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.35
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	97.35
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.31
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.28
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.28
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.27
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	97.26
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.25
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.24
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.23
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.23
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.23
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.2
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.2
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.2
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.18
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.18
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.17
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.17
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.17
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.16
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.16
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.15
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.14
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.14
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.13
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.13
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.12
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.12
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.11
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.11
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.11
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.09
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.08
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.06
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.05
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.01
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.0
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	96.95
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.89
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.89
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.89
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.88
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.86
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.84
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.83
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.82
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.8
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.79
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.77
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.75
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.73
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.72
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.71
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.71
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.69
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.69
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.64
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.62
2fna_A	357	Conserved hypothetical protein; structural genomic	96.55
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.51
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.5
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.49
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.48
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.46
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.45
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.44
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.37
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.27
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.24
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.23
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.23
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.19
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.19
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	96.15
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.15
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.15
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.13
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.13
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.1
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	96.08
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.07
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.05
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.03
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.03
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.02
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.0
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.99
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.96
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.92
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.9
1xp8_A	366	RECA protein, recombinase A; recombination, radior	95.89
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.89
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.87
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.82
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.81
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.78
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.75
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.74
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.74
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.64
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	95.63
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.61
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.6
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.58
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.56
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.55
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.53
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.49
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.48
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.41
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.37
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.37
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.36
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	95.35
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	95.34
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.33
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.3
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.29
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.25
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.22
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.22
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.19
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.17
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.15
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.15
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.14
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	95.12
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.09
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.04
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.03
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.03
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.03
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.02
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.0
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.96
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	94.85
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.78
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.76
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.76
2eyu_A	261	Twitching motility protein PILT; pilus retraction	94.76
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.73
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	94.6
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.6
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.53
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.52
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	94.51
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.51
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.47
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.45
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.43
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.42
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.4
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.37
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.36
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.35
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	94.33
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.25
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.24
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.22
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.2
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.09
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	94.06
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.04
3io5_A	333	Recombination and repair protein; storage dimer, i	94.04
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.03
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	93.95
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	93.93
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	93.87
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.79
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.79
2og2_A	359	Putative signal recognition particle receptor; nuc	93.7
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.66
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	93.61
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.6
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.59
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	93.58
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.56
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	93.56
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.51
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	93.49
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	93.47
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.45
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	93.45
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.43
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	93.42
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	93.41
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.39
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.39
2r6a_A	454	DNAB helicase, replicative helicase; replication,	93.37
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.35
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.34
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.33
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.25
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.25
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	93.22
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.2
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.19
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.18
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.18
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.14
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	93.12
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.1
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.1
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.01
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.99
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.95
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.93
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	92.93
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.92
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	92.91
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	92.91
3f8t_A	506	Predicted ATPase involved in replication control,	92.91
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	92.9
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	92.9
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	92.88
1g6h_A	257	High-affinity branched-chain amino acid transport	92.88
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	92.88
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	92.87
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.86
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	92.85
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.84
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	92.84
3b6e_A	216	Interferon-induced helicase C domain-containing P;	92.84
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.83
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.79
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	92.77
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	92.74
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	92.72
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	92.71
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	92.71
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	92.71
1ji0_A	240	ABC transporter; ATP binding protein, structural g	92.69
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.68
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.68
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	92.67
2ghi_A	260	Transport protein; multidrug resistance protein, M	92.67
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	92.66
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	92.65
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	92.64
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	92.62
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.59
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	92.59
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	92.59
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.57
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	92.56
2wji_A	165	Ferrous iron transport protein B homolog; membrane	92.56
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	92.56
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.55
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.5
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	92.5
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	92.49
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	92.46
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	92.46
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.45
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.45
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.44
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	92.44
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.43
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	92.4
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.36
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.34
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	92.29
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	92.27
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.27
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.25
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	92.25
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.22
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	92.22
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.22
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	92.2
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.18
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	92.18
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	92.15
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.15
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	92.13
2xxa_A	433	Signal recognition particle protein; protein trans	92.08
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	92.08
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.07
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.04
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.04
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.04
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	92.01
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.96
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	91.95
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	91.9
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	91.88
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	91.88
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	91.88
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	91.75
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	91.74
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	91.73
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.69
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	91.68
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.66
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	91.66
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	91.63
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	91.57
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	91.52
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	91.51
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	91.51
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	91.51
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	91.5
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	91.5
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	91.46
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.45
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	91.44
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	91.44
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	91.43
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	91.43
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	91.42
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	91.42
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	91.36
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	91.34
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.33
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.33
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.31
3ice_A	422	Transcription termination factor RHO; transcriptio	91.3
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	91.3
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	91.3
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.29
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.29
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	91.27
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	91.27
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	91.23
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	91.22
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.22
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.2
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	91.19
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	91.19
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	91.16
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.14
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	91.08
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	91.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.99
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	90.94
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	90.92
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	90.92
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	90.85
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	90.84
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	90.8
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	90.7
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	90.66
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	90.65
2fh5_B	214	SR-beta, signal recognition particle receptor beta	90.65
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	90.64
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	90.63
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	90.58
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	90.58
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	90.52
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	90.51
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	90.5
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	90.45
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	90.4
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	90.36
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	90.33
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	90.33
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	90.3
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	90.29
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	90.25
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	90.24
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	90.16
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	90.14
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	90.1
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	90.02
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	89.98
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	89.96
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	89.95
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	89.93
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	89.92
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	89.91
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	89.91
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	89.87
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	89.86
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	89.68
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.65
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	89.58
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	89.58
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	89.52
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	89.45
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	89.4
3lfu_A	647	DNA helicase II; SF1 helicase, ATP-binding, DNA da	89.29
3bor_A	237	Human initiation factor 4A-II; translation initiat	89.29
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	89.21
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	89.19
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	89.09
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	89.05
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	89.05
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	89.0
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	88.95
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	88.93
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	88.92
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	88.92
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	88.89
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	88.89
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	88.78
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	88.78
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	88.68
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	88.67

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.88  E-value=3.9e-23  Score=215.45  Aligned_cols=258  Identities=15%  Similarity=0.228  Sum_probs=119.7

Q ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHhchHHHhhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012671          148 AQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEG  227 (458)
Q Consensus       148 ~~~a~y~D~L~rkr~q~e~e~~~~~~e~~~~~qees~~rqE~~r~~~e~~l~~lr~~~e~e~~~l~~~~~~~k~~~e~~~  227 (458)
                      ....+++|++.++++.++...+...+++....+.++...++..++.+.+           ++..+.+..       ++++
T Consensus        11 ~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~l~~~~-------~~e~   72 (437)
T 4b4t_L           11 GLGETSGDNHTQQSHEQQPEQPQETEEHHEEEPSRVDPEQEAHNKALNQ-----------FKRKLLEHR-------RYDD   72 (437)
T ss_dssp             -------------------------------------------------------------------CH-------HHHH
T ss_pred             HhccccccchhhccccchhhhhHHhhhhhhhcchhcchhhHHHHHHHHH-----------HHHHHHHHH-------HHHH
Confidence            3456788999999999888888887776666666666666666655544           222221111       1122


Q ss_pred             hHHHHHhhcChhHHHHHHHHHhhhHHHHHhhchhhhhhHHHHHHhhccccceeeee-cccceeeeeeee------ccccc
Q 012671          228 RAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTV-GGATALAAGIYT------TREGA  300 (458)
Q Consensus       228 r~~~~r~n~D~~le~~~~~a~~~r~~~l~~i~~~~~~lg~gl~~ll~D~dklv~~v-~g~t~Lavgvyt------a~~~~  300 (458)
                      +++..+++.. +++....+    .+..+..|++.+..+|.+++.+  |.++.++.. +|.. ..+++..      .+.|.
T Consensus        73 ~~~~~~~~~~-~l~~~~~~----~~~~~~~l~~~~~~vg~~~~~~--~~~~~iv~~~~g~~-~~v~~~~~~~~~~l~~g~  144 (437)
T 4b4t_L           73 QLKQRRQNIR-DLEKLYDK----TENDIKALQSIGQLIGEVMKEL--SEEKYIVKASSGPR-YIVGVRNSVDRSKLKKGV  144 (437)
T ss_dssp             HHHHHHHHHH-HHHHHHHH----HHHHHHHHHSCCEEEEEEEECS--SSSCEEEEETTSCE-EEECBCSSSCTTSCCTTC
T ss_pred             HHHHHHHHHH-HHHHHHHH----HHHHHHHhccCCceeeeheeee--cCCcEEEEECCCCE-EEEecccccCHhhcCCCc
Confidence            2222222211 12222222    2233778888888888877654  444444433 3211 1111111      11222


Q ss_pred             ccchhHHHHHhCCCcchhhcccCCCCcccchhhhhHHHhhhcccCCCCCCCCCCCCCccccCChHHHHHHHHHHHHH-Hh
Q 012671          301 RVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKAT-AN  379 (458)
Q Consensus       301 ~v~~~~~e~~Lg~p~lvRe~sr~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~dvi~~~~l~~~l~~l~~~~-~~  379 (458)
                      +|..                .+..+.+...+....+.++.+     -.....+...|+||+|.++.+..|...+.+. .+
T Consensus       145 ~v~~----------------~~~~~~~~~~l~~~~d~~~~~-----~~~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~  203 (437)
T 4b4t_L          145 RVTL----------------DITTLTIMRILPRETDPLVYN-----MTSFEQGEITFDGIGGLTEQIRELREVIELPLKN  203 (437)
T ss_dssp             EEEE----------------CSSSCSEEEECCCCSCCCCSS-----CEEEESCSSCSGGGCSCHHHHHHHHHHHHHHHHC
T ss_pred             eeeE----------------cccchhHHHhcCcccCchhhe-----eeeccCCCCChhHhCChHHHHHHHHHHHHHHHhC
Confidence            2211                111111111111111111000     0111356779999999999999888877763 22


Q ss_pred             ----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCce
Q 012671          380 ----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASAT  455 (458)
Q Consensus       380 ----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~i  455 (458)
                          ...+..|++|||||||||||||++|++||+++|.+|+.++   +++++++|+|++.++   +..+|..++.++|||
T Consensus       204 p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~---~s~l~sk~~Gese~~---ir~~F~~A~~~~P~I  277 (437)
T 4b4t_L          204 PEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSP---ASGIVDKYIGESARI---IREMFAYAKEHEPCI  277 (437)
T ss_dssp             HHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEE---GGGTCCSSSSHHHHH---HHHHHHHHHHSCSEE
T ss_pred             HHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEe---hhhhccccchHHHHH---HHHHHHHHHhcCCce
Confidence                3345688899999999999999999999999999999999   899999999998654   556788899999999


Q ss_pred             eeC
Q 012671          456 VYI  458 (458)
Q Consensus       456 ifi  458 (458)
                      |||
T Consensus       278 ifi  280 (437)
T 4b4t_L          278 IFM  280 (437)
T ss_dssp             EEE
T ss_pred             eee
Confidence            996

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.80  E-value=8.6e-20  Score=187.91  Aligned_cols=101  Identities=18%  Similarity=0.253  Sum_probs=87.8

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHH-Hh----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKAT-AN----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~-~~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~  426 (458)
                      .+...|+||.|.++.++.|.+.+.++ .+    ...+..|++|+|||||||||||++|++||+++|.+|+.++   ++++
T Consensus       142 ~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~---~s~l  218 (405)
T 4b4t_J          142 VPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVS---GAEL  218 (405)
T ss_dssp             SCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEE---GGGG
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEE---hHHh
Confidence            36779999999999999988877763 22    3345688899999999999999999999999999999999   9999


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          427 MRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       427 ~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++|+|++.++   +..+|..++.++||||||
T Consensus       219 ~sk~vGese~~---vr~lF~~Ar~~aP~IIFi  247 (405)
T 4b4t_J          219 VQKYIGEGSRM---VRELFVMAREHAPSIIFM  247 (405)
T ss_dssp             SCSSTTHHHHH---HHHHHHHHHHTCSEEEEE
T ss_pred             hccccchHHHH---HHHHHHHHHHhCCceEee
Confidence            99999999665   557788899999999996

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.77  E-value=1.5e-19  Score=187.06  Aligned_cols=102  Identities=21%  Similarity=0.330  Sum_probs=88.2

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHH-----HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchh
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKAT-----ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPR  425 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~-----~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se  425 (458)
                      ..+...|+||.|.++.++.|.+.+.+.     .+...+..|++|||||||||||||++|++||+++|.+|+.++   +++
T Consensus       175 ~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~---~s~  251 (437)
T 4b4t_I          175 KSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIV---GSE  251 (437)
T ss_dssp             SSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEE---SGG
T ss_pred             cCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEE---HHH
Confidence            356789999999999999888877763     233455678899999999999999999999999999999999   899


Q ss_pred             hhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          426 SMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       426 ~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++++|+|++.++   +..+|..++.++||||||
T Consensus       252 l~sk~vGesek~---ir~lF~~Ar~~aP~IIfi  281 (437)
T 4b4t_I          252 LIQKYLGDGPRL---CRQIFKVAGENAPSIVFI  281 (437)
T ss_dssp             GCCSSSSHHHHH---HHHHHHHHHHTCSEEEEE
T ss_pred             hhhccCchHHHH---HHHHHHHHHhcCCcEEEE
Confidence            999999999665   456778899999999997

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.76  E-value=8.5e-19  Score=182.35  Aligned_cols=102  Identities=22%  Similarity=0.291  Sum_probs=87.3

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHH-----HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchh
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKAT-----ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPR  425 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~-----~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se  425 (458)
                      ..+...|+||.|.++.++.|...+.+.     .+...+..|++|+|||||||||||++|++||+++|.+|+.++   +++
T Consensus       165 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~---~~~  241 (428)
T 4b4t_K          165 EKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVN---GSE  241 (428)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEE---GGG
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEe---cch
Confidence            346779999999999999887776652     233445688999999999999999999999999999999999   999


Q ss_pred             hhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          426 SMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       426 ~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++++|+|++.+.   +..+|..++.++||||||
T Consensus       242 l~~~~~Ge~e~~---ir~lF~~A~~~aP~Iifi  271 (428)
T 4b4t_K          242 FVHKYLGEGPRM---VRDVFRLARENAPSIIFI  271 (428)
T ss_dssp             TCCSSCSHHHHH---HHHHHHHHHHTCSEEEEE
T ss_pred             hhccccchhHHH---HHHHHHHHHHcCCCeeec
Confidence            999999998654   556788899999999996

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.73  E-value=4.7e-18  Score=177.01  Aligned_cols=102  Identities=21%  Similarity=0.259  Sum_probs=87.5

Q ss_pred             CCCCCCCccccCChHHHHHHHHHHHHH-----HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchh
Q 012671          351 VEAIKNNGDIILHPSLQRRIQHLAKAT-----ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPR  425 (458)
Q Consensus       351 ~~~~~~~~dvi~~~~l~~~l~~l~~~~-----~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se  425 (458)
                      ..+...|+||.|.++.++.|...+.+.     .+.+.+..|++|||||||||||||++|++||+++|.+|+.++   +++
T Consensus       174 ~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~---~s~  250 (434)
T 4b4t_M          174 EKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLA---APQ  250 (434)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEE---GGG
T ss_pred             CCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEe---hhh
Confidence            357779999999999999887766552     223445688899999999999999999999999999999999   999


Q ss_pred             hhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          426 SMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       426 ~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++++|+|++.++   +..+|..++.++||||||
T Consensus       251 l~~~~vGese~~---ir~lF~~A~~~aP~Iifi  280 (434)
T 4b4t_M          251 LVQMYIGEGAKL---VRDAFALAKEKAPTIIFI  280 (434)
T ss_dssp             GCSSCSSHHHHH---HHHHHHHHHHHCSEEEEE
T ss_pred             hhhcccchHHHH---HHHHHHHHHhcCCeEEee
Confidence            999999998654   557788899999999996

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.71  E-value=1.2e-17  Score=174.27  Aligned_cols=101  Identities=17%  Similarity=0.312  Sum_probs=87.2

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHH-H----hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKAT-A----NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~-~----~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~  426 (458)
                      .+...|+||.|.++.++.|.+.+.+. .    +...+..|++|||||||||||||++|++||+++|.+|+.++   ++++
T Consensus       203 ~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs---~s~L  279 (467)
T 4b4t_H          203 KPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVI---GSEL  279 (467)
T ss_dssp             SCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEE---GGGG
T ss_pred             CCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEE---hHHh
Confidence            46789999999999999888776652 2    23345688999999999999999999999999999999999   9999


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          427 MRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       427 ~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++|+|++.++   +..+|..++.++||||||
T Consensus       280 ~sk~vGesek~---ir~lF~~Ar~~aP~IIfi  308 (467)
T 4b4t_H          280 VQKYVGEGARM---VRELFEMARTKKACIIFF  308 (467)
T ss_dssp             CCCSSSHHHHH---HHHHHHHHHHTCSEEEEE
T ss_pred             hcccCCHHHHH---HHHHHHHHHhcCCceEee
Confidence            99999998765   457788899999999996

>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=99.55  E-value=2.6e-15  Score=166.71  Aligned_cols=101  Identities=23%  Similarity=0.324  Sum_probs=86.8

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHH-----hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATA-----NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~-----~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~  426 (458)
                      .+...|++|.|.++.++.|..++.+..     +.+.+..|++++|||||||||||++|++||.+++.+|+.++   ++++
T Consensus       471 ~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~---~~~l  547 (806)
T 3cf2_A          471 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK---GPEL  547 (806)
T ss_dssp             CCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECC---HHHH
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEec---cchh
Confidence            456789999999999998887776532     12334578899999999999999999999999999999998   9999


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          427 MRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       427 ~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++|+|++.+   .+..+|+.++.++||||||
T Consensus       548 ~s~~vGese~---~vr~lF~~Ar~~~P~Iifi  576 (806)
T 3cf2_A          548 LTMWFGESEA---NVREIFDKARQAAPCVLFF  576 (806)
T ss_dssp             HTTTCSSCHH---HHHHHHHHHHTTCSEEEEC
T ss_pred             hccccchHHH---HHHHHHHHHHHcCCceeec
Confidence            9999999865   4567888999999999997

>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=99.53  E-value=8.3e-15  Score=162.71  Aligned_cols=101  Identities=27%  Similarity=0.355  Sum_probs=86.4

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHH-HHh----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKA-TAN----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRS  426 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~-~~~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~  426 (458)
                      .+..+|+||.|.++.+..|..++.+ ..+    ...+..|+++||||||||||||+||++||.++|.+++.++   ++++
T Consensus       198 ~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~---~~~l  274 (806)
T 3cf2_A          198 LNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN---GPEI  274 (806)
T ss_dssp             SSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEE---HHHH
T ss_pred             CCCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEE---hHHh
Confidence            4567899999999999988887765 233    2334578999999999999999999999999999999998   9999


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          427 MRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       427 ~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++|+|++.+.   +..+|..++.++||||||
T Consensus       275 ~sk~~gese~~---lr~lF~~A~~~~PsIIfI  303 (806)
T 3cf2_A          275 MSKLAGESESN---LRKAFEEAEKNAPAIIFI  303 (806)
T ss_dssp             HSSCTTHHHHH---HHHHHHHHTTSCSEEEEE
T ss_pred             hcccchHHHHH---HHHHHHHHHHcCCeEEEE
Confidence            99999988665   456788899999999997

>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=99.47  E-value=9.1e-14  Score=138.92  Aligned_cols=101  Identities=17%  Similarity=0.279  Sum_probs=83.7

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHh----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATAN----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      .+...|++|+|+...++.|..++.+...    ......|++++|||||||||||++|++||.+++.+|+.++   ++++.
T Consensus        12 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~---~~~l~   88 (322)
T 3eie_A           12 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVS---SSDLV   88 (322)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEE---HHHHH
T ss_pred             CCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEc---hHHHh
Confidence            3566899999999999988877765432    1234567789999999999999999999999999999998   88999


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+|+|+....   +..+|..++...|+||||
T Consensus        89 ~~~~g~~~~~---~~~~f~~a~~~~~~vl~i  116 (322)
T 3eie_A           89 SKWMGESEKL---VKQLFAMARENKPSIIFI  116 (322)
T ss_dssp             TTTGGGHHHH---HHHHHHHHHHTSSEEEEE
T ss_pred             hcccchHHHH---HHHHHHHHHhcCCeEEEe
Confidence            9999987554   446777888899999996

>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=99.45  E-value=1.8e-13  Score=135.59  Aligned_cols=100  Identities=23%  Similarity=0.340  Sum_probs=82.5

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHH-----hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATA-----NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~-----~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      +...|++|+|.+..++.|..++.+..     ....+..+++++|||||||||||++|++||..++.+++.++   +++++
T Consensus        10 ~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~---~~~l~   86 (301)
T 3cf0_A           10 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK---GPELL   86 (301)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEEC---HHHHH
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEE---hHHHH
Confidence            56689999999999998887776531     22233467789999999999999999999999999999888   88899


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++|+|+....   +..+|..+....||||||
T Consensus        87 ~~~~g~~~~~---~~~~f~~a~~~~p~il~i  114 (301)
T 3cf0_A           87 TMWFGESEAN---VREIFDKARQAAPCVLFF  114 (301)
T ss_dssp             HHHHTTCTTH---HHHHHHHHHHTCSEEEEE
T ss_pred             hhhcCchHHH---HHHHHHHHHhcCCeEEEE
Confidence            9999977544   456777888889999986

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.45  E-value=1.1e-13  Score=138.68  Aligned_cols=100  Identities=17%  Similarity=0.303  Sum_probs=81.4

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHH-hhh---hhcCCCcceeeecCCCCChHHHHHHHHHHh-Ccceeeeccccchhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATA-NTK---IHQAPFRNMLFYGPPGTGKTMVAREIARKS-EEMLHLLVHRLLPRSM  427 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~-~~~---~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-g~~~~~~~~~~~se~~  427 (458)
                      +...|+||+|.+++++.|...+.+.. +..   ....|++++|||||||||||++|++||.++ +.+|+.++   +++++
T Consensus         7 ~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~---~~~l~   83 (322)
T 1xwi_A            7 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSIS---SSDLV   83 (322)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEE---CCSSC
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEE---hHHHH
Confidence            55689999999999998887776532 222   224677999999999999999999999999 88998888   78888


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+|+|+..+.   +..+|..++...|+||||
T Consensus        84 ~~~~g~~~~~---~~~lf~~a~~~~~~vl~i  111 (322)
T 1xwi_A           84 SKWLGESEKL---VKNLFQLARENKPSIIFI  111 (322)
T ss_dssp             CSSCCSCHHH---HHHHHHHHHHTSSEEEEE
T ss_pred             hhhhhHHHHH---HHHHHHHHHhcCCcEEEe
Confidence            8999977554   446677788899999996

>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=99.40  E-value=3e-13  Score=137.36  Aligned_cols=100  Identities=17%  Similarity=0.265  Sum_probs=78.4

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHH-h---hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATA-N---TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~-~---~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|++|+|+.+.++.|...+.+.. +   ......|+++||||||||||||++|++||.+++.+|+.++   +++++.
T Consensus        46 ~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~---~~~l~~  122 (355)
T 2qp9_X           46 PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVS---SSDLVS  122 (355)
T ss_dssp             -CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEE---HHHHHS
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEee---HHHHhh
Confidence            55689999999999998887765432 1   2223467789999999999999999999999999999988   888889


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +|+|+....   +..+|..++...|+||||
T Consensus       123 ~~~g~~~~~---~~~~f~~a~~~~~~vl~i  149 (355)
T 2qp9_X          123 KWMGESEKL---VKQLFAMARENKPSIIFI  149 (355)
T ss_dssp             CC---CHHH---HHHHHHHHHHTSSEEEEE
T ss_pred             hhcchHHHH---HHHHHHHHHHcCCeEEEE
Confidence            999977554   445677788889999996

>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=99.39  E-value=7.3e-13  Score=126.94  Aligned_cols=98  Identities=18%  Similarity=0.224  Sum_probs=77.3

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhh----hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhh
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~----~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~  430 (458)
                      ..|++++|.+..++.+..++....+...    +..+++++|||||||||||++|++||..++.+++.+.   ++++...+
T Consensus         3 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~---~~~~~~~~   79 (262)
T 2qz4_A            3 VSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMA---GAEFVEVI   79 (262)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEE---TTTTSSSS
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEec---hHHHHhhc
Confidence            4799999999999999888776443222    2356789999999999999999999999999999988   66666777


Q ss_pred             hhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          431 IGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       431 ~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .|.....   +..+|..+....|+||||
T Consensus        80 ~~~~~~~---~~~~~~~a~~~~~~vl~i  104 (262)
T 2qz4_A           80 GGLGAAR---VRSLFKEARARAPCIVYI  104 (262)
T ss_dssp             TTHHHHH---HHHHHHHHHHTCSEEEEE
T ss_pred             cChhHHH---HHHHHHHHHhcCCeEEEE
Confidence            7765433   445677777788999986

>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=99.37  E-value=7e-13  Score=138.65  Aligned_cols=100  Identities=17%  Similarity=0.302  Sum_probs=72.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHH-hh---hhhcCCCcceeeecCCCCChHHHHHHHHHHh-Ccceeeeccccchhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATA-NT---KIHQAPFRNMLFYGPPGTGKTMVAREIARKS-EEMLHLLVHRLLPRSM  427 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~-~~---~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-g~~~~~~~~~~~se~~  427 (458)
                      +...|+||+|+..++..|...+.+.. +.   .....|++++|||||||||||++|++||.++ +.+|+.++   +++++
T Consensus       129 ~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~---~~~l~  205 (444)
T 2zan_A          129 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSIS---SSDLV  205 (444)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEEC---CC---
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEe---HHHHH
Confidence            55689999999999988877665431 11   1224677999999999999999999999999 88998888   78888


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+|+|+....   +..+|..++...|+||||
T Consensus       206 ~~~~g~~~~~---~~~~f~~a~~~~~~vl~i  233 (444)
T 2zan_A          206 SKWLGESEKL---VKNLFQLARENKPSIIFI  233 (444)
T ss_dssp             ------CCCT---HHHHHHHHHHSCSEEEEE
T ss_pred             hhhcchHHHH---HHHHHHHHHHcCCeEEEE
Confidence            9999987554   445677788889999996

>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=99.36  E-value=1.5e-12  Score=137.34  Aligned_cols=100  Identities=20%  Similarity=0.245  Sum_probs=82.9

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhh----hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~----~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|+||+|.++.+..+..+.....+.    ..+..+++++|||||||||||++|++||..++.+|+.++   ++++++
T Consensus        11 ~~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is---~~~~~~   87 (476)
T 2ce7_A           11 KRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHIS---GSDFVE   87 (476)
T ss_dssp             CCCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEE---GGGTTT
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCC---HHHHHH
Confidence            4568999999999999888887764432    223456789999999999999999999999999999998   788888


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .|+|.....   +..+|..+....||||||
T Consensus        88 ~~~g~~~~~---~r~lf~~A~~~~p~ILfI  114 (476)
T 2ce7_A           88 LFVGVGAAR---VRDLFAQAKAHAPCIVFI  114 (476)
T ss_dssp             CCTTHHHHH---HHHHHHHHHHTCSEEEEE
T ss_pred             HHhcccHHH---HHHHHHHHHhcCCCEEEE
Confidence            888876543   456788888899999996

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=99.35  E-value=1.3e-11  Score=138.75  Aligned_cols=220  Identities=19%  Similarity=0.187  Sum_probs=131.9

Q ss_pred             hHHHHHHHHHHHHHHHHHhchHHHhhhHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Q 012671          154 EDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEE---QIQAQQRLTEKERAEIERETIRVKAMAEAEGRAH  230 (458)
Q Consensus       154 ~D~L~rkr~q~e~e~~~~~~e~~~~~qees~~rqE~~r~~~e~---~l~~lr~~~e~e~~~l~~~~~~~k~~~e~~~r~~  230 (458)
                      =|+++|+.++.+.+...+.++.    +..+..|++.++++...   ++.+++.+|+.++..+......+..+.+++..+.
T Consensus       403 l~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  478 (854)
T 1qvr_A          403 IDALERKKLQLEIEREALKKEK----DPDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIE  478 (854)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCS----SHHHHSCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcc----ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            3678888888888888888774    33455566666666554   7888999999999999999999999988888888


Q ss_pred             HHHhhcChhHHHHHHHHHhhhHHHHHhhchhhhhhHHHHHHhhccccceeeeecccceeeeeeeecccccccchhHHHHH
Q 012671          231 EAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRI  310 (458)
Q Consensus       231 ~~r~n~D~~le~~~~~a~~~r~~~l~~i~~~~~~lg~gl~~ll~D~dklv~~v~g~t~Lavgvyta~~~~~v~~~~~e~~  310 (458)
                      .+.++.|+      .++.+.++..++.+......+...     +....++.....              ...+...+.++
T Consensus       479 ~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~v~--------------~~~l~~~v~~~  533 (854)
T 1qvr_A          479 LAERQYDL------NRAAELRYGELPKLEAEVEALSEK-----LRGARFVRLEVT--------------EEDIAEIVSRW  533 (854)
T ss_dssp             HHTTTTCH------HHHHHHHTTHHHHHHHHHHHHHHH-----SSSCSSCCSEEC--------------HHHHHHHHHTT
T ss_pred             HHHhcccH------HHHHHHhhhhhHHHHHHHHHHHhh-----hcccccccCCcC--------------HHHHHHHHHHH
Confidence            88888888      455666666666654433222110     100011111110              11122223333


Q ss_pred             hCCCcchhhcccCCCCcccchhhhhHHHhhhcccCCCCCCCCCCCCCccccCChHHHHHHHHHHHHHHh-hhhhcCCCcc
Q 012671          311 LGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATAN-TKIHQAPFRN  389 (458)
Q Consensus       311 Lg~p~lvRe~sr~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~dvi~~~~l~~~l~~l~~~~~~-~~~~~~p~rn  389 (458)
                      +|.|...-..+.     ...+......                  -+++|+|+......+...+..... ......|..+
T Consensus       534 ~~ip~~~~~~~~-----~~~l~~l~~~------------------l~~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~  590 (854)
T 1qvr_A          534 TGIPVSKLLEGE-----REKLLRLEEE------------------LHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGS  590 (854)
T ss_dssp             SSCHHHHTTCCH-----HHHHHSHHHH------------------HHHHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEE
T ss_pred             hCCChHhhcHHH-----HHHHHHHHHH------------------HhcccCCcHHHHHHHHHHHHHHhcccCCCCCCceE
Confidence            332211000000     0000000011                  134588998877766655543321 1222345568


Q ss_pred             eeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhh
Q 012671          390 MLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~  428 (458)
                      +||+||||||||++|++|+..+   +.+|+.+.   ++++..
T Consensus       591 vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~---~~~~~~  629 (854)
T 1qvr_A          591 FLFLGPTGVGKTELAKTLAATLFDTEEAMIRID---MTEYME  629 (854)
T ss_dssp             EEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEEC---TTTCCS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEe---chhccc
Confidence            9999999999999999999999   67777776   554443

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.33  E-value=1.5e-12  Score=136.43  Aligned_cols=97  Identities=20%  Similarity=0.185  Sum_probs=80.3

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC--cceeeeccccchhhhhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE--EMLHLLVHRLLPRSMRY  429 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g--~~~~~~~~~~~se~~~~  429 (458)
                      .+...|++++|+++..+.+..++....   .+..|++++|||||||||||++|++||..+|  .+|+.++   ++++..+
T Consensus        31 ~~~~~~~~iiG~~~~~~~l~~~~~~~~---~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~---~~~~~~~  104 (456)
T 2c9o_A           31 LAKQAASGLVGQENAREACGVIVELIK---SKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMV---GSEVYST  104 (456)
T ss_dssp             CBCSEETTEESCHHHHHHHHHHHHHHH---TTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEE---GGGGCCS
T ss_pred             ChhhchhhccCHHHHHHHHHHHHHHHH---hCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEe---HHHHHHH
Confidence            355678999999999888877665433   3445678999999999999999999999999  8888888   8889999


Q ss_pred             hhhhhhhhhhhhHHHHHHh---hhcCCceeeC
Q 012671          430 LIGRRNQRKACCFLLTRLM---HFYASATVYI  458 (458)
Q Consensus       430 ~~ge~~~~~~~i~~lf~~a---~~~~p~iifi  458 (458)
                      |+|+...    +..+|+.+   +...||||||
T Consensus       105 ~~~~~~~----~~~~f~~a~~~~~~~~~il~i  132 (456)
T 2c9o_A          105 EIKKTEV----LMENFRRAIGLRIKETKEVYE  132 (456)
T ss_dssp             SSCHHHH----HHHHHHHTEEEEEEEEEEEEE
T ss_pred             hhhhhHH----HHHHHHHHHhhhhcCCcEEEE
Confidence            9998754    34577777   8889999996

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.32  E-value=3.7e-12  Score=123.94  Aligned_cols=100  Identities=23%  Similarity=0.354  Sum_probs=79.3

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHH-Hh----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKAT-AN----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~-~~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      +...|++++|.+...+.|..++... .+    ...+..+++++|||||||||||++|++||..++.+++.+.   ++++.
T Consensus        12 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~---~~~~~   88 (285)
T 3h4m_A           12 PNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVV---GSELV   88 (285)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEE---GGGGC
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEe---hHHHH
Confidence            5568999999999988887666542 11    1222366789999999999999999999999999999988   78888


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ..+.|....   .+..+|..+....|+||||
T Consensus        89 ~~~~~~~~~---~~~~~~~~~~~~~~~vl~i  116 (285)
T 3h4m_A           89 KKFIGEGAS---LVKDIFKLAKEKAPSIIFI  116 (285)
T ss_dssp             CCSTTHHHH---HHHHHHHHHHHTCSEEEEE
T ss_pred             HhccchHHH---HHHHHHHHHHHcCCeEEEE
Confidence            888887644   3445677788889999986

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.31  E-value=3e-12  Score=123.12  Aligned_cols=100  Identities=17%  Similarity=0.228  Sum_probs=77.9

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhh----hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~----~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|++++|.+..++.+..++....+..    .+..+++++|||||||||||++|++|+..++.+++.+.   ++++.+
T Consensus         7 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~---~~~~~~   83 (257)
T 1lv7_A            7 IKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTIS---GSDFVE   83 (257)
T ss_dssp             SCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEEC---SCSSTT
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEe---HHHHHH
Confidence            45689999999999998888776644322    22355779999999999999999999999999998887   666777


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+.|....   .+..+|..+....|++|||
T Consensus        84 ~~~~~~~~---~~~~~~~~a~~~~~~il~i  110 (257)
T 1lv7_A           84 MFVGVGAS---RVRDMFEQAKKAAPCIIFI  110 (257)
T ss_dssp             SCCCCCHH---HHHHHHHHHHTTCSEEEEE
T ss_pred             HhhhhhHH---HHHHHHHHHHHcCCeeehh
Confidence            77776543   3445677788888999985

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.31  E-value=2.1e-12  Score=127.65  Aligned_cols=70  Identities=13%  Similarity=0.002  Sum_probs=56.2

Q ss_pred             hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHh----hhcCCceeeC
Q 012671          383 HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLM----HFYASATVYI  458 (458)
Q Consensus       383 ~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a----~~~~p~iifi  458 (458)
                      +..+++++|||||||||||++|++||..+|.+++.++   ++++..+|+|.......   .+|..+    +...||||||
T Consensus        32 ~~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~---~~~l~~~~~g~~~~~i~---~~f~~a~~~~~~~~~~vl~i  105 (293)
T 3t15_A           32 NIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMS---AGELESGNAGEPAKLIR---QRYREAAEIIRKGNMCCLFI  105 (293)
T ss_dssp             TCCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEE---HHHHHCC---HHHHHHH---HHHHHHHHHHTTSSCCCEEE
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEe---HHHhhhccCchhHHHHH---HHHHHHHHHHhcCCCeEEEE
Confidence            4466789999999999999999999999999999998   89999999997755443   455555    6779999986

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=99.31  E-value=1.7e-12  Score=125.42  Aligned_cols=100  Identities=17%  Similarity=0.235  Sum_probs=77.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhh----hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~----~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|++++|++...+.+..++....+..    .+..+++++|||||||||||++|++||..++.+++.+.   ++.+..
T Consensus         6 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~---~~~~~~   82 (268)
T 2r62_A            6 PNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMG---GSSFIE   82 (268)
T ss_dssp             CCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCC---SCTTTT
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEec---hHHHHH
Confidence            45679999999999888887776543322    23456789999999999999999999999999998887   677777


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+.|......+   .+|..+....|+||||
T Consensus        83 ~~~~~~~~~~~---~~~~~a~~~~~~vl~i  109 (268)
T 2r62_A           83 MFVGLGASRVR---DLFETAKKQAPSIIFI  109 (268)
T ss_dssp             SCSSSCSSSSS---TTHHHHHHSCSCEEEE
T ss_pred             hhcchHHHHHH---HHHHHHHhcCCeEEEE
Confidence            77776654433   3556677778999986

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.30  E-value=3.7e-12  Score=130.45  Aligned_cols=100  Identities=21%  Similarity=0.326  Sum_probs=74.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhh----hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~----~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      ....|++|+|+......|..++......    .....+.+++|||||||||||++|++||..++.+|+.++   ++++..
T Consensus       110 ~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~---~~~l~~  186 (389)
T 3vfd_A          110 TAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNIS---AASLTS  186 (389)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEC---SCCC--
T ss_pred             CCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEee---HHHhhc
Confidence            4457999999999988887776554321    122356789999999999999999999999999999998   788888


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .|+|....   .+..+|..++...|+||||
T Consensus       187 ~~~g~~~~---~~~~~~~~a~~~~~~il~i  213 (389)
T 3vfd_A          187 KYVGEGEK---LVRALFAVARELQPSIIFI  213 (389)
T ss_dssp             -----CHH---HHHHHHHHHHHSSSEEEEE
T ss_pred             cccchHHH---HHHHHHHHHHhcCCeEEEE
Confidence            89987654   3556778888899999996

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.29  E-value=3.3e-12  Score=125.27  Aligned_cols=100  Identities=18%  Similarity=0.249  Sum_probs=72.7

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHH-h----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATA-N----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~-~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      +...|+||.|.+++++.|...+.+.. +    ...+..+++|++||||||||||+|+++||..++.+++.+.   ++++.
T Consensus         5 ~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~---g~~l~   81 (274)
T 2x8a_A            5 PNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVK---GPELL   81 (274)
T ss_dssp             -------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEE---TTTTC
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEE---cHHHH
Confidence            45689999999999888876544322 2    2233466789999999999999999999999999888887   67777


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ..+.|+..+   .+..+|..++...|||+|+
T Consensus        82 ~~~~~~~~~---~i~~vf~~a~~~~p~i~~~  109 (274)
T 2x8a_A           82 NMYVGESER---AVRQVFQRAKNSAPCVIFF  109 (274)
T ss_dssp             SSTTHHHHH---HHHHHHHHHHHTCSEEEEE
T ss_pred             hhhhhHHHH---HHHHHHHHHHhcCCCeEee
Confidence            788887644   4556777788889999985

>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=99.29  E-value=4.7e-12  Score=128.44  Aligned_cols=100  Identities=21%  Similarity=0.289  Sum_probs=80.2

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHH-hhh---hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATA-NTK---IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~-~~~---~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|++++|+....+.|..++.+.. +..   ....+++++|||||||||||++|++||..++.+|+.++   ++++..
T Consensus        79 ~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~---~~~l~~  155 (357)
T 3d8b_A           79 PPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSIS---ASSLTS  155 (357)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEE---GGGGCC
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEe---hHHhhc
Confidence            45689999999999988887766532 111   12356789999999999999999999999999999988   788888


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .|.|.....   +..+|..+....|+||||
T Consensus       156 ~~~g~~~~~---~~~~~~~a~~~~~~vl~i  182 (357)
T 3d8b_A          156 KWVGEGEKM---VRALFAVARCQQPAVIFI  182 (357)
T ss_dssp             SSTTHHHHH---HHHHHHHHHHTCSEEEEE
T ss_pred             cccchHHHH---HHHHHHHHHhcCCeEEEE
Confidence            888876544   445667778889999996

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.29  E-value=5.4e-12  Score=123.66  Aligned_cols=100  Identities=20%  Similarity=0.318  Sum_probs=78.5

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHh-h---hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATAN-T---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~-~---~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|++++|++...+.+...+..... .   .....+++++|||||||||||++|++||..++.+|+.++   ++++..
T Consensus        16 ~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~---~~~l~~   92 (297)
T 3b9p_A           16 AKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATFLNIS---AASLTS   92 (297)
T ss_dssp             SCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEE---STTTSS
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEee---HHHHhh
Confidence            556899999999998888776655321 1   112356789999999999999999999999999999888   777788


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+.|.....   +..+|..+....|+||||
T Consensus        93 ~~~~~~~~~---~~~~~~~~~~~~~~vl~i  119 (297)
T 3b9p_A           93 KYVGDGEKL---VRALFAVARHMQPSIIFI  119 (297)
T ss_dssp             SSCSCHHHH---HHHHHHHHHHTCSEEEEE
T ss_pred             cccchHHHH---HHHHHHHHHHcCCcEEEe
Confidence            888866443   345667777889999986

>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=99.24  E-value=1.4e-11  Score=130.30  Aligned_cols=99  Identities=27%  Similarity=0.363  Sum_probs=80.5

Q ss_pred             CCCCccccCChHHHHHHHHHHHHH-H----hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKAT-A----NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~-~----~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      ..+|++++|.......|..++... .    ....+..+++++|||||||||||++|++|+..++.+|+.++   ++++.+
T Consensus       200 ~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn---~~~l~~  276 (489)
T 3hu3_A          200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN---GPEIMS  276 (489)
T ss_dssp             CCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEE---HHHHHT
T ss_pred             CCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEE---chHhhh
Confidence            457999999999888877766542 1    12223467789999999999999999999999999999998   889999


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .|+|+....   +..+|..+....|+||||
T Consensus       277 ~~~g~~~~~---~~~~f~~A~~~~p~iLfL  303 (489)
T 3hu3_A          277 KLAGESESN---LRKAFEEAEKNAPAIIFI  303 (489)
T ss_dssp             SCTTHHHHH---HHHHHHHHHHTCSEEEEE
T ss_pred             hhcchhHHH---HHHHHHHHHhcCCcEEEe
Confidence            999977543   456778888899999996

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.22  E-value=1.6e-11  Score=130.16  Aligned_cols=100  Identities=18%  Similarity=0.199  Sum_probs=81.2

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhh----hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~----~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|+||+|.++.+..+..+.....+..    .+..+++++|||||||||||+||++||..++.+++.++   ++++.+
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~---g~~~~~  102 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITAS---GSDFVE  102 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEE---GGGGTS
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEe---hhHHHH
Confidence            56789999999999999988887654432    22345678999999999999999999999999999888   677777


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .++|....   .+..+|..++...||||||
T Consensus       103 ~~~g~~~~---~v~~lfq~a~~~~p~il~I  129 (499)
T 2dhr_A          103 MFVGVGAA---RVRDLFETAKRHAPCIVFI  129 (499)
T ss_dssp             SCTTHHHH---HHHHHTTTSSSSSSCEEEE
T ss_pred             hhhhhHHH---HHHHHHHHHHhcCCCEEEE
Confidence            88886643   3556778887788999986

>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=99.15  E-value=9.2e-11  Score=112.49  Aligned_cols=101  Identities=18%  Similarity=0.201  Sum_probs=76.4

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhh----hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~----~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      .+...|+++++.++....+..+.....+.    ..+...+++++||||||||||+|+++|+..++..++.+.   +..+.
T Consensus        10 ~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~---~~~~~   86 (254)
T 1ixz_A           10 APKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITAS---GSDFV   86 (254)
T ss_dssp             CCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEE---HHHHH
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEee---HHHHH
Confidence            45678999999999998888877654322    122345678999999999999999999999998888877   56666


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ..+.|....   .+..+|+.+....|+++||
T Consensus        87 ~~~~~~~~~---~i~~~~~~~~~~~~~i~~~  114 (254)
T 1ixz_A           87 EMFVGVGAA---RVRDLFETAKRHAPCIVFI  114 (254)
T ss_dssp             HSCTTHHHH---HHHHHHHHHTTSSSEEEEE
T ss_pred             HHHhhHHHH---HHHHHHHHHHhcCCeEEEe
Confidence            666665433   3456677777778998875

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.08  E-value=3.2e-10  Score=110.52  Aligned_cols=100  Identities=18%  Similarity=0.203  Sum_probs=75.8

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhh----hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~----~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      +...|+++++.++....+..+.....+.    ..+...+++++||||||||||+|+++|+..++..++.+.   +..+..
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~---~~~~~~  111 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITAS---GSDFVE  111 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEE---HHHHHH
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEec---HHHHHH
Confidence            5678999999999999888887654332    122345678999999999999999999999998888877   566666


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+.|....   .+..+|..+....|+++||
T Consensus       112 ~~~~~~~~---~i~~~~~~~~~~~~~i~~i  138 (278)
T 1iy2_A          112 MFVGVGAA---RVRDLFETAKRHAPCIVFI  138 (278)
T ss_dssp             STTTHHHH---HHHHHHHHHHTSCSEEEEE
T ss_pred             HHhhHHHH---HHHHHHHHHHhcCCcEEeh
Confidence            66665432   3445677777778998875

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.03  E-value=3.4e-10  Score=111.20  Aligned_cols=91  Identities=23%  Similarity=0.288  Sum_probs=65.3

Q ss_pred             cccCChHHHHHHHHHHHHHHhhhhh-------cCCCcceeeecCCCCChHHHHHHHHHHhCc-------ceeeeccccch
Q 012671          359 DIILHPSLQRRIQHLAKATANTKIH-------QAPFRNMLFYGPPGTGKTMVAREIARKSEE-------MLHLLVHRLLP  424 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~~~~~-------~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~-------~~~~~~~~~~s  424 (458)
                      +++|++..++.+..++.........       ..+..++|||||||||||++|++||..++.       +++.++   .+
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~---~~  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVT---RD  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEEC---GG
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEc---HH
Confidence            5899999999888877765432221       355668999999999999999999999854       566666   77


Q ss_pred             hhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          425 RSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       425 e~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .++..++|......   ..+|..   ..++||||
T Consensus       109 ~l~~~~~g~~~~~~---~~~~~~---~~~~vl~i  136 (309)
T 3syl_A          109 DLVGQYIGHTAPKT---KEVLKR---AMGGVLFI  136 (309)
T ss_dssp             GTCCSSTTCHHHHH---HHHHHH---HTTSEEEE
T ss_pred             HhhhhcccccHHHH---HHHHHh---cCCCEEEE
Confidence            77788888654332   233333   36778875

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=99.01  E-value=6.7e-10  Score=112.42  Aligned_cols=94  Identities=18%  Similarity=0.203  Sum_probs=64.5

Q ss_pred             ccCChHHHHHHHHHHHHHHh-hhhh------cCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-hhh
Q 012671          360 IILHPSLQRRIQHLAKATAN-TKIH------QAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-YLI  431 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~-~~~~------~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-~~~  431 (458)
                      |+|++...+.+...+...+. ....      ..++.++|||||||||||++|++||..++.+|+.++   ++++.. .|+
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~---~~~l~~~~~~   93 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMAD---ATTLTEAGYV   93 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEE---HHHHTTCHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEec---hHHhcccccc
Confidence            78999888877665543222 1111      135689999999999999999999999999999988   666664 477


Q ss_pred             hhhhhhhhhhHHHHHHh----hhcCCceeeC
Q 012671          432 GRRNQRKACCFLLTRLM----HFYASATVYI  458 (458)
Q Consensus       432 ge~~~~~~~i~~lf~~a----~~~~p~iifi  458 (458)
                      |....  ..+..++..+    ....|+||||
T Consensus        94 g~~~~--~~~~~~~~~~~~~~~~~~~~vl~l  122 (363)
T 3hws_A           94 GEDVE--NIIQKLLQKCDYDVQKAQRGIVYI  122 (363)
T ss_dssp             HHHHT--HHHHHHHHHTTTCHHHHHHCEEEE
T ss_pred             cccHH--HHHHHHHHHhhhhHHhcCCcEEEE
Confidence            75421  1222333333    4456788875

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.83  E-value=6.6e-09  Score=104.44  Aligned_cols=65  Identities=20%  Similarity=0.257  Sum_probs=50.5

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc--ceeeec
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE--MLHLLV  419 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~--~~~~~~  419 (458)
                      .+...|++++|++.....+..+......   +..|++++|||||||||||++|++++..++.  +++.+.
T Consensus        38 ~p~~~~~~ivG~~~~~~~l~~l~~~~~~---~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~  104 (368)
T 3uk6_A           38 EPRQASQGMVGQLAARRAAGVVLEMIRE---GKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIA  104 (368)
T ss_dssp             CBCSEETTEESCHHHHHHHHHHHHHHHT---TCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEE
T ss_pred             CcCcchhhccChHHHHHHHHHHHHHHHc---CCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCccccc
Confidence            4555699999999988877766555433   3345689999999999999999999999985  555554

>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=98.81  E-value=6.9e-09  Score=105.37  Aligned_cols=71  Identities=17%  Similarity=0.242  Sum_probs=47.6

Q ss_pred             ccCChHHHHHHHHHHHHH-Hhhh---------------------hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          360 IILHPSLQRRIQHLAKAT-ANTK---------------------IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~-~~~~---------------------~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      |+|++.+++.|...+... ...+                     ....+..++|||||||||||++|++||..++.+|+.
T Consensus        23 viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~  102 (376)
T 1um8_A           23 VIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIAI  102 (376)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEE
T ss_pred             ccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence            899999988776555211 1111                     112345799999999999999999999999999988


Q ss_pred             eccccchhhh-hhhhhh
Q 012671          418 LVHRLLPRSM-RYLIGR  433 (458)
Q Consensus       418 ~~~~~~se~~-~~~~ge  433 (458)
                      +.   ++.+. .+|+|.
T Consensus       103 ~~---~~~~~~~~~~g~  116 (376)
T 1um8_A          103 SD---ATSLTEAGYVGE  116 (376)
T ss_dssp             EE---GGGCC-------
T ss_pred             ec---chhhhhcCcCCc
Confidence            77   44433 356664

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=98.81  E-value=6.7e-09  Score=101.37  Aligned_cols=71  Identities=23%  Similarity=0.330  Sum_probs=51.5

Q ss_pred             cccCChHHHHHHHHHHHHHHhh------hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-hhh
Q 012671          359 DIILHPSLQRRIQHLAKATANT------KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-YLI  431 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~~------~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-~~~  431 (458)
                      +|+|++...+.+...+...+..      .....++.++|||||||||||++|++|+..++.+++.+.   ++.+.. +|+
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~---~~~~~~~~~~   92 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVE---ATKFTEVGYV   92 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEE---GGGGSSCCSG
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEc---chhcccCCcc
Confidence            3889998888776555432110      011245679999999999999999999999999998887   555444 555


Q ss_pred             h
Q 012671          432 G  432 (458)
Q Consensus       432 g  432 (458)
                      |
T Consensus        93 ~   93 (310)
T 1ofh_A           93 G   93 (310)
T ss_dssp             G
T ss_pred             C
Confidence            5

>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=98.80  E-value=7.1e-09  Score=108.13  Aligned_cols=72  Identities=22%  Similarity=0.377  Sum_probs=53.6

Q ss_pred             cccCChHHHHHHHHHHHHHHh-hhh-----hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-hhh
Q 012671          359 DIILHPSLQRRIQHLAKATAN-TKI-----HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-YLI  431 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~-~~~-----~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-~~~  431 (458)
                      +|+|+.++++.+...+...+. ...     ...+++|+||+||||||||++|++||..++.+|+.+.   ++.+.+ +|+
T Consensus        16 ~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~---~~~~~~~g~v   92 (444)
T 1g41_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVE---ATKFTEVGYV   92 (444)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEE---GGGGC----C
T ss_pred             HhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeec---chhhccccee
Confidence            489999999987655544321 110     1135789999999999999999999999999999888   677777 588


Q ss_pred             hh
Q 012671          432 GR  433 (458)
Q Consensus       432 ge  433 (458)
                      |.
T Consensus        93 G~   94 (444)
T 1g41_A           93 GK   94 (444)
T ss_dssp             CC
T ss_pred             ec
Confidence            84

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.78  E-value=9.4e-09  Score=107.98  Aligned_cols=88  Identities=17%  Similarity=0.212  Sum_probs=58.2

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLL  423 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~  423 (458)
                      ...|++|||++.....+..++..        ....|+||+||||||||++|++||..+          |.+++.+.   +
T Consensus       176 ~~~ld~iiGr~~~i~~l~~~l~r--------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~---~  244 (468)
T 3pxg_A          176 EDSLDPVIGRSKEIQRVIEVLSR--------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLD---M  244 (468)
T ss_dssp             SSCSCCCCCCHHHHHHHHHHHHC--------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----
T ss_pred             cCCCCCccCcHHHHHHHHHHHhc--------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEee---C
Confidence            44688899998877765544321        234599999999999999999999997          66666655   4


Q ss_pred             hhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          424 PRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       424 se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +   .+|.|+.....   ..+|+.+....|+||||
T Consensus       245 ~---~~~~g~~e~~~---~~~~~~~~~~~~~iLfi  273 (468)
T 3pxg_A          245 G---TKYRGEFEDRL---KKVMDEIRQAGNIILFI  273 (468)
T ss_dssp             -----------CTTH---HHHHHHHHTCCCCEEEE
T ss_pred             C---ccccchHHHHH---HHHHHHHHhcCCeEEEE
Confidence            4   66777654433   34666777788999996

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.77  E-value=1.4e-08  Score=90.82  Aligned_cols=91  Identities=15%  Similarity=0.155  Sum_probs=55.7

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLL  423 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~  423 (458)
                      ...|+++++.++....+.....        .....++||+||||||||+++++++..+          +.+++.+.   +
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~--------~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~---~   86 (195)
T 1jbk_A           18 QGKLDPVIGRDEEIRRTIQVLQ--------RRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALD---M   86 (195)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHT--------SSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEEC---H
T ss_pred             hccccccccchHHHHHHHHHHh--------cCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEee---H
Confidence            3468889998876555443321        1335689999999999999999999987          55665555   4


Q ss_pred             hhhh--hhhhhhhhhhhhhhHHHHHHh-hhcCCceeeC
Q 012671          424 PRSM--RYLIGRRNQRKACCFLLTRLM-HFYASATVYI  458 (458)
Q Consensus       424 se~~--~~~~ge~~~~~~~i~~lf~~a-~~~~p~iifi  458 (458)
                      +.+.  ..+.|....   .+..++..+ +...|+||||
T Consensus        87 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~vl~i  121 (195)
T 1jbk_A           87 GALVAGAKYRGEFEE---RLKGVLNDLAKQEGNVILFI  121 (195)
T ss_dssp             HHHHTTTCSHHHHHH---HHHHHHHHHHHSTTTEEEEE
T ss_pred             HHHhccCCccccHHH---HHHHHHHHHhhcCCCeEEEE
Confidence            4443  233333222   222333322 3445777764

>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=98.76  E-value=1.4e-08  Score=98.20  Aligned_cols=69  Identities=23%  Similarity=0.285  Sum_probs=48.8

Q ss_pred             cCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhh-hhhhhhHHHHHHhhhcCCceeeC
Q 012671          384 QAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRN-QRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       384 ~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~-~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ..++.++|||||||||||++|++||..++.+|+.+.   .++   .++|... .....+..+|+.+....|+||||
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~---~~~---~~~g~~~~~~~~~~~~~~~~~~~~~~~vl~i  130 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKIC---SPD---KMIGFSETAKCQAMKKIFDDAYKSQLSCVVV  130 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEE---CGG---GCTTCCHHHHHHHHHHHHHHHHTSSEEEEEE
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEe---CHH---HhcCCchHHHHHHHHHHHHHHHhcCCcEEEE
Confidence            355679999999999999999999999999998886   333   2333211 11123445666666677888875

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.72  E-value=1.7e-08  Score=90.37  Aligned_cols=50  Identities=24%  Similarity=0.316  Sum_probs=37.4

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ...|+++++.+.....+.....        .....++||+||||||||+++++++..+
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~--------~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           18 AGKLDPVIGRDTEIRRAIQILS--------RRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHT--------SSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             ccccchhhcchHHHHHHHHHHh--------CCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            3468889998875554433221        1335689999999999999999999987

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.70  E-value=4.1e-08  Score=97.70  Aligned_cols=62  Identities=23%  Similarity=0.329  Sum_probs=51.1

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..|++++|+......+..++....   ....++.++||+||||||||++|++|+..++.+|+.++
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~---~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~   87 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAK---KRNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTA   87 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHH---HTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHH---hcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEec
Confidence            379999999988887766554432   23456679999999999999999999999999998887

>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=98.67  E-value=1.8e-08  Score=107.07  Aligned_cols=67  Identities=22%  Similarity=0.260  Sum_probs=50.8

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhh---------hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTK---------IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~---------~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      ...|++++|++...+.+..++.......         .+..+++++|||||||||||++|++||.++|.+++.++.
T Consensus        35 P~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~  110 (516)
T 1sxj_A           35 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNA  110 (516)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECT
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeC
Confidence            3478999999988887665554322111         011256799999999999999999999999999988873

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.66  E-value=3.3e-08  Score=109.68  Aligned_cols=88  Identities=17%  Similarity=0.224  Sum_probs=59.0

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLL  423 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~  423 (458)
                      ...|++++|++...+.+..++.        .....|+|||||||||||++|++||..+          +..++.+.   +
T Consensus       176 ~~~ld~iiG~~~~i~~l~~~l~--------~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~---~  244 (758)
T 3pxi_A          176 EDSLDPVIGRSKEIQRVIEVLS--------RRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLD---M  244 (758)
T ss_dssp             SSCSCCCCCCHHHHHHHHHHHH--------CSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----
T ss_pred             hCCCCCccCchHHHHHHHHHHh--------CCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEec---c
Confidence            4578889999887776654432        1234599999999999999999999997          66666655   3


Q ss_pred             hhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          424 PRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       424 se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                         ..+|.|+...+..   .+|+.+....|+||||
T Consensus       245 ---g~~~~G~~e~~l~---~~~~~~~~~~~~iLfi  273 (758)
T 3pxi_A          245 ---GTKYRGEFEDRLK---KVMDEIRQAGNIILFI  273 (758)
T ss_dssp             -----------CTTHH---HHHHHHHTCCCCEEEE
T ss_pred             ---cccccchHHHHHH---HHHHHHHhcCCEEEEE
Confidence               4556776655443   4566777789999996

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.65  E-value=6.4e-08  Score=107.32  Aligned_cols=71  Identities=23%  Similarity=0.318  Sum_probs=51.3

Q ss_pred             cccCChHHHHHHHHHHHHHHh-hhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhhhhh
Q 012671          359 DIILHPSLQRRIQHLAKATAN-TKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRYLIG  432 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~-~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~~~g  432 (458)
                      +|+|++.....+...+..... ......|..++||+||||||||++|++||..+   +.+++.++   ++++++.+.+
T Consensus       492 ~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~---~s~~~~~~~~  566 (758)
T 3pxi_A          492 RVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRID---MSEYMEKHST  566 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEE---GGGGCSSCCC
T ss_pred             cCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEe---chhccccccc
Confidence            488998887766555544322 12223444589999999999999999999998   45676666   8888876654

>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=98.63  E-value=8.1e-08  Score=94.61  Aligned_cols=62  Identities=27%  Similarity=0.490  Sum_probs=49.1

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..|++++|++.....+..++....   ....+..++||+||||||||++|++++..++.+++.++
T Consensus         9 ~~~~~~ig~~~~~~~l~~~l~~~~---~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~   70 (324)
T 1hqc_A            9 KTLDEYIGQERLKQKLRVYLEAAK---ARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTS   70 (324)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHHH---HHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEEC
T ss_pred             ccHHHhhCHHHHHHHHHHHHHHHH---ccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEe
Confidence            478899999987777665544322   12345679999999999999999999999999988776

>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=98.62  E-value=1e-07  Score=94.60  Aligned_cols=73  Identities=14%  Similarity=0.140  Sum_probs=47.7

Q ss_pred             CCCCCcccc-CChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhh
Q 012671          353 AIKNNGDII-LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi-~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~  428 (458)
                      +...|++++ ++... ..+..+.....+   ....+.++|||||||||||+++++|+..+   +.+++.++   +.++..
T Consensus         6 ~~~~f~~fv~g~~~~-~a~~~~~~~~~~---~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~---~~~~~~   78 (324)
T 1l8q_A            6 PKYTLENFIVGEGNR-LAYEVVKEALEN---LGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS---ADDFAQ   78 (324)
T ss_dssp             TTCCSSSCCCCTTTH-HHHHHHHHHHHT---TTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE---HHHHHH
T ss_pred             CCCCcccCCCCCcHH-HHHHHHHHHHhC---cCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE---HHHHHH
Confidence            456788887 43322 222222222111   12245799999999999999999999998   78888877   566655


Q ss_pred             hhhh
Q 012671          429 YLIG  432 (458)
Q Consensus       429 ~~~g  432 (458)
                      .+.+
T Consensus        79 ~~~~   82 (324)
T 1l8q_A           79 AMVE   82 (324)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5554

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.61  E-value=3.6e-08  Score=103.05  Aligned_cols=59  Identities=29%  Similarity=0.452  Sum_probs=46.2

Q ss_pred             CCCCccccCChHHH---HHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          354 IKNNGDIILHPSLQ---RRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       354 ~~~~~dvi~~~~l~---~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      ...|++++|+..+.   ..+...+..        ....++|||||||||||++|++|+..++.+|+.++.
T Consensus        22 P~~l~~ivGq~~~~~~~~~L~~~i~~--------~~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a   83 (447)
T 3pvs_A           22 PENLAQYIGQQHLLAAGKPLPRAIEA--------GHLHSMILWGPPGTGKTTLAEVIARYANADVERISA   83 (447)
T ss_dssp             CCSTTTCCSCHHHHSTTSHHHHHHHH--------TCCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEET
T ss_pred             CCCHHHhCCcHHHHhchHHHHHHHHc--------CCCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEe
Confidence            45789999999887   344433322        112589999999999999999999999999988773

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.60  E-value=5.2e-08  Score=107.91  Aligned_cols=68  Identities=19%  Similarity=0.241  Sum_probs=49.2

Q ss_pred             cccCChHHHHHHHHHHHHHH-hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhh
Q 012671          359 DIILHPSLQRRIQHLAKATA-NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRY  429 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~-~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~  429 (458)
                      +|+|+++....+...+.... .......|..++||+||||||||++|++||..++.+++.+.   ++++++.
T Consensus       459 ~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~---~s~~~~~  527 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFD---MSEYMER  527 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEE---GGGCSSS
T ss_pred             hccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEe---chhhcch
Confidence            47788877776655443322 11122345568999999999999999999999998888777   7776653

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.57  E-value=1.4e-07  Score=85.41  Aligned_cols=72  Identities=18%  Similarity=0.094  Sum_probs=46.3

Q ss_pred             CCCccccCC-hHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----Ccceeeeccccchhhhhh
Q 012671          355 KNNGDIILH-PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLVHRLLPRSMRY  429 (458)
Q Consensus       355 ~~~~dvi~~-~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~~~~~se~~~~  429 (458)
                      ..|++++.. +.....+..+..+..+...  .+..+++|+||||||||+|+++|++.+    |..++.++   +.+++..
T Consensus         7 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~--~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~---~~~~~~~   81 (180)
T 3ec2_A            7 ANLDTYHPKNVSQNRALLTIRVFVHNFNP--EEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFD---TKDLIFR   81 (180)
T ss_dssp             CCSSSCCCCSHHHHHHHHHHHHHHHSCCG--GGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEE---HHHHHHH
T ss_pred             CccccccCCCHHHHHHHHHHHHHHHhccc--cCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEE---HHHHHHH
Confidence            467777763 3444455444444333222  224689999999999999999999887    55555555   5555544


Q ss_pred             hh
Q 012671          430 LI  431 (458)
Q Consensus       430 ~~  431 (458)
                      +.
T Consensus        82 ~~   83 (180)
T 3ec2_A           82 LK   83 (180)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.57  E-value=3e-08  Score=87.09  Aligned_cols=53  Identities=13%  Similarity=0.102  Sum_probs=37.4

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ++|.......+...+....      ....+|||+||||||||++|++|+..++ +|+.++
T Consensus         6 ~iG~s~~~~~l~~~~~~~~------~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~   58 (143)
T 3co5_A            6 KLGNSAAIQEMNREVEAAA------KRTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPA   58 (143)
T ss_dssp             --CCCHHHHHHHHHHHHHH------TCSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCS
T ss_pred             ceeCCHHHHHHHHHHHHHh------CCCCcEEEECCCCccHHHHHHHHHHhCC-CeEEec
Confidence            6777666555544443221      2245899999999999999999999988 777666

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.57  E-value=6.4e-08  Score=85.10  Aligned_cols=32  Identities=25%  Similarity=0.353  Sum_probs=28.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ..+|||+||||||||++|++|+..+   +.+|+ +.
T Consensus        24 ~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~   58 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YR   58 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EE
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EE
Confidence            4589999999999999999999987   66777 65

>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=98.57  E-value=1e-07  Score=94.33  Aligned_cols=60  Identities=18%  Similarity=0.216  Sum_probs=48.2

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      +..|++++|+++....+..++.       .+.++..+|++||||||||+++++||+.++.+++.++.
T Consensus        22 P~~~~~ivg~~~~~~~l~~~l~-------~~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~   81 (324)
T 3u61_B           22 PSTIDECILPAFDKETFKSITS-------KGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNG   81 (324)
T ss_dssp             CCSTTTSCCCHHHHHHHHHHHH-------TTCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEET
T ss_pred             CCCHHHHhCcHHHHHHHHHHHH-------cCCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcc
Confidence            3578999999988777665544       23344567888999999999999999999999998883

>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=98.52  E-value=1.4e-07  Score=106.01  Aligned_cols=91  Identities=16%  Similarity=0.202  Sum_probs=58.4

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLL  423 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~  423 (458)
                      ...|++++|.++...++..++.        .....|+||+||||||||+++++||..+          +.+++.+.   +
T Consensus       166 ~~~ld~viGr~~~i~~l~~~l~--------~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~---~  234 (854)
T 1qvr_A          166 EGKLDPVIGRDEEIRRVIQILL--------RRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQ---M  234 (854)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHH--------CSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEEC---C
T ss_pred             cCCCcccCCcHHHHHHHHHHHh--------cCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEee---h
Confidence            4578899999876665554331        1234589999999999999999999997          66777666   5


Q ss_pred             hhhh--hhhhhhhhhhhhhhHHHHHHhhhc-CCceeeC
Q 012671          424 PRSM--RYLIGRRNQRKACCFLLTRLMHFY-ASATVYI  458 (458)
Q Consensus       424 se~~--~~~~ge~~~~~~~i~~lf~~a~~~-~p~iifi  458 (458)
                      +.++  .+|.|+...+.   ..++..+... .|+||||
T Consensus       235 ~~l~~g~~~~g~~~~~l---~~~~~~~~~~~~~~iL~I  269 (854)
T 1qvr_A          235 GSLLAGAKYRGEFEERL---KAVIQEVVQSQGEVILFI  269 (854)
T ss_dssp             -----------CHHHHH---HHHHHHHHTTCSSEEEEE
T ss_pred             HHhhccCccchHHHHHH---HHHHHHHHhcCCCeEEEE
Confidence            5554  45666554433   3445555544 6889886

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.52  E-value=2e-07  Score=91.25  Aligned_cols=61  Identities=25%  Similarity=0.383  Sum_probs=42.8

Q ss_pred             cccCChHHHHHHHHHHHHHHh-hhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          359 DIILHPSLQRRIQHLAKATAN-TKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~-~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +++|+....+.+...+..... ......|..++||+||||||||++|++|+..+   +.+++.+.
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~   82 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRID   82 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEE
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEee
Confidence            377888877766555444321 12223445689999999999999999999998   44566555

>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=98.51  E-value=9.6e-08  Score=102.19  Aligned_cols=95  Identities=16%  Similarity=0.111  Sum_probs=56.4

Q ss_pred             ccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchh------hhhhhh
Q 012671          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPR------SMRYLI  431 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se------~~~~~~  431 (458)
                      ++++|..++.+.+..........  ...+..++||+||||||||++|++||..++.++..+......+      ....|+
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~--~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~~~~~i  158 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLT--KSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYV  158 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHS--SSCCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC---------------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhc--ccCCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhHHHHHh
Confidence            45888888888776544432211  1125678999999999999999999999999988876322111      112455


Q ss_pred             hhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          432 GRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       432 ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      |....   .+...|..+....| ||||
T Consensus       159 g~~~~---~~~~~~~~a~~~~~-vl~l  181 (543)
T 3m6a_A          159 GAMPG---RIIQGMKKAGKLNP-VFLL  181 (543)
T ss_dssp             --------CHHHHHHTTCSSSE-EEEE
T ss_pred             ccCch---HHHHHHHHhhccCC-EEEE
Confidence            54322   23345555655566 5553

>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=98.48  E-value=4.9e-08  Score=91.12  Aligned_cols=62  Identities=11%  Similarity=0.168  Sum_probs=40.0

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      +...|+++++.+.....+..+......     .+..++||+||||||||+++++++..++   ..++.+.
T Consensus        23 ~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~   87 (242)
T 3bos_A           23 DDETFTSYYPAAGNDELIGALKSAASG-----DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIP   87 (242)
T ss_dssp             TTCSTTTSCC--CCHHHHHHHHHHHHT-----CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCChhhccCCCCCHHHHHHHHHHHhC-----CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            446788888743223333333333221     2457999999999999999999999875   4444444

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.44  E-value=3.9e-07  Score=83.80  Aligned_cols=73  Identities=19%  Similarity=0.241  Sum_probs=45.2

Q ss_pred             CCCCccccCCh-HHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhhh
Q 012671          354 IKNNGDIILHP-SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMRY  429 (458)
Q Consensus       354 ~~~~~dvi~~~-~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~~  429 (458)
                      ...|+++++.. .....+..+..+...... ..++.+++||||||||||+++++|+..+   |.+++.+.   +++++..
T Consensus        21 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~---~~~~~~~   96 (202)
T 2w58_A           21 RASLSDVDLNDDGRIKAIRFAERFVAEYEP-GKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVY---VPELFRE   96 (202)
T ss_dssp             CCCTTSSCCSSHHHHHHHHHHHHHHHHCCS-SCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE---HHHHHHH
T ss_pred             cCCHhhccCCChhHHHHHHHHHHHHHHhhh-ccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE---hHHHHHH
Confidence            34677787655 333344433333322111 1123799999999999999999999988   45555555   5555444


Q ss_pred             h
Q 012671          430 L  430 (458)
Q Consensus       430 ~  430 (458)
                      +
T Consensus        97 ~   97 (202)
T 2w58_A           97 L   97 (202)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.43  E-value=4.7e-07  Score=94.31  Aligned_cols=73  Identities=11%  Similarity=0.148  Sum_probs=47.0

Q ss_pred             CCCCCCcccc-CChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh-----Ccceeeeccccchh
Q 012671          352 EAIKNNGDII-LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----EEMLHLLVHRLLPR  425 (458)
Q Consensus       352 ~~~~~~~dvi-~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-----g~~~~~~~~~~~se  425 (458)
                      .+...|++++ |+.... .+..+.....+   ... +.++|||||||||||+|+++|++.+     +..++.++   +..
T Consensus        99 ~~~~tfd~fv~g~~n~~-a~~~~~~~a~~---~~~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~---~~~  170 (440)
T 2z4s_A           99 NPDYTFENFVVGPGNSF-AYHAALEVAKH---PGR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT---SEK  170 (440)
T ss_dssp             CTTCSGGGCCCCTTTHH-HHHHHHHHHHS---TTS-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEE---HHH
T ss_pred             CCCCChhhcCCCCchHH-HHHHHHHHHhC---CCC-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee---HHH
Confidence            4556888887 433322 22222221111   112 5799999999999999999999998     67777776   555


Q ss_pred             hhhhhhh
Q 012671          426 SMRYLIG  432 (458)
Q Consensus       426 ~~~~~~g  432 (458)
                      +...+.+
T Consensus       171 ~~~~~~~  177 (440)
T 2z4s_A          171 FLNDLVD  177 (440)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555554

>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=98.42  E-value=3.4e-07  Score=91.64  Aligned_cols=64  Identities=25%  Similarity=0.419  Sum_probs=47.2

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ....|++++++..+...+...+..   .+..+.++.+++||||||||||+|+++||+.++.++...+
T Consensus        20 r~~~l~~~~g~~~~~~~l~~~i~~---~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~s   83 (334)
T 1in4_A           20 RPKSLDEFIGQENVKKKLSLALEA---AKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTS   83 (334)
T ss_dssp             SCSSGGGCCSCHHHHHHHHHHHHH---HHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCccHHHccCcHHHHHHHHHHHHH---HHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEe
Confidence            344788899988766655433322   1223456679999999999999999999999988776554

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.39  E-value=3.7e-07  Score=101.02  Aligned_cols=91  Identities=18%  Similarity=0.190  Sum_probs=60.1

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLL  423 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~  423 (458)
                      ...|++++|.+.....+..++.        .....|+||+||||||||++|++|+..+          +..++.+.   +
T Consensus       182 ~~~~d~~iGr~~~i~~l~~~l~--------~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~---~  250 (758)
T 1r6b_X          182 VGGIDPLIGREKELERAIQVLC--------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD---I  250 (758)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHT--------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECC---C
T ss_pred             cCCCCCccCCHHHHHHHHHHHh--------ccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEc---H
Confidence            3478889999876665544321        1245699999999999999999999987          33444443   4


Q ss_pred             hhhh--hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          424 PRSM--RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       424 se~~--~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +.++  .++.|....+   +..+++.+....++||||
T Consensus       251 ~~l~~~~~~~g~~e~~---l~~~~~~~~~~~~~iL~I  284 (758)
T 1r6b_X          251 GSLLAGTKYRGDFEKR---FKALLKQLEQDTNSILFI  284 (758)
T ss_dssp             C---CCCCCSSCHHHH---HHHHHHHHSSSSCEEEEE
T ss_pred             HHHhccccccchHHHH---HHHHHHHHHhcCCeEEEE
Confidence            4444  3455654433   334566677677889886

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=98.36  E-value=3.3e-07  Score=90.99  Aligned_cols=53  Identities=17%  Similarity=0.202  Sum_probs=42.2

Q ss_pred             CccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       357 ~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +++++|++++...+...+..          ..++|||||||||||++|++||..++.+++.+.
T Consensus        26 ~~~i~g~~~~~~~l~~~l~~----------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~   78 (331)
T 2r44_A           26 GKVVVGQKYMINRLLIGICT----------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQ   78 (331)
T ss_dssp             TTTCCSCHHHHHHHHHHHHH----------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ccceeCcHHHHHHHHHHHHc----------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEe
Confidence            45688998877655433222          249999999999999999999999999888766

>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=98.36  E-value=7.6e-07  Score=81.29  Aligned_cols=50  Identities=28%  Similarity=0.503  Sum_probs=38.7

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ...|++++++......+..++..        ....++||+||||||||++++.++..+
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           13 PRTLDEVVGQDEVIQRLKGYVER--------KNIPHLLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHT--------TCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHcCcHHHHHHHHHHHhC--------CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            45688899998877766654432        123469999999999999999999986

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=98.36  E-value=5.1e-07  Score=86.77  Aligned_cols=58  Identities=17%  Similarity=0.170  Sum_probs=37.7

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      .|++++|+......+...+....      ....++||+||||||||++|++|+..++   .+|+.++
T Consensus         4 ~f~~~ig~~~~~~~~~~~~~~~~------~~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~   64 (265)
T 2bjv_A            4 YKDNLLGEANSFLEVLEQVSHLA------PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLN   64 (265)
T ss_dssp             ------CCCHHHHHHHHHHHHHT------TSCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEE
T ss_pred             ccccceeCCHHHHHHHHHHHHHh------CCCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEe
Confidence            67888888776665443333211      1236999999999999999999999885   5677776

>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=98.35  E-value=4.2e-07  Score=107.73  Aligned_cols=106  Identities=12%  Similarity=0.111  Sum_probs=61.6

Q ss_pred             CCCCCCCCccccCChHHHHHHHHHHHHHHh--------------hhh-----------------hcCCCcc--eeeecCC
Q 012671          350 PVEAIKNNGDIILHPSLQRRIQHLAKATAN--------------TKI-----------------HQAPFRN--MLFYGPP  396 (458)
Q Consensus       350 ~~~~~~~~~dvi~~~~l~~~l~~l~~~~~~--------------~~~-----------------~~~p~rn--vLl~GPP  396 (458)
                      ......+|++|-+..+.+..+...+.+...              .+.                 .+.++++  +|+||||
T Consensus      1012 ~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~ 1091 (1706)
T 3cmw_A         1012 GSASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPE 1091 (1706)
T ss_dssp             ------------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECST
T ss_pred             cccCCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCC
Confidence            345668899998888777755555444321              112                 2446666  9999999


Q ss_pred             CCChHHHHHHHHHHhCcc---eeeeccc-cchhhh--------hhhhhh----hhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          397 GTGKTMVAREIARKSEEM---LHLLVHR-LLPRSM--------RYLIGR----RNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       397 GTGKT~lAkaLA~~~g~~---~~~~~~~-~~se~~--------~~~~ge----~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      |||||+||++++.+....   .+.|+.. .+++++        ++|+++    +.+   .+..+|..+++..||+||+
T Consensus      1092 g~GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~---~l~~~~~~ar~~~~~~i~~ 1166 (1706)
T 3cmw_A         1092 SSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQ---ALEICDALARSGAVDVIVV 1166 (1706)
T ss_dssp             TSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHH---HHHHHHHHHHHTCCSEEEE
T ss_pred             CCChHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHH---HHHHHHHHHHhcCCeEEEe
Confidence            999999999999988544   3333311 123333        566666    433   4566777889999999985

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.25  E-value=1.5e-06  Score=86.79  Aligned_cols=60  Identities=25%  Similarity=0.259  Sum_probs=42.9

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---------Ccceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---------EEMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---------g~~~~~~~  419 (458)
                      .++++++.+.....+..++...    .....+.+++||||||||||++++.++..+         +..++.++
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~----~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~   85 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPA----LRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVN   85 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGG----TSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEE
T ss_pred             CCCCCCCHHHHHHHHHHHHHHH----HcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEE
Confidence            3466888877666554432211    112446799999999999999999999998         67776666

>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=98.24  E-value=1.9e-06  Score=86.51  Aligned_cols=58  Identities=21%  Similarity=0.216  Sum_probs=43.4

Q ss_pred             ccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh-----------Ccceeeec
Q 012671          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----------EEMLHLLV  419 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-----------g~~~~~~~  419 (458)
                      +++++.+.....+..++.....    ...+++++||||||||||++++.++..+           +..++.++
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~----~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~   88 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVK----NEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVN   88 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHT----TCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEE
T ss_pred             CCCCChHHHHHHHHHHHHHHHc----CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEE
Confidence            5688888776666554433211    2445699999999999999999999987           77777766

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.24  E-value=1.7e-06  Score=86.57  Aligned_cols=29  Identities=3%  Similarity=0.029  Sum_probs=26.0

Q ss_pred             cCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          384 QAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       384 ~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..++.+++||||||||||++++.++.++.
T Consensus        42 ~~~~~~lli~GpPGTGKT~~v~~v~~~L~   70 (318)
T 3te6_A           42 SSQNKLFYITNADDSTKFQLVNDVMDELI   70 (318)
T ss_dssp             TTCCCEEEEECCCSHHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            35667999999999999999999999983

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.22  E-value=1e-06  Score=87.53  Aligned_cols=71  Identities=18%  Similarity=0.213  Sum_probs=42.7

Q ss_pred             CCCccccCCh-HHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC----cceeeeccccchhhhhh
Q 012671          355 KNNGDIILHP-SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE----EMLHLLVHRLLPRSMRY  429 (458)
Q Consensus       355 ~~~~dvi~~~-~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g----~~~~~~~~~~~se~~~~  429 (458)
                      ..|+++++.. .....+..+..+.....  ..+..+++||||||||||+||.+||..+.    .++..++   .++++..
T Consensus       121 ~tfd~f~~~~~~~~~~~~~~~~~i~~~~--~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~---~~~l~~~  195 (308)
T 2qgz_A          121 IHLSDIDVNNASRMEAFSAILDFVEQYP--SAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLH---FPSFAID  195 (308)
T ss_dssp             CCGGGSCCCSHHHHHHHHHHHHHHHHCS--CSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEE---HHHHHHH
T ss_pred             CCHhhCcCCChHHHHHHHHHHHHHHhcc--ccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE---HHHHHHH
Confidence            4677777644 22223332222222211  11357999999999999999999998765    4444444   4555444


Q ss_pred             h
Q 012671          430 L  430 (458)
Q Consensus       430 ~  430 (458)
                      +
T Consensus       196 l  196 (308)
T 2qgz_A          196 V  196 (308)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.21  E-value=9.3e-07  Score=86.56  Aligned_cols=51  Identities=33%  Similarity=0.557  Sum_probs=39.9

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ...|++++|++.....+..++..      +  .+.++|||||||||||++|++++..++
T Consensus        21 p~~~~~~~g~~~~~~~l~~~l~~------~--~~~~~ll~G~~G~GKT~la~~l~~~l~   71 (327)
T 1iqp_A           21 PQRLDDIVGQEHIVKRLKHYVKT------G--SMPHLLFAGPPGVGKTTAALALARELF   71 (327)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHH------T--CCCEEEEESCTTSSHHHHHHHHHHHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHHc------C--CCCeEEEECcCCCCHHHHHHHHHHHhc
Confidence            44688899999887777654432      1  223699999999999999999999864

>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=98.21  E-value=7.7e-07  Score=88.38  Aligned_cols=52  Identities=17%  Similarity=0.282  Sum_probs=38.7

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +...|++++|++.+...+.   .....     ....++|||||||||||++|++|+..++
T Consensus        19 ~~~~f~~i~G~~~~~~~l~---~~~~~-----~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           19 PVFPFSAIVGQEDMKLALL---LTAVD-----PGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCCCGGGSCSCHHHHHHHH---HHHHC-----GGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCCCchhccChHHHHHHHH---HHhhC-----CCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            5568999999988655432   11111     1124799999999999999999999986

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=98.17  E-value=5.4e-07  Score=95.42  Aligned_cols=44  Identities=20%  Similarity=0.318  Sum_probs=34.6

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      |+|++.+.+.+...+..          ..++||+||||||||++|++||..++.
T Consensus        24 ivGq~~~i~~l~~al~~----------~~~VLL~GpPGtGKT~LAraLa~~l~~   67 (500)
T 3nbx_X           24 LYERSHAIRLCLLAALS----------GESVFLLGPPGIAKSLIARRLKFAFQN   67 (500)
T ss_dssp             CSSCHHHHHHHHHHHHH----------TCEEEEECCSSSSHHHHHHHGGGGBSS
T ss_pred             hHHHHHHHHHHHHHHhc----------CCeeEeecCchHHHHHHHHHHHHHHhh
Confidence            78888877755433222          249999999999999999999998854

>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=98.13  E-value=1.5e-06  Score=84.86  Aligned_cols=59  Identities=24%  Similarity=0.415  Sum_probs=42.8

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh-----Ccceeeec
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----EEMLHLLV  419 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~-----g~~~~~~~  419 (458)
                      .+..|++++|++.....+...+..        ....++|||||||||||++|++++..+     +.+++.++
T Consensus        12 ~p~~~~~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   75 (319)
T 2chq_A           12 RPRTLDEVVGQDEVIQRLKGYVER--------KNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN   75 (319)
T ss_dssp             SCSSGGGSCSCHHHHHHHHTTTTT--------TCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEE
T ss_pred             CCCCHHHHhCCHHHHHHHHHHHhC--------CCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEe
Confidence            345688999999877766543221        223369999999999999999999986     33455554

>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=98.10  E-value=1.3e-05  Score=80.33  Aligned_cols=60  Identities=15%  Similarity=0.158  Sum_probs=42.4

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCc--ceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFR--NMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~r--nvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      .++++++.+.....+...+.....    +.++.  +++|+||||||||+++++++..+    +..++.++
T Consensus        15 ~p~~l~gr~~~~~~l~~~l~~~~~----~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~   80 (389)
T 1fnn_A           15 VPKRLPHREQQLQQLDILLGNWLR----NPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN   80 (389)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHH----STTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHc----CCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEe
Confidence            346788888776666554433221    12233  89999999999999999999998    45566555

>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=98.09  E-value=4.6e-06  Score=81.45  Aligned_cols=50  Identities=28%  Similarity=0.372  Sum_probs=38.8

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..|++++|++.....+...+..       + .+.++|||||||||||++|++++..+
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~-------~-~~~~~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKD-------G-NMPHMIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHS-------C-CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHc-------C-CCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            34688899999887766654321       1 22359999999999999999999986

>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=98.09  E-value=2.1e-06  Score=85.16  Aligned_cols=52  Identities=31%  Similarity=0.476  Sum_probs=39.4

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..|++++|+++....+...+.        ...+.++|||||||||||+++++|+..++.
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~--------~~~~~~~ll~G~~G~GKT~la~~la~~l~~   84 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLK--------SANLPHMLFYGPPGTGKTSTILALTKELYG   84 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTT--------CTTCCCEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHh--------cCCCCEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4468889999887776654321        122346999999999999999999998753

>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=98.09  E-value=3.6e-06  Score=77.49  Aligned_cols=54  Identities=20%  Similarity=0.227  Sum_probs=41.1

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ...|+++++++.....+......       +..+..+||+||||||||++++.++..++..
T Consensus        19 p~~~~~~~g~~~~~~~l~~~l~~-------~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~   72 (250)
T 1njg_A           19 PQTFADVVGQEHVLTALANGLSL-------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCE   72 (250)
T ss_dssp             CCSGGGCCSCHHHHHHHHHHHHH-------TCCCSEEEEECSTTSCHHHHHHHHHHHHHCT
T ss_pred             CccHHHHhCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            34678899998877766654432       2233579999999999999999999988653

>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=98.08  E-value=6.1e-06  Score=82.25  Aligned_cols=60  Identities=20%  Similarity=0.241  Sum_probs=42.4

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh------Ccceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS------EEMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~------g~~~~~~~  419 (458)
                      .++++++.+.....+.......    .....+.+++|+||||||||++++.++..+      +..++.+.
T Consensus        18 ~p~~~~gr~~e~~~l~~~l~~~----~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~   83 (386)
T 2qby_A           18 IPDELPHREDQIRKIASILAPL----YREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN   83 (386)
T ss_dssp             CCSCCTTCHHHHHHHHHSSGGG----GGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEE
T ss_pred             CCCCCCChHHHHHHHHHHHHHH----HcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEE
Confidence            4466888876655554332211    112445699999999999999999999988      66776665

>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=98.00  E-value=5.7e-06  Score=82.55  Aligned_cols=52  Identities=25%  Similarity=0.473  Sum_probs=39.0

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+..|++++|++.+...+...+..      +.  +.++|||||||||||++++++|+.+.
T Consensus        20 rp~~~~~~~g~~~~~~~L~~~i~~------g~--~~~~ll~Gp~G~GKTtla~~la~~l~   71 (340)
T 1sxj_C           20 RPETLDEVYGQNEVITTVRKFVDE------GK--LPHLLFYGPPGTGKTSTIVALAREIY   71 (340)
T ss_dssp             CCSSGGGCCSCHHHHHHHHHHHHT------TC--CCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHhc------CC--CceEEEECCCCCCHHHHHHHHHHHHc
Confidence            345788899998877766543321      22  23699999999999999999999863

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.99  E-value=7.8e-06  Score=80.86  Aligned_cols=54  Identities=24%  Similarity=0.267  Sum_probs=37.6

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ++|.......+...+...      .....+|||+||||||||++|++|+..+   +.+|+.++
T Consensus         4 iig~s~~~~~~~~~~~~~------a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~   60 (304)
T 1ojl_A            4 MIGSSPAMQHLLNEIAMV------APSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLN   60 (304)
T ss_dssp             CCCCSHHHHHHHHHHHHH------CSTTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEE
T ss_pred             cEECCHHHHHHHHHHHHH------hCCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEe
Confidence            566655444443333221      1234699999999999999999999976   56777776

>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=97.98  E-value=8.8e-06  Score=81.31  Aligned_cols=53  Identities=21%  Similarity=0.244  Sum_probs=40.9

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|++++|++.....+...+..       +..+..+|||||||||||+++++++..++.
T Consensus        12 p~~~~~~vg~~~~~~~L~~~l~~-------~~~~~~~ll~G~~G~GKT~la~~la~~l~~   64 (373)
T 1jr3_A           12 PQTFADVVGQEHVLTALANGLSL-------GRIHHAYLFSGTRGVGKTSIARLLAKGLNC   64 (373)
T ss_dssp             CCSTTTSCSCHHHHHHHHHHHHH-------TCCCSEEEEESCTTSSHHHHHHHHHHHHSC
T ss_pred             CCchhhccCcHHHHHHHHHHHHh-------CCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34688899999887776655432       223346899999999999999999998865

>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=97.97  E-value=5.6e-06  Score=80.66  Aligned_cols=27  Identities=33%  Similarity=0.496  Sum_probs=23.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..++|||||||||||++|.+||+.+++
T Consensus       104 ~n~~~l~GppgtGKt~~a~ala~~~~l  130 (267)
T 1u0j_A          104 RNTIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhhhcc
Confidence            346999999999999999999997644

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.89  E-value=9.1e-06  Score=76.28  Aligned_cols=29  Identities=21%  Similarity=0.377  Sum_probs=24.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      +++|||||||||||++|.+|++.++-.+.
T Consensus        59 n~ili~GPPGtGKTt~a~ala~~l~g~i~   87 (212)
T 1tue_A           59 NCLVFCGPANTGKSYFGMSFIHFIQGAVI   87 (212)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHHHHTCEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCee
Confidence            36999999999999999999999864443

>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=97.76  E-value=1e-05  Score=80.51  Aligned_cols=51  Identities=22%  Similarity=0.359  Sum_probs=37.6

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..|+++++++.....+...+.     ..  ....++||+||||||||+++++|++.+
T Consensus        10 P~~~~~~vg~~~~~~~l~~~~~-----~~--~~~~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           10 PKSLNALSHNEELTNFLKSLSD-----QP--RDLPHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTT-----CT--TCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHh-----hC--CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3468899999887776654320     11  122359999999999999999999964

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.69  E-value=2.3e-05  Score=69.42  Aligned_cols=34  Identities=12%  Similarity=0.199  Sum_probs=27.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +..+++|+||||||||+|+++|+..+   |...+.+.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~   71 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYID   71 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEc
Confidence            45689999999999999999999987   64444444

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.65  E-value=2.6e-05  Score=70.23  Aligned_cols=32  Identities=28%  Similarity=0.437  Sum_probs=28.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .++|+|+||||||||++++.|+..+|.+++..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~   36 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDS   36 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            45899999999999999999999999888754

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.64  E-value=3.4e-05  Score=69.00  Aligned_cols=32  Identities=19%  Similarity=0.228  Sum_probs=28.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..|+|.||||+|||++++.|+..++.+++.+.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~   35 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFG   35 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCeEEec
Confidence            47899999999999999999999998877643

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.53  E-value=5e-05  Score=69.72  Aligned_cols=34  Identities=26%  Similarity=0.345  Sum_probs=29.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .+...|+|.||||||||++++.|+..+|.+++..
T Consensus        23 ~~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~   56 (199)
T 3vaa_A           23 NAMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDL   56 (199)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            3456899999999999999999999999888654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.53  E-value=5.3e-05  Score=91.14  Aligned_cols=73  Identities=19%  Similarity=0.251  Sum_probs=45.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec--cccchhhhhhhhhhh---------hhhhhhhHHHHHHhhh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV--HRLLPRSMRYLIGRR---------NQRKACCFLLTRLMHF  450 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~--~~~~se~~~~~~ge~---------~~~~~~i~~lf~~a~~  450 (458)
                      .+.++++||||||||||+||.+++..+.   ...+.++  ....+.+.. ..|.-         .-.......++..++.
T Consensus      1425 ~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~-~~G~dl~~l~v~~~~~~E~~l~~~~~lvr~ 1503 (2050)
T 3cmu_A         1425 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYAR-KLGVDIDNLLCSQPDTGEQALEICDALARS 1503 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHH-HTTCCTTTCEEECCSSHHHHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHH-HcCCCchhceeecCChHHHHHHHHHHHHhc
Confidence            4567999999999999999999988763   3333333  111233322 22300         0001244566677888


Q ss_pred             cCCceeeC
Q 012671          451 YASATVYI  458 (458)
Q Consensus       451 ~~p~iifi  458 (458)
                      ..|++|||
T Consensus      1504 ~~~~lVVI 1511 (2050)
T 3cmu_A         1504 GAVDVIVV 1511 (2050)
T ss_dssp             TCCSEEEE
T ss_pred             CCCCEEEE
Confidence            89999986

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.52  E-value=5e-05  Score=68.27  Aligned_cols=33  Identities=36%  Similarity=0.520  Sum_probs=29.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..+|+|+||||+|||++++.|+..+|..++.+.
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~d   43 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSGLKYINVG   43 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEHH
Confidence            458999999999999999999999998887643

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.49  E-value=9.9e-05  Score=70.62  Aligned_cols=53  Identities=15%  Similarity=0.205  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          367 QRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       367 ~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ...+..+............++..++|.||||+|||++++.|+..++..++.+.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~   64 (253)
T 2p5t_B           12 KHALARNLRSLTRGKKSSKQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVIID   64 (253)
T ss_dssp             HHHHHHHHHHHHTTCCCCSSCEEEEEESCGGGTTHHHHHHHHHHTTTCCEEEC
T ss_pred             HHHHHHHHHHHHccCCcccCCeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEe
Confidence            33444443333222223344568899999999999999999999986555555

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.47  E-value=0.00013  Score=71.53  Aligned_cols=56  Identities=18%  Similarity=0.264  Sum_probs=37.2

Q ss_pred             hHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          364 PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       364 ~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .+..+.+..+.............+..++|.||||+|||++++.|+..++..++.++
T Consensus        10 ~~~~~~~~~~~~~~l~~~~~~~~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is   65 (287)
T 1gvn_B           10 KQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVID   65 (287)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEEC
T ss_pred             HHHHHHHHHHHHHHhccccCCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEe
Confidence            34455555555544433333334567889999999999999999998844444444

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.43  E-value=7.4e-05  Score=66.89  Aligned_cols=31  Identities=29%  Similarity=0.506  Sum_probs=27.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .+++|.||||+|||++++.||..+|.+|+..
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~~~~~d~   35 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLDLVFLDS   35 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            3789999999999999999999999887753

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=97.40  E-value=8.2e-05  Score=74.37  Aligned_cols=28  Identities=14%  Similarity=0.163  Sum_probs=23.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      .+.+||+||||||||+||..+|...|..
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~G~~  150 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEALGGK  150 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHHHTT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhCCCC
Confidence            3467999999999999999999876655

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.38  E-value=9.9e-05  Score=66.58  Aligned_cols=32  Identities=25%  Similarity=0.243  Sum_probs=28.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +..|+|.||||+|||++++.|+..+|..++..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~~   36 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGLRLPLLSK   36 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCeEecH
Confidence            45788999999999999999999999877653

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.37  E-value=0.0001  Score=65.11  Aligned_cols=30  Identities=17%  Similarity=0.155  Sum_probs=27.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|+|.||||+|||++++.|+..+|.+++..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~   32 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKG   32 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecC
Confidence            688999999999999999999999887654

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.37  E-value=0.00011  Score=65.36  Aligned_cols=30  Identities=30%  Similarity=0.583  Sum_probs=26.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..++|.||||||||++++.|+..+|..++.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~~~~id   34 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYD   34 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            478999999999999999999999876654

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.36  E-value=0.0001  Score=66.78  Aligned_cols=32  Identities=38%  Similarity=0.371  Sum_probs=28.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH-hCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK-SEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~-~g~~~~~~  418 (458)
                      ..+|+|+||||||||++++.|+.. +|++++.+
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~   42 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAELDGFQHLEV   42 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTTEEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCEEeeH
Confidence            357999999999999999999999 78887764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.36  E-value=0.00011  Score=65.33  Aligned_cols=32  Identities=19%  Similarity=0.288  Sum_probs=28.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..+++|.|+||||||++++.|+..+|.+++..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg~~~id~   38 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALKLEVLDT   38 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            45999999999999999999999999988764

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=97.35  E-value=0.00012  Score=65.94  Aligned_cols=31  Identities=26%  Similarity=0.402  Sum_probs=27.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|+|.||||+|||++|+.|+..+|.+++..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id~   33 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALGVGLLDT   33 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCEEeC
Confidence            3689999999999999999999999888764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=97.35  E-value=9.9e-05  Score=79.69  Aligned_cols=50  Identities=28%  Similarity=0.360  Sum_probs=39.2

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|++++++..+.+.+...+..          ..++||+||||||||++|++|+..+..
T Consensus        37 p~~l~~i~G~~~~l~~l~~~i~~----------g~~vll~Gp~GtGKTtlar~ia~~l~~   86 (604)
T 3k1j_A           37 EKLIDQVIGQEHAVEVIKTAANQ----------KRHVLLIGEPGTGKSMLGQAMAELLPT   86 (604)
T ss_dssp             SSHHHHCCSCHHHHHHHHHHHHT----------TCCEEEECCTTSSHHHHHHHHHHTSCC
T ss_pred             ccccceEECchhhHhhccccccC----------CCEEEEEeCCCCCHHHHHHHHhccCCc
Confidence            45688899998877665533321          259999999999999999999998853

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.31  E-value=0.00011  Score=64.49  Aligned_cols=29  Identities=24%  Similarity=0.501  Sum_probs=25.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|+|.||||+|||++|+.| ..+|.+++.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            5789999999999999999 8889887654

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=97.28  E-value=0.00014  Score=67.64  Aligned_cols=32  Identities=25%  Similarity=0.385  Sum_probs=28.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +..|+|.||||+|||++++.|+..+|..++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            45799999999999999999999999877654

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.28  E-value=0.00015  Score=66.30  Aligned_cols=32  Identities=31%  Similarity=0.386  Sum_probs=28.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +..|+|.||||+|||++|+.|+..+|.+++.+
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            34688999999999999999999999887654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.27  E-value=0.00015  Score=65.59  Aligned_cols=32  Identities=22%  Similarity=0.250  Sum_probs=28.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +..|+|.||||+|||++++.|+..+|.+++.+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   40 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYGYTHLST   40 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            45789999999999999999999999887653

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=97.26  E-value=3.7e-05  Score=83.09  Aligned_cols=29  Identities=28%  Similarity=0.455  Sum_probs=26.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      |+||+||||||||+||++|+..++..++.
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r~~~~  357 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPRAVYT  357 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSCEECC
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCCceec
Confidence            89999999999999999999998766554

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.25  E-value=0.00016  Score=64.99  Aligned_cols=30  Identities=23%  Similarity=0.244  Sum_probs=26.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..|+|.||||+|||++|+.|+..+|.+++.
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~   33 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKYGYTHLS   33 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            468899999999999999999999987654

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=97.24  E-value=0.00018  Score=63.69  Aligned_cols=30  Identities=30%  Similarity=0.377  Sum_probs=27.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..|+|.||||+|||++++.|+..+|.+++.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id   32 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALGYEFVD   32 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence            468999999999999999999999988765

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=97.23  E-value=0.00017  Score=67.82  Aligned_cols=32  Identities=25%  Similarity=0.296  Sum_probs=28.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +.+|+|.||||+|||++++.|+..+|..++.+
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   47 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   47 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            35899999999999999999999999877654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.23  E-value=0.00015  Score=65.18  Aligned_cols=31  Identities=29%  Similarity=0.464  Sum_probs=27.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|+|.||||+|||++++.|+..+|..++..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~~~~i~~   35 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELGFKKLST   35 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTCEEECH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEecH
Confidence            4688999999999999999999999776543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.23  E-value=0.00014  Score=64.65  Aligned_cols=30  Identities=30%  Similarity=0.326  Sum_probs=24.9

Q ss_pred             cceeeecCCCCChHHHHHHHHH-HhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR-KSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~-~~g~~~~~  417 (458)
                      ..|+|.||||+|||++|+.|+. .+|..++.
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~~~~~~~i~   33 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNIN   33 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEEC
T ss_pred             eEEEEecCCCCCHHHHHHHHHhhcCCcEEec
Confidence            4688999999999999999998 56655543

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.20  E-value=0.00018  Score=64.60  Aligned_cols=25  Identities=20%  Similarity=0.345  Sum_probs=23.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..|+|.||||+|||++++.|+..+|
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            4688999999999999999999988

>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=97.20  E-value=0.00034  Score=69.67  Aligned_cols=28  Identities=18%  Similarity=0.248  Sum_probs=24.5

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+..+|||||||||||++|+++|..++.
T Consensus        23 ~~~a~L~~G~~G~GKt~~a~~la~~l~~   50 (334)
T 1a5t_A           23 GHHALLIQALPGMGDDALIYALSRYLLC   50 (334)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             cceeEEEECCCCchHHHHHHHHHHHHhC
Confidence            3446999999999999999999998764

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.20  E-value=0.00019  Score=67.08  Aligned_cols=29  Identities=31%  Similarity=0.573  Sum_probs=26.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .|+|.||||+||++.|+.|+..+|++++.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g~~~is   30 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKGFVHIS   30 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCeEEc
Confidence            47899999999999999999999987754

>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=97.18  E-value=0.00026  Score=70.10  Aligned_cols=32  Identities=13%  Similarity=0.011  Sum_probs=26.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh------Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS------EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~------g~~~~~~~  419 (458)
                      .++|||||||||||++|.+++..+      ..++..+.
T Consensus        19 ~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~   56 (305)
T 2gno_A           19 ISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEID   56 (305)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEc
Confidence            489999999999999999999874      33555554

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.18  E-value=0.00016  Score=64.74  Aligned_cols=29  Identities=24%  Similarity=0.334  Sum_probs=22.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      ..|+|.|+||+|||++|+.|+..+|.+++
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            47889999999999999999999998876

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.17  E-value=0.00019  Score=66.35  Aligned_cols=30  Identities=27%  Similarity=0.330  Sum_probs=26.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|+|.||||+|||++|+.|+..+|..++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            588999999999999999999999877654

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.17  E-value=0.0002  Score=66.72  Aligned_cols=31  Identities=19%  Similarity=0.176  Sum_probs=27.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +..|+|.||||+|||++++.|+..+|..++.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            3579999999999999999999999976654

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.17  E-value=0.00017  Score=67.08  Aligned_cols=31  Identities=23%  Similarity=0.341  Sum_probs=27.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|+|.||||+|||++++.|+..+|..++.+
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            4789999999999999999999999877654

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.16  E-value=0.0002  Score=64.79  Aligned_cols=31  Identities=19%  Similarity=0.283  Sum_probs=27.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|+|.||||+|||++|+.|+..+|..++.+
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   43 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYGFTHLST   43 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            4788999999999999999999999777653

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.16  E-value=0.0002  Score=66.97  Aligned_cols=32  Identities=25%  Similarity=0.324  Sum_probs=28.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +..|+|.||||+|||++++.|+..+|..++.+
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   38 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFELKHLSS   38 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSSSEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCeEEec
Confidence            35789999999999999999999999877653

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.15  E-value=0.00025  Score=64.86  Aligned_cols=32  Identities=22%  Similarity=0.221  Sum_probs=28.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +..|+|.||||+|||++++.|+..+|..++..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~   49 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIEG   49 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEeC
Confidence            45789999999999999999999998777653

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.14  E-value=0.00027  Score=62.97  Aligned_cols=31  Identities=26%  Similarity=0.383  Sum_probs=27.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ...++|.||||+|||++++.|+..+|..++.
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~   38 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLD   38 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhhCcEEEe
Confidence            4578899999999999999999998876655

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.14  E-value=0.00019  Score=72.61  Aligned_cols=31  Identities=29%  Similarity=0.537  Sum_probs=28.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..+++|+||||+|||+++++||..++++|+.
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la~~l~~~f~~   54 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELCQIINEKYHT   54 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence            3479999999999999999999999998854

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.13  E-value=0.00022  Score=65.82  Aligned_cols=30  Identities=33%  Similarity=0.401  Sum_probs=26.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|+|.||||+|||++|+.|+..+|..++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            578999999999999999999999877654

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.13  E-value=0.00021  Score=64.12  Aligned_cols=31  Identities=23%  Similarity=0.279  Sum_probs=27.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|+|.||||+|||++++.|+..+|..++.+
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~   37 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVRDFGWVHLSA   37 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEeeH
Confidence            4788999999999999999999999777653

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.12  E-value=0.00024  Score=67.06  Aligned_cols=31  Identities=19%  Similarity=0.275  Sum_probs=27.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ++-|+|.||||+||++.|+.|+..+|+.++.
T Consensus        29 ~kiI~llGpPGsGKgTqa~~L~~~~g~~hIs   59 (217)
T 3umf_A           29 AKVIFVLGGPGSGKGTQCEKLVQKFHFNHLS   59 (217)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHHHCCEEEC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            4578889999999999999999999887654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.12  E-value=0.0002  Score=64.19  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=22.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .|+|.||||+|||++++.|+..++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            588999999999999999999887

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.11  E-value=0.00026  Score=64.68  Aligned_cols=32  Identities=16%  Similarity=0.270  Sum_probs=27.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +..|+|.||||+|||++++.|+..+|..++.+
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~   46 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   46 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeH
Confidence            34788999999999999999999999876653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.11  E-value=0.00026  Score=67.86  Aligned_cols=31  Identities=35%  Similarity=0.407  Sum_probs=27.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .+++.||||+|||++|+.||..++..++.+.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i~~D   33 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVVALD   33 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEEECC
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEEecc
Confidence            5789999999999999999999998776553

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=97.11  E-value=0.00067  Score=68.35  Aligned_cols=52  Identities=15%  Similarity=0.212  Sum_probs=34.6

Q ss_pred             ccccCChHHHHHHHHHH-HHHHhhhhhcCCCcceee--ecCCCCChHHHHHHHHHHh
Q 012671          358 GDIILHPSLQRRIQHLA-KATANTKIHQAPFRNMLF--YGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~l~-~~~~~~~~~~~p~rnvLl--~GPPGTGKT~lAkaLA~~~  411 (458)
                      +++++.+.....+..+. .....  .....+.++++  |||||||||++++.++..+
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~--~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~   76 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLS--GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV   76 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHT--SSCBCCEEEEEECTTCCSSSHHHHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhc--CCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHH
Confidence            55777776555554443 22111  00023468999  9999999999999999887

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.09  E-value=0.00027  Score=67.23  Aligned_cols=33  Identities=21%  Similarity=0.327  Sum_probs=28.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ++..|+|.||||+|||++|+.|+..+|..++.+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            456899999999999999999999998877653

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.08  E-value=0.00031  Score=61.98  Aligned_cols=29  Identities=17%  Similarity=0.160  Sum_probs=26.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .|+|.|+||+|||++++.|+..+|.+++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~   30 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYD   30 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence            58899999999999999999999987765

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.06  E-value=0.00035  Score=64.04  Aligned_cols=32  Identities=28%  Similarity=0.476  Sum_probs=27.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +...++|.||||+|||++++.|+..+|..++.
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i~   59 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFAE   59 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhhCCeEEc
Confidence            44678899999999999999999999866554

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.05  E-value=0.00025  Score=63.98  Aligned_cols=33  Identities=24%  Similarity=0.301  Sum_probs=26.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ...++|.||||+|||++++.|+...+...+.+.
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~   41 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANLPGVPKVHFH   41 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSSSCEEEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhccCCCeEEEc
Confidence            457889999999999999999988766555554

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.01  E-value=0.00032  Score=64.93  Aligned_cols=30  Identities=23%  Similarity=0.201  Sum_probs=26.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|+|.||||+|||++++.|+..+|..++.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            588999999999999999999999877654

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=97.00  E-value=0.00053  Score=62.32  Aligned_cols=33  Identities=21%  Similarity=0.216  Sum_probs=28.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh-Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS-EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~-g~~~~~~~  419 (458)
                      +..|+|.||||+|||++++.|+..+ |.+++.+.
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~   37 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESIPANTIKYLN   37 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEe
Confidence            3578899999999999999999998 67776654

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=96.95  E-value=0.0024  Score=62.48  Aligned_cols=45  Identities=18%  Similarity=0.222  Sum_probs=33.7

Q ss_pred             ccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +.+++.+.....|......      +    +.++++||+|+|||+|++.++...+
T Consensus        12 ~~~~gR~~el~~L~~~l~~------~----~~v~i~G~~G~GKT~Ll~~~~~~~~   56 (350)
T 2qen_A           12 EDIFDREEESRKLEESLEN------Y----PLTLLLGIRRVGKSSLLRAFLNERP   56 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHH------C----SEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             HhcCChHHHHHHHHHHHhc------C----CeEEEECCCcCCHHHHHHHHHHHcC
Confidence            3467777655555543321      1    5899999999999999999999886

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.89  E-value=0.00051  Score=62.21  Aligned_cols=29  Identities=24%  Similarity=0.486  Sum_probs=25.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .|+|.||||+|||++++.|+..+|..++.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~~   30 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIFK   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEEC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEEc
Confidence            57899999999999999999999986653

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.89  E-value=0.00058  Score=65.55  Aligned_cols=33  Identities=21%  Similarity=0.402  Sum_probs=27.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH---hCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK---SEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~---~g~~~~~~~  419 (458)
                      +..|+|.|+||+|||++|+.|+..   .|..++.++
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~   39 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLG   39 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEEC
Confidence            347889999999999999999998   677776444

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.89  E-value=0.00066  Score=61.83  Aligned_cols=27  Identities=26%  Similarity=0.200  Sum_probs=24.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..|+|.||||+|||++++.|+..++..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            468899999999999999999998764

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.88  E-value=0.00066  Score=60.80  Aligned_cols=33  Identities=21%  Similarity=0.100  Sum_probs=28.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ...+.|.||||+|||++++.|+..+   |.+++.+.
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d   40 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   40 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEEC
Confidence            4578899999999999999999988   88877654

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.86  E-value=0.00058  Score=63.86  Aligned_cols=30  Identities=27%  Similarity=0.377  Sum_probs=26.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|+|.||||+|||++++.|+..+|..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            478999999999999999999999766554

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.84  E-value=0.0014  Score=60.06  Aligned_cols=29  Identities=17%  Similarity=0.161  Sum_probs=25.0

Q ss_pred             cCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          384 QAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       384 ~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..+...+.|.||||+|||++++.|+..++
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34456788999999999999999999984

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.83  E-value=0.0007  Score=62.72  Aligned_cols=30  Identities=23%  Similarity=0.315  Sum_probs=26.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..+.|.||||||||++++.|+..+|.+++.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            368899999999999999999999877654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.82  E-value=0.00073  Score=60.67  Aligned_cols=31  Identities=26%  Similarity=0.313  Sum_probs=26.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .|+|.|+||+|||++++.|+..+   |.+++...
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            47899999999999999999988   88776643

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.79  E-value=0.00052  Score=62.80  Aligned_cols=30  Identities=13%  Similarity=0.128  Sum_probs=25.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      +..|+|.||||+|||++++.|+..+|..++
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~~~   39 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNNNV   39 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHTTC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHcCC
Confidence            357889999999999999999998865433

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.77  E-value=0.00078  Score=64.79  Aligned_cols=32  Identities=31%  Similarity=0.324  Sum_probs=28.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..+|.|.||||+|||++++.|+..+|.+|+..
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~   79 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLGYTFFDC   79 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCcEEeC
Confidence            35899999999999999999999999988763

>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=96.75  E-value=0.00078  Score=64.18  Aligned_cols=30  Identities=33%  Similarity=0.381  Sum_probs=26.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..+.+.||||+|||++++.|+..+|+.++.
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~lg~~~~d   39 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARALGARYLD   39 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            368899999999999999999999987755

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.73  E-value=0.00091  Score=63.29  Aligned_cols=31  Identities=29%  Similarity=0.446  Sum_probs=26.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +..++|.||||+|||++++.|+..+|+....
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~~   57 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHLS   57 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEec
Confidence            4578899999999999999999998876543

>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=96.72  E-value=0.0013  Score=66.97  Aligned_cols=34  Identities=26%  Similarity=0.248  Sum_probs=28.8

Q ss_pred             cCCCcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          384 QAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       384 ~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..+...++|+||||||||+|++.|+..++..++.
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~  199 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLELCGGKALN  199 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEEC
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEE
Confidence            4555689999999999999999999998766655

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.71  E-value=0.00084  Score=67.04  Aligned_cols=32  Identities=25%  Similarity=0.291  Sum_probs=28.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ..++++||||||||++++.||..++..++.+.
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~~~iis~D   37 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALPCELISVD   37 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCcEEecc
Confidence            47889999999999999999999998777653

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.71  E-value=0.00092  Score=61.39  Aligned_cols=31  Identities=23%  Similarity=0.447  Sum_probs=26.1

Q ss_pred             hhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       382 ~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+..++..++|.||||+|||++++.|+..++
T Consensus         7 ~~~~~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A            7 HHMARIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             --CCCCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             cccccCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            3456778899999999999999999999874

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.69  E-value=0.0007  Score=61.98  Aligned_cols=28  Identities=14%  Similarity=0.143  Sum_probs=24.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      +..|+|.||||+|||++++.|+..++..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~   36 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCAA   36 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4578899999999999999999987543

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.69  E-value=0.00087  Score=61.15  Aligned_cols=29  Identities=21%  Similarity=0.187  Sum_probs=25.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|.+.||||+|||++++.|+. +|.+++..
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i~~   31 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVLDA   31 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEEEH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEEEc
Confidence            578999999999999999999 88777653

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.64  E-value=0.0011  Score=60.27  Aligned_cols=30  Identities=27%  Similarity=0.272  Sum_probs=27.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|.+.||||+|||++++.|+..+|.+++..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~   33 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSS   33 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceecc
Confidence            678999999999999999999999887763

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.62  E-value=0.00094  Score=61.13  Aligned_cols=28  Identities=25%  Similarity=0.142  Sum_probs=24.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      .+.|.||||+|||++++.|+. +|.+++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~id   31 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLVD   31 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcccc
Confidence            577899999999999999998 8877764

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=96.55  E-value=0.0019  Score=63.21  Aligned_cols=32  Identities=19%  Similarity=0.061  Sum_probs=27.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +.++++||+|+|||+|++.++..++..++.++
T Consensus        31 ~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~   62 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIKIGINELNLPYIYLD   62 (357)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEE
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEE
Confidence            48999999999999999999998876655444

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.51  E-value=0.0014  Score=59.50  Aligned_cols=27  Identities=26%  Similarity=0.564  Sum_probs=23.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      ++.|.||+|+|||+|.+.|+..++..+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i~~   28 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcC
Confidence            578999999999999999999987443

>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=96.50  E-value=0.0013  Score=60.83  Aligned_cols=27  Identities=26%  Similarity=0.416  Sum_probs=23.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ++.-+.|.||||+|||++++.|+..+.
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            345688999999999999999998874

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.49  E-value=0.0017  Score=62.03  Aligned_cols=31  Identities=23%  Similarity=0.266  Sum_probs=27.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ...+.|.||+|+|||++++.|+..+|+.++.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~d   57 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAESLNWRLLD   57 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCCCcCC
Confidence            3468899999999999999999999987654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.48  E-value=0.0011  Score=59.70  Aligned_cols=28  Identities=29%  Similarity=0.377  Sum_probs=24.2

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +...++|.|+||+|||++++.|+..++.
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            3457889999999999999999998853

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.46  E-value=0.0016  Score=59.00  Aligned_cols=31  Identities=23%  Similarity=0.056  Sum_probs=26.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +..|.+.||||+|||++++.|+.. |.+++..
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~-g~~~id~   38 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW-GYPVLDL   38 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT-TCCEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC-CCEEEcc
Confidence            347889999999999999999998 8877654

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.45  E-value=0.0019  Score=59.56  Aligned_cols=31  Identities=23%  Similarity=0.373  Sum_probs=27.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..+.|.||||||||++++.|+..+|.+++..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g~~~~~~   34 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELSMIYVDT   34 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCceecC
Confidence            3688999999999999999999999887664

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.44  E-value=0.002  Score=60.63  Aligned_cols=32  Identities=25%  Similarity=0.246  Sum_probs=27.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +...+.|.||||+|||++++.|+..+|++++.
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d   46 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDFGFTYLD   46 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcCCceec
Confidence            34578899999999999999999999987765

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.37  E-value=0.002  Score=58.00  Aligned_cols=25  Identities=24%  Similarity=0.557  Sum_probs=21.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .++|.||||+|||++++.|+..++.
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~~g   28 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQLDN   28 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCC
Confidence            5778999999999999999986643

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.27  E-value=0.0021  Score=62.32  Aligned_cols=29  Identities=34%  Similarity=0.405  Sum_probs=24.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh-Cccee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS-EEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~-g~~~~  416 (458)
                      ..|+|.||||+|||++++.|+..+ |..++
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~~~~~~i   32 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCcEEe
Confidence            468899999999999999999874 65554

>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=96.24  E-value=0.0024  Score=58.84  Aligned_cols=31  Identities=23%  Similarity=0.192  Sum_probs=27.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|.|.|++|||||++++.|+..+|.+++..
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~lg~~vid~   43 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKYGAHVVNV   43 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCEEEEC
Confidence            3677899999999999999999989888764

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.23  E-value=0.0027  Score=60.36  Aligned_cols=29  Identities=17%  Similarity=0.061  Sum_probs=25.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      +..|.+.||||+|||++|+.|+..+|.++
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~~lg~~~   50 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQLLGQNE   50 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGGG
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhhhhc
Confidence            34688999999999999999999999874

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.23  E-value=0.002  Score=59.03  Aligned_cols=33  Identities=15%  Similarity=0.089  Sum_probs=26.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh-Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS-EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~-g~~~~~~~  419 (458)
                      ...+.+.||||+|||++++.|+..+ +..++...
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~~~~~~i~~D   54 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHLPNCSVISQD   54 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTSTTEEEEEGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCcEEEeCC
Confidence            3467799999999999999999987 66665543

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.19  E-value=0.0028  Score=58.55  Aligned_cols=30  Identities=23%  Similarity=0.145  Sum_probs=25.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|.|.||||+|||++++.|+. +|.+++..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~-lg~~~id~   34 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD-LGINVIDA   34 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH-TTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH-cCCEEEEc
Confidence            3678999999999999999998 88877653

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.19  E-value=0.0023  Score=58.08  Aligned_cols=26  Identities=27%  Similarity=0.406  Sum_probs=22.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +...+.|.||||+|||++++.|+..+
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34578899999999999999999876

>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=96.15  E-value=0.006  Score=75.73  Aligned_cols=53  Identities=23%  Similarity=0.377  Sum_probs=41.6

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +|.-|...+....+..+...       ..+++++||||||||.+++.||..+|.+++.+.
T Consensus       625 lViTPltdr~~~tl~~Al~~-------~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~n  677 (2695)
T 4akg_A          625 LIYTPLLLIGFATLTDSLHQ-------KYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFN  677 (2695)
T ss_dssp             CCCCHHHHHHHHHHHHHHHT-------TCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEE
T ss_pred             ceecHHHHHHHHHHHHHHHh-------CCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEE
Confidence            55566666666555555432       247889999999999999999999999999886

>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=96.15  E-value=0.0039  Score=62.72  Aligned_cols=26  Identities=35%  Similarity=0.473  Sum_probs=22.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.+.++++||||+|||+||..++..+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~   85 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANA   85 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34578899999999999999998764

>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=96.15  E-value=0.0039  Score=57.04  Aligned_cols=35  Identities=29%  Similarity=0.294  Sum_probs=27.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .+..-++++||||+|||+|+..++...|...+.++
T Consensus        18 ~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~   52 (220)
T 2cvh_A           18 APGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVD   52 (220)
T ss_dssp             CTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEE
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEE
Confidence            33456789999999999999999985565555554

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.13  E-value=0.0024  Score=64.14  Aligned_cols=30  Identities=20%  Similarity=0.320  Sum_probs=26.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..|++.||+|+|||.|+..||..++..++.
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs   70 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHFPLEVIN   70 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTSCEEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHCCCcEEc
Confidence            478899999999999999999999876654

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.13  E-value=0.0028  Score=58.40  Aligned_cols=27  Identities=19%  Similarity=0.226  Sum_probs=23.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +...++|.||||+|||++++.|+..++
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            345788999999999999999999875

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.10  E-value=0.003  Score=58.04  Aligned_cols=26  Identities=31%  Similarity=0.385  Sum_probs=22.0

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +...++++||||+|||+|++.|+..+
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34578899999999999999999654

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=96.08  E-value=0.0032  Score=58.17  Aligned_cols=29  Identities=21%  Similarity=0.183  Sum_probs=27.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      -|.+.||+|||||++++.||..+|++|+.
T Consensus         8 iI~i~g~~GsGk~ti~~~la~~lg~~~~D   36 (201)
T 3fdi_A            8 IIAIGREFGSGGHLVAKKLAEHYNIPLYS   36 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTTCCEEC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCcCEEC
Confidence            57789999999999999999999999985

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.07  E-value=0.0034  Score=56.46  Aligned_cols=25  Identities=16%  Similarity=0.497  Sum_probs=21.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +-+.|.||||+|||+|++.|+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCC
Confidence            4577999999999999999998753

>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=96.05  E-value=0.004  Score=57.15  Aligned_cols=24  Identities=29%  Similarity=0.629  Sum_probs=21.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      |-|+|.||+|+|||+|++.|....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            458999999999999999998775

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.03  E-value=0.0033  Score=57.58  Aligned_cols=31  Identities=26%  Similarity=0.179  Sum_probs=25.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC--cceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE--EMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g--~~~~~  417 (458)
                      +.-+.+.||+|+|||+|++.|+..++  ..|+.
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~~~~~~i~~v~   38 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALARTLGERVALLP   38 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHGGGEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhCCCeEEEe
Confidence            34677999999999999999999987  55544

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.03  E-value=0.0036  Score=56.73  Aligned_cols=25  Identities=24%  Similarity=0.465  Sum_probs=21.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.|.||+|+|||++++.|+...
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3467789999999999999999875

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.02  E-value=0.0035  Score=60.92  Aligned_cols=30  Identities=20%  Similarity=0.215  Sum_probs=25.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|.|.||||+|||++|+.|+ .+|.+++..
T Consensus        76 ~iI~I~G~~GSGKSTva~~La-~lg~~~id~  105 (281)
T 2f6r_A           76 YVLGLTGISGSGKSSVAQRLK-NLGAYIIDS  105 (281)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH-HHTCEEEEH
T ss_pred             EEEEEECCCCCCHHHHHHHHH-HCCCcEEeh
Confidence            468899999999999999999 688877654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.00  E-value=0.007  Score=73.13  Aligned_cols=35  Identities=20%  Similarity=0.318  Sum_probs=28.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+.+++||+||||||||+||.+++.+.   |...+.++
T Consensus      1079 ~~g~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit 1116 (2050)
T 3cmu_A         1079 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 1116 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            456799999999999999999998764   55666665

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.99  E-value=0.0049  Score=56.71  Aligned_cols=27  Identities=22%  Similarity=0.402  Sum_probs=23.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..-+.+.||+|+|||+|++.|+..+.
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            344677899999999999999999875

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=95.96  E-value=0.008  Score=62.36  Aligned_cols=48  Identities=21%  Similarity=0.294  Sum_probs=32.6

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+++  .++-...+..+..+...      ...++|+.||||||||+++.+++..+
T Consensus        22 ~~~~L--n~~Q~~av~~~~~~i~~------~~~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           22 TFDDL--TEGQKNAFNIVMKAIKE------KKHHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             CSSCC--CHHHHHHHHHHHHHHHS------SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccccC--CHHHHHHHHHHHHHHhc------CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45443  35545556555444322      11389999999999999999999877

>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=95.92  E-value=0.0031  Score=64.84  Aligned_cols=31  Identities=19%  Similarity=0.154  Sum_probs=26.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +.-|+|+||||+|||++|+.|+..+|..++.
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~~~~~~i~  288 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVSAGYVHVN  288 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGGGTCEECC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhcCcEEEc
Confidence            4568889999999999999999988766554

>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=95.89  E-value=0.0096  Score=60.32  Aligned_cols=34  Identities=26%  Similarity=0.309  Sum_probs=25.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +.+.++++||||+|||+||..++..+   |..++.++
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~  109 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID  109 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEE
Confidence            34578899999999999999998765   44444443

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.89  E-value=0.01  Score=54.20  Aligned_cols=26  Identities=19%  Similarity=0.180  Sum_probs=22.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++.-+.+.||+|+|||++++.|+..+
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            33467789999999999999999876

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.87  E-value=0.0052  Score=58.26  Aligned_cols=29  Identities=21%  Similarity=0.292  Sum_probs=24.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~  417 (458)
                      +++|.||||||||+++..+|..+   |.+++.
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v   39 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMA   39 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCCEEE
Confidence            79999999999999999999876   666544

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=95.82  E-value=0.0037  Score=66.26  Aligned_cols=29  Identities=21%  Similarity=0.342  Sum_probs=24.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      +..|+|.|+||+|||++|+.|+..++..+
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~~~~   63 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLNWIG   63 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            34788999999999999999999985444

>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=95.81  E-value=0.0049  Score=57.24  Aligned_cols=25  Identities=24%  Similarity=0.238  Sum_probs=22.0

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHH
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +...++|+||||+|||+|+..|+..
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            3457889999999999999999985

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.78  E-value=0.0051  Score=61.77  Aligned_cols=31  Identities=26%  Similarity=0.319  Sum_probs=26.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ..|++.||+|+|||+||+.|+..++..++.+
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~~iis~   38 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNGEIISG   38 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTEEEEEC
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCCceecc
Confidence            3678999999999999999999998655443

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.75  E-value=0.0059  Score=60.58  Aligned_cols=31  Identities=26%  Similarity=0.429  Sum_probs=26.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .-+++.||+|+|||.|+..||..++..++..
T Consensus        11 ~~i~i~GptgsGKt~la~~La~~~~~~iis~   41 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRKILPVELISV   41 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEEEC
T ss_pred             cEEEEECCCccCHHHHHHHHHHhCCCcEEec
Confidence            4577899999999999999999998665443

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.74  E-value=0.0046  Score=58.71  Aligned_cols=30  Identities=27%  Similarity=0.294  Sum_probs=26.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .+-|.||||+|||++|+.|+..+|++++.+
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~g~~~is~   39 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKFGIPQIST   39 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCCEECH
T ss_pred             ceeeECCCCCCHHHHHHHHHHHhCCCeeec
Confidence            455789999999999999999999887654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.74  E-value=0.0052  Score=56.33  Aligned_cols=26  Identities=23%  Similarity=0.538  Sum_probs=21.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.+.+.|.||+|+|||+|.+.|+...
T Consensus         3 ~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             --CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34678899999999999999999865

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.64  E-value=0.0058  Score=56.81  Aligned_cols=34  Identities=26%  Similarity=0.355  Sum_probs=24.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +...++++||||+|||+|+..++...   |...+.++
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~   58 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVA   58 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            34578899999999999998887653   44444443

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=95.63  E-value=0.021  Score=58.01  Aligned_cols=33  Identities=36%  Similarity=0.408  Sum_probs=28.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      ..++|++|++|||||++|++|...++   .+|+.++
T Consensus       160 ~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~  195 (387)
T 1ny5_A          160 ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALN  195 (387)
T ss_dssp             CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEE
T ss_pred             CCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEe
Confidence            34789999999999999999998875   5677766

>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=95.61  E-value=0.0056  Score=56.27  Aligned_cols=26  Identities=27%  Similarity=0.298  Sum_probs=22.2

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.|+||||+|||+|++.|+...
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34467899999999999999999854

>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=95.60  E-value=0.0029  Score=57.81  Aligned_cols=25  Identities=16%  Similarity=0.275  Sum_probs=22.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      -|.|.||||+|||++++.|+..++.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            3678999999999999999998853

>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=95.56  E-value=0.0081  Score=59.46  Aligned_cols=27  Identities=22%  Similarity=0.386  Sum_probs=23.1

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+...++++||||+|||+||..++..+
T Consensus       105 ~~G~i~~i~G~~GsGKT~la~~la~~~  131 (324)
T 2z43_A          105 ETRTMTEFFGEFGSGKTQLCHQLSVNV  131 (324)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCcEEEEECCCCCCHhHHHHHHHHHH
Confidence            344578899999999999999999875

>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=95.55  E-value=0.0066  Score=60.40  Aligned_cols=29  Identities=21%  Similarity=0.280  Sum_probs=24.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      -|++.||+|+|||.|+..||..++..++.
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~~~iis   33 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLNGEVIS   33 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTEEEEE
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCccceee
Confidence            57789999999999999999998765433

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=95.53  E-value=0.0054  Score=63.93  Aligned_cols=30  Identities=20%  Similarity=0.304  Sum_probs=25.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      +..|+|.|+||+|||++++.|+..++..++
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~~~~   68 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNFIGV   68 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhccCC
Confidence            347899999999999999999999875543

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.49  E-value=0.0059  Score=66.23  Aligned_cols=31  Identities=32%  Similarity=0.408  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      -.|++||||||||++.-.+..++   |..++..+
T Consensus       207 ~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a  240 (646)
T 4b3f_X          207 LAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCA  240 (646)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEc
Confidence            46889999999998555444333   44444443

>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=95.48  E-value=0.0073  Score=62.01  Aligned_cols=31  Identities=19%  Similarity=0.303  Sum_probs=26.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ..-|++.||+|+|||.|+..||..++..++.
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~~~~iis   32 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKFNGEVIN   32 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHHTEEEEE
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHCCCeEee
Confidence            3467889999999999999999999866544

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.41  E-value=0.015  Score=53.96  Aligned_cols=35  Identities=29%  Similarity=0.264  Sum_probs=25.3

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHH----hCcceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARK----SEEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~----~g~~~~~~~  419 (458)
                      .+..-++++||||+|||.||..++.+    .|..++.++
T Consensus        28 ~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s   66 (251)
T 2zts_A           28 PEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVT   66 (251)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeec
Confidence            33457889999999999999887654    245555544

>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=95.37  E-value=0.0074  Score=56.21  Aligned_cols=26  Identities=27%  Similarity=0.406  Sum_probs=23.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+.++|.||||+|||.||..|+...+
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~   59 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH   59 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC
Confidence            35899999999999999999998765

>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=95.37  E-value=0.011  Score=54.65  Aligned_cols=26  Identities=12%  Similarity=0.457  Sum_probs=22.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+-++|.||+|+|||+|++.|.....
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            35677899999999999999998754

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.36  E-value=0.0054  Score=57.25  Aligned_cols=25  Identities=28%  Similarity=0.456  Sum_probs=15.7

Q ss_pred             CcceeeecCCCCChHHHHHHHH-HHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIA-RKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA-~~~  411 (458)
                      ..-+.|.||+|+|||++++.|+ ...
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            3467789999999999999999 765

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=95.35  E-value=0.0088  Score=56.36  Aligned_cols=29  Identities=14%  Similarity=0.134  Sum_probs=26.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      -|.+.|++|||||++++.||..+|++|+.
T Consensus        16 iI~i~g~~gsGk~~i~~~la~~lg~~~~d   44 (223)
T 3hdt_A           16 IITIEREYGSGGRIVGKKLAEELGIHFYD   44 (223)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHcCCcEEc
Confidence            46789999999999999999999999876

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=95.34  E-value=0.0081  Score=55.60  Aligned_cols=22  Identities=32%  Similarity=0.526  Sum_probs=18.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++||||||||++|..+...
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~   28 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMAN   28 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            5789999999999999887544

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.33  E-value=0.0093  Score=55.52  Aligned_cols=26  Identities=19%  Similarity=0.475  Sum_probs=22.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.|.||+|+|||+|++.|+...
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            44578899999999999999999876

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.30  E-value=0.0095  Score=56.09  Aligned_cols=27  Identities=33%  Similarity=0.500  Sum_probs=23.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..-|+|.||||+|||++++.|+..++.
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            346778999999999999999999863

>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=95.29  E-value=0.0077  Score=60.85  Aligned_cols=26  Identities=23%  Similarity=0.293  Sum_probs=22.4

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-++++||||||||+|+..++..+
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~   85 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEA   85 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34578899999999999999999875

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.25  E-value=0.009  Score=57.48  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=21.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-++++||||+|||+|+..++..+
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4578899999999999999998654

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.22  E-value=0.02  Score=55.98  Aligned_cols=28  Identities=29%  Similarity=0.418  Sum_probs=23.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ++.-|.+.||+|+|||+|++.|+..++.
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            3445678999999999999999998864

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.22  E-value=0.0083  Score=53.54  Aligned_cols=21  Identities=24%  Similarity=0.539  Sum_probs=17.8

Q ss_pred             CcceeeecCCCCChHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREI  407 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaL  407 (458)
                      ..-+.|.||||+|||+|++++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            346789999999999999953

>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=95.19  E-value=0.011  Score=54.34  Aligned_cols=25  Identities=28%  Similarity=0.472  Sum_probs=22.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.|.||+|+|||+|.++|+..+
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            3467799999999999999999886

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.17  E-value=0.013  Score=57.81  Aligned_cols=29  Identities=28%  Similarity=0.458  Sum_probs=24.9

Q ss_pred             hcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          383 HQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       383 ~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ...+...+.|+||+|+|||+|++.|++.+
T Consensus       122 ~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          122 GIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            34555678899999999999999999987

>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=95.15  E-value=0.011  Score=55.39  Aligned_cols=28  Identities=18%  Similarity=0.320  Sum_probs=23.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+..-+.|.||+|+|||+|.+.|+....
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            4455777999999999999999998764

>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=0.022  Score=56.29  Aligned_cols=27  Identities=19%  Similarity=0.049  Sum_probs=22.5

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ++.-+.+.||+|+|||+|++.|+..+.
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            334566899999999999999999763

>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=95.14  E-value=0.013  Score=63.53  Aligned_cols=33  Identities=21%  Similarity=0.100  Sum_probs=29.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +..|+|.|+||+|||++|+.|+..+   |.+++.+.
T Consensus        52 g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lD   87 (630)
T 1x6v_B           52 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   87 (630)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEES
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEec
Confidence            4568899999999999999999999   88887764

>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=95.12  E-value=0.014  Score=58.34  Aligned_cols=25  Identities=20%  Similarity=0.240  Sum_probs=21.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHH
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +...++++||||+|||+||..++..
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~  145 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVT  145 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3446789999999999999999987

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.09  E-value=0.012  Score=55.56  Aligned_cols=27  Identities=19%  Similarity=0.145  Sum_probs=23.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      .-+-|.||+|+|||+|++.|+..+|..
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            356689999999999999999988854

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=95.04  E-value=0.01  Score=63.67  Aligned_cols=31  Identities=29%  Similarity=0.457  Sum_probs=24.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~  418 (458)
                      +.+++.||||||||+++.+|+..+   |..++.+
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~  238 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLC  238 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEe
Confidence            588999999999999999998765   4555444

>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=95.03  E-value=0.012  Score=59.48  Aligned_cols=34  Identities=21%  Similarity=0.324  Sum_probs=26.0

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +.+.++++||||+|||+||..++..+   |...+.++
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid   98 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   98 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            34578999999999999999999764   44444444

>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=95.03  E-value=0.026  Score=67.30  Aligned_cols=35  Identities=20%  Similarity=0.341  Sum_probs=27.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      .+...++|+||||+|||+||..+|..+.   ..++.++
T Consensus       730 ~~G~lVlI~G~PG~GKTtLal~lA~~aa~~g~~VlyiS  767 (1706)
T 3cmw_A          730 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID  767 (1706)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CCCceEEEECCCCCCcHHHHHHHHHHHHHcCCCeEEEe
Confidence            4566899999999999999999988763   3444444

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.03  E-value=0.029  Score=52.98  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=18.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .-|+|.||+|+|||++++.|+..++
T Consensus        26 ~~I~~eG~~GsGKsT~~~~l~~~l~   50 (227)
T 3v9p_A           26 KFITFEGIDGAGKTTHLQWFCDRLQ   50 (227)
T ss_dssp             CEEEEECCC---CHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3577889999999999999999883

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.02  E-value=0.013  Score=52.17  Aligned_cols=28  Identities=21%  Similarity=0.271  Sum_probs=23.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+..-+.|.||.|+|||+|.+.|+..++
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l~   58 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhCC
Confidence            3444678999999999999999999873

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.00  E-value=0.012  Score=56.93  Aligned_cols=27  Identities=19%  Similarity=0.166  Sum_probs=22.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+++.||||+|||+|++.|+..+
T Consensus        33 ~~G~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           33 RGGEVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            344578899999999999999999875

>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=94.96  E-value=0.024  Score=57.14  Aligned_cols=27  Identities=22%  Similarity=0.329  Sum_probs=23.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...+++.||+|+|||++.++|+..+.-
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~~  149 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLNN  149 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccC
Confidence            347889999999999999999987743

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=94.85  E-value=0.017  Score=54.49  Aligned_cols=31  Identities=26%  Similarity=0.238  Sum_probs=27.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ++|++||+|+|||+++..++..++...+.++
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~  140 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIVV  140 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEE
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEEe
Confidence            6999999999999999999998876666655

>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=94.78  E-value=0.013  Score=57.53  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=21.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHH
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +...++++||||+|||+||..++..
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3457889999999999999999976

>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=94.76  E-value=0.016  Score=57.08  Aligned_cols=26  Identities=31%  Similarity=0.351  Sum_probs=22.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++..+.|.||+|+|||++++.||..+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            45678899999999999999999876

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.76  E-value=0.026  Score=52.59  Aligned_cols=31  Identities=23%  Similarity=0.299  Sum_probs=24.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC---cceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE---EMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~  418 (458)
                      .-|.|.||+|+|||++++.|+..+.   .+++..
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~   40 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLRERGIEVQLT   40 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHcCCCcccc
Confidence            3567889999999999999999884   455443

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=94.76  E-value=0.016  Score=55.83  Aligned_cols=28  Identities=21%  Similarity=0.375  Sum_probs=23.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+...+++.||+|+|||++.++|+....
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCC
Confidence            3445788999999999999999998764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.73  E-value=0.015  Score=53.15  Aligned_cols=23  Identities=30%  Similarity=0.648  Sum_probs=21.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+.|.||+|+|||++.+.|+..+
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            57899999999999999999987

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=94.60  E-value=0.043  Score=55.32  Aligned_cols=55  Identities=29%  Similarity=0.279  Sum_probs=36.2

Q ss_pred             cccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc--eeeec
Q 012671          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM--LHLLV  419 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~--~~~~~  419 (458)
                      ++++.......+...+....      ....++|++|++||||+++|++|...++-.  |+.++
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a------~~~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vn  186 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIA------KSKAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLN  186 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHH------TSCSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEE
T ss_pred             cccccchHHHHHHhhhhhhh------ccchhheEEeCCCchHHHHHHHHHHhccccCCcEEEE
Confidence            35666554444433332221      112479999999999999999999988643  66655

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.60  E-value=0.025  Score=51.40  Aligned_cols=31  Identities=16%  Similarity=0.208  Sum_probs=22.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~  418 (458)
                      .-++++||||+|||+++..++..+   |...+.+
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~   37 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVF   37 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            356789999999999997777653   5554443

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.53  E-value=0.0089  Score=56.99  Aligned_cols=30  Identities=10%  Similarity=0.170  Sum_probs=25.0

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh-Ccce
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS-EEML  415 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~-g~~~  415 (458)
                      ++..|+|.|++|+|||++++.|+..+ +..+
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l~~~~~   53 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLCEDWEV   53 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGCTTEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            34578899999999999999999998 5433

>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=94.52  E-value=0.018  Score=56.41  Aligned_cols=26  Identities=27%  Similarity=0.500  Sum_probs=22.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++..++|.||+|+|||+++..||..+
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            35688899999999999999999765

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=94.51  E-value=0.017  Score=62.51  Aligned_cols=23  Identities=43%  Similarity=0.651  Sum_probs=19.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+|++||||||||+++..+...+
T Consensus       197 ~~li~GppGTGKT~~~~~~i~~l  219 (624)
T 2gk6_A          197 LSLIQGPPGTGKTVTSATIVYHL  219 (624)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEECCCCCCHHHHHHHHHHHH
Confidence            67899999999999877776654

>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=94.51  E-value=0.017  Score=57.97  Aligned_cols=27  Identities=26%  Similarity=0.287  Sum_probs=23.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-++++||||+|||+|+..|+...
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            344567899999999999999999886

>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=94.47  E-value=0.02  Score=50.97  Aligned_cols=24  Identities=21%  Similarity=0.231  Sum_probs=21.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      -.+|+||+|+|||++..+|+..++
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHc
Confidence            456899999999999999998764

>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=94.45  E-value=0.03  Score=54.96  Aligned_cols=25  Identities=20%  Similarity=0.191  Sum_probs=22.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .-+.|.||+|+|||+|++.|+..++
T Consensus        81 ~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           81 YIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4566899999999999999999876

>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=94.43  E-value=0.018  Score=59.54  Aligned_cols=26  Identities=35%  Similarity=0.448  Sum_probs=23.2

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++..++|+||||+|||+++..||..+
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999999876

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.42  E-value=0.023  Score=53.35  Aligned_cols=25  Identities=16%  Similarity=0.298  Sum_probs=22.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..|.|.|++|+|||++++.|+..+.
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            4688999999999999999999983

>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=94.40  E-value=0.02  Score=56.45  Aligned_cols=26  Identities=31%  Similarity=0.396  Sum_probs=22.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++.-++|.||+|+|||+++..||..+
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            34578899999999999999999876

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=94.37  E-value=0.036  Score=59.45  Aligned_cols=32  Identities=22%  Similarity=0.356  Sum_probs=26.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC----cceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE----EMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g----~~~~~~~  419 (458)
                      ..|+|.|+||+|||++|+.|+..++    .+++.+.
T Consensus       397 ~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD  432 (573)
T 1m8p_A          397 FTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLL  432 (573)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             eEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEEC
Confidence            4688999999999999999999987    5555554

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.36  E-value=0.041  Score=54.73  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=21.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      -+.+.||+|||||+++++|+..++
T Consensus        94 iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           94 IIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            466889999999999999999875

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.35  E-value=0.012  Score=57.45  Aligned_cols=24  Identities=17%  Similarity=0.268  Sum_probs=18.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      -|.+.||+|+|||++|+.|+..+|
T Consensus         7 iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            7 IISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            477899999999999999999877

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=94.33  E-value=0.064  Score=66.78  Aligned_cols=35  Identities=23%  Similarity=0.228  Sum_probs=32.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .|..|+||+|++|+||+++++..|..+|+.++.+.
T Consensus      1607 ~p~G~~LLvGvgGsGkqSltrLaa~i~~~~~fqi~ 1641 (2695)
T 4akg_A         1607 QVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQPK 1641 (2695)
T ss_dssp             SSSEEEEEECTTTSCHHHHHHHHHHHTTCEEECCC
T ss_pred             CCCCCEEEECCCCCcHHHHHHHHHHHhCCeeEEEE
Confidence            56679999999999999999999999999998876

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.25  E-value=0.045  Score=51.27  Aligned_cols=32  Identities=28%  Similarity=0.280  Sum_probs=26.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .-|.|.||+|+|||++++.|+..++.+...+.
T Consensus         6 ~~i~~eG~~g~GKst~~~~l~~~l~~~~~~~~   37 (216)
T 3tmk_A            6 KLILIEGLDRTGKTTQCNILYKKLQPNCKLLK   37 (216)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHCSSEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcccceEEE
Confidence            46778999999999999999999987544333

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.24  E-value=0.023  Score=55.90  Aligned_cols=26  Identities=23%  Similarity=0.303  Sum_probs=22.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++.-+.|.||+|+|||++++.||..+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34567899999999999999999876

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.22  E-value=0.029  Score=49.89  Aligned_cols=26  Identities=23%  Similarity=0.369  Sum_probs=22.4

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +...|++.|++|+|||+|...|....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999998754

>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=94.20  E-value=0.024  Score=56.48  Aligned_cols=27  Identities=26%  Similarity=0.300  Sum_probs=23.4

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .++.-+.|.||+|+|||++++.||..+
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345678899999999999999999876

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=94.09  E-value=0.057  Score=55.62  Aligned_cols=51  Identities=16%  Similarity=0.228  Sum_probs=34.6

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...++++...+.....+..+.         ..+...+++.||+|+|||++.++|...+..
T Consensus       143 ~~~l~~Lg~~~~~~~~L~~l~---------~~~ggii~I~GpnGSGKTTlL~allg~l~~  193 (418)
T 1p9r_A          143 RLDLHSLGMTAHNHDNFRRLI---------KRPHGIILVTGPTGSGKSTTLYAGLQELNS  193 (418)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHH---------TSSSEEEEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             CCCHHHcCCCHHHHHHHHHHH---------HhcCCeEEEECCCCCCHHHHHHHHHhhcCC
Confidence            345666666665444444331         123346889999999999999999998753

>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=94.06  E-value=0.023  Score=51.88  Aligned_cols=28  Identities=18%  Similarity=0.283  Sum_probs=23.5

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|++|++|+|||.+|..++.. |.+.+.+
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~~~~yi   29 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-APQVLYI   29 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CCCeEEE
Confidence            688999999999999999987 7665443

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=94.04  E-value=0.025  Score=57.20  Aligned_cols=28  Identities=21%  Similarity=0.375  Sum_probs=24.0

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+...+++.||+|+|||++.++|+....
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            3445789999999999999999998764

>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=94.04  E-value=0.024  Score=56.45  Aligned_cols=28  Identities=11%  Similarity=0.096  Sum_probs=21.4

Q ss_pred             cCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          384 QAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       384 ~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.|..-++++||||||||+||..++..+
T Consensus        25 Gl~~GiteI~G~pGsGKTtL~Lq~~~~~   52 (333)
T 3io5_A           25 GMQSGLLILAGPSKSFKSNFGLTMVSSY   52 (333)
T ss_dssp             CBCSEEEEEEESSSSSHHHHHHHHHHHH
T ss_pred             CCcCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3343357899999999999988777654

>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=94.03  E-value=0.024  Score=58.69  Aligned_cols=26  Identities=27%  Similarity=0.249  Sum_probs=22.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++..++|.||||+|||+++..||..+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35678899999999999999999776

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=93.95  E-value=0.032  Score=54.95  Aligned_cols=35  Identities=23%  Similarity=0.296  Sum_probs=26.3

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .|..-+++.|+||+|||.|+..+|...   |.+++.++
T Consensus        66 ~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s  103 (315)
T 3bh0_A           66 KRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  103 (315)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            444578899999999999999999765   33444444

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=93.93  E-value=0.026  Score=60.88  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=20.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.+++.||||||||+++..+...+
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHH
Confidence            489999999999999887776554

>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=93.87  E-value=0.026  Score=57.86  Aligned_cols=26  Identities=19%  Similarity=0.204  Sum_probs=21.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHH
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+..-++|+||||||||+|+..|+..
T Consensus       176 ~~Gei~~I~G~sGsGKTTLl~~la~~  201 (400)
T 3lda_A          176 ETGSITELFGEFRTGKSQLCHTLAVT  201 (400)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCChHHHHHHHHHH
Confidence            34457889999999999999977744

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.79  E-value=0.026  Score=52.37  Aligned_cols=23  Identities=35%  Similarity=0.470  Sum_probs=20.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .-+.+.||+|+|||+|.++|+..
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            35778999999999999999976

>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=93.79  E-value=0.035  Score=50.48  Aligned_cols=25  Identities=24%  Similarity=0.425  Sum_probs=22.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..+|+|+||||+|||+|...|....
T Consensus        12 ~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           12 QPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999999865

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.70  E-value=0.033  Score=56.24  Aligned_cols=26  Identities=23%  Similarity=0.303  Sum_probs=22.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++.-++|.||+|+|||++++.||..+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            44578899999999999999999876

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.66  E-value=0.034  Score=47.43  Aligned_cols=24  Identities=21%  Similarity=0.498  Sum_probs=21.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .++++.|++|+|||+|...+....
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            378999999999999999998653

>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=93.61  E-value=0.047  Score=51.42  Aligned_cols=32  Identities=16%  Similarity=0.061  Sum_probs=24.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .-+|++||||+|||+++..++..+   |..++.+.
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~   47 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFK   47 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEE
Confidence            456778999999999998888776   55565554

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.60  E-value=0.041  Score=50.09  Aligned_cols=24  Identities=17%  Similarity=0.289  Sum_probs=21.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+++||.||||+|||++|..|...
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            469999999999999999999874

>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=93.59  E-value=0.034  Score=50.06  Aligned_cols=23  Identities=22%  Similarity=0.517  Sum_probs=20.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .++|.||+|+|||+|.+.|+...
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            68899999999999999999863

>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=93.58  E-value=0.037  Score=49.97  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .-++|.||+|+|||+|+..|...+
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhc
Confidence            467899999999999999999874

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.56  E-value=0.031  Score=56.22  Aligned_cols=28  Identities=21%  Similarity=0.322  Sum_probs=24.4

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +..++++.||+|+|||+|.++|+....-
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~~~  201 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEIPF  201 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTSCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            4468999999999999999999987653

>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=93.56  E-value=0.038  Score=49.81  Aligned_cols=32  Identities=13%  Similarity=0.031  Sum_probs=25.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .-+.|.||+|+|||+++..|+..+   |..+..+.
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            467899999999999999999876   45544444

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=93.51  E-value=0.034  Score=58.82  Aligned_cols=26  Identities=0%  Similarity=-0.029  Sum_probs=24.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+|+|.|+||||||+++++|+..++.
T Consensus       396 ~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          396 FSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             eEEEecccCCCCHHHHHHHHHHHHHH
Confidence            47889999999999999999999986

>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=93.49  E-value=0.036  Score=57.51  Aligned_cols=34  Identities=24%  Similarity=0.279  Sum_probs=26.4

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      ++..++|.||||+|||+++..||..+   |..+..+.
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~  135 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVC  135 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            35678899999999999999999776   44444433

>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=93.47  E-value=0.055  Score=50.01  Aligned_cols=36  Identities=17%  Similarity=0.157  Sum_probs=29.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLL  423 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~  423 (458)
                      .+|++|+++|+|||++|-++|..+   |..++.+.+..+
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg   67 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKG   67 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCC
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCC
Confidence            489999999999999999998765   788877754443

>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=93.45  E-value=0.03  Score=52.91  Aligned_cols=27  Identities=22%  Similarity=0.293  Sum_probs=22.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.+.||+|+|||+|.+.|+...
T Consensus        29 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           29 KEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            344567799999999999999999765

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=93.45  E-value=0.033  Score=58.91  Aligned_cols=27  Identities=19%  Similarity=0.126  Sum_probs=23.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..++++.||+|+|||++.++|+....-
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i~~  286 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFIPP  286 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCCC
Confidence            358999999999999999999988753

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=93.43  E-value=0.034  Score=55.75  Aligned_cols=29  Identities=14%  Similarity=0.268  Sum_probs=24.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      ...+.+.||+|+|||+|++.|++.+..+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~~~~  198 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFNTTS  198 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEE
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhCCCc
Confidence            35788999999999999999999876443

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=93.42  E-value=0.034  Score=61.92  Aligned_cols=23  Identities=43%  Similarity=0.651  Sum_probs=19.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+|++||||||||++...+...+
T Consensus       373 ~~lI~GppGTGKT~ti~~~i~~l  395 (800)
T 2wjy_A          373 LSLIQGPPGTGKTVTSATIVYHL  395 (800)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHH
Confidence            67899999999999877776554

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=93.41  E-value=0.088  Score=47.98  Aligned_cols=26  Identities=19%  Similarity=0.300  Sum_probs=23.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ...++|.|+||+|||+|+..|+..++
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            35899999999999999999998864

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.39  E-value=0.028  Score=52.65  Aligned_cols=25  Identities=16%  Similarity=0.183  Sum_probs=21.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.+.||+|+|||+|.+.|+...
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3467789999999999999999765

>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=93.39  E-value=0.04  Score=47.29  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|++.|+||+|||+|...+....
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            78999999999999999998753

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=93.37  E-value=0.044  Score=56.75  Aligned_cols=35  Identities=23%  Similarity=0.299  Sum_probs=26.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      .+..-+++.||||+|||+|+..++...    |.+++.++
T Consensus       201 ~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s  239 (454)
T 2r6a_A          201 QRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFS  239 (454)
T ss_dssp             CTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            444578899999999999999998764    44555544

>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=93.35  E-value=0.032  Score=52.79  Aligned_cols=27  Identities=15%  Similarity=0.153  Sum_probs=22.8

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.+.||+|+|||+|.+.|+...
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           29 PEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344577899999999999999999765

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.34  E-value=0.037  Score=52.55  Aligned_cols=26  Identities=27%  Similarity=0.437  Sum_probs=22.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+ .-+.+.||+|+|||+|.++|+...
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            44 567799999999999999999765

>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=93.33  E-value=0.042  Score=46.87  Aligned_cols=23  Identities=17%  Similarity=0.440  Sum_probs=20.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|++.|+||+|||+|...+....
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            79999999999999999988653

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.25  E-value=0.039  Score=53.32  Aligned_cols=23  Identities=22%  Similarity=0.530  Sum_probs=21.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++.+.||+|+|||+|.+.|++..
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            68899999999999999999875

>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=93.25  E-value=0.041  Score=46.81  Aligned_cols=23  Identities=17%  Similarity=0.475  Sum_probs=20.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|++.|++|+|||+|...+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            78999999999999999998654

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=93.22  E-value=0.045  Score=54.30  Aligned_cols=26  Identities=27%  Similarity=0.363  Sum_probs=22.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +++-++|.||+|+|||+++..||..+
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45578899999999999999999876

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.20  E-value=0.046  Score=56.42  Aligned_cols=35  Identities=23%  Similarity=0.228  Sum_probs=26.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      .+..-++++||||+|||.||..+|...    |.+++.++
T Consensus       198 ~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s  236 (444)
T 2q6t_A          198 GPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS  236 (444)
T ss_dssp             CTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE
Confidence            344567899999999999999988764    44555544

>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=93.19  E-value=0.042  Score=49.34  Aligned_cols=24  Identities=21%  Similarity=0.441  Sum_probs=21.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .++|.||+|+|||+|.+.++....
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~~   54 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNEF   54 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCC
Confidence            678999999999999999998653

>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=93.18  E-value=0.045  Score=46.74  Aligned_cols=24  Identities=17%  Similarity=0.418  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...+...-
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            489999999999999999998653

>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=93.18  E-value=0.045  Score=57.59  Aligned_cols=26  Identities=31%  Similarity=0.364  Sum_probs=22.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++.-++|.||+|+|||++++.|+..+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            34567899999999999999999876

>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=93.14  E-value=0.046  Score=46.88  Aligned_cols=23  Identities=13%  Similarity=0.404  Sum_probs=20.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|++.|++|+|||+|...+....
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            79999999999999999998654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=93.12  E-value=0.078  Score=56.12  Aligned_cols=45  Identities=22%  Similarity=0.240  Sum_probs=31.2

Q ss_pred             cccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHH
Q 012671          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       359 dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .+||.+.....|.......      ....+-++++||+|+|||.||..++.
T Consensus       125 ~~vGR~~~l~~L~~~L~~~------~~~~~~v~I~G~~GiGKTtLa~~~~~  169 (591)
T 1z6t_A          125 VFVTRKKLVNAIQQKLSKL------KGEPGWVTIHGMAGCGKSVLAAEAVR  169 (591)
T ss_dssp             SCCCCHHHHHHHHHHHTTS------TTSCEEEEEECCTTSSHHHHHHHHHC
T ss_pred             eecccHHHHHHHHHHHhcc------cCCCceEEEEcCCCCCHHHHHHHHHh
Confidence            3677776666555443211      12345788999999999999999874

>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=93.10  E-value=0.044  Score=52.04  Aligned_cols=26  Identities=15%  Similarity=0.307  Sum_probs=22.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..-|+|.||||+|||++++.|+..++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~   52 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQ   52 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34677899999999999999998874

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.10  E-value=0.037  Score=53.19  Aligned_cols=27  Identities=22%  Similarity=0.247  Sum_probs=22.5

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..-+.+.||+|+|||+|.++|+....
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~~   57 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLEK   57 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            344677899999999999999997653

>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=93.01  E-value=0.039  Score=51.53  Aligned_cols=25  Identities=32%  Similarity=0.417  Sum_probs=21.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.+.||+|+|||+|.+.|+...
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3467799999999999999999765

>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=93.00  E-value=0.05  Score=47.27  Aligned_cols=23  Identities=17%  Similarity=0.387  Sum_probs=20.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...+...
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            38999999999999999999854

>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=92.99  E-value=0.051  Score=46.71  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=21.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|++.|+||+|||+|...+....
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            79999999999999999998754

>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=92.95  E-value=0.049  Score=47.17  Aligned_cols=23  Identities=39%  Similarity=0.605  Sum_probs=20.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...+...
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            37999999999999999999754

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.93  E-value=0.091  Score=54.76  Aligned_cols=27  Identities=22%  Similarity=0.274  Sum_probs=23.4

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.+.||+|+|||+|++.|++..
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            445578899999999999999999875

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=92.93  E-value=0.14  Score=49.77  Aligned_cols=52  Identities=23%  Similarity=0.332  Sum_probs=31.9

Q ss_pred             CCCCCccccCChHHHHHHHHHHH-------HHHhhhhhcCCCcceeeecCCCCChHHHH
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAK-------ATANTKIHQAPFRNMLFYGPPGTGKTMVA  404 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~-------~~~~~~~~~~p~rnvLl~GPPGTGKT~lA  404 (458)
                      +...|+++.+++.+.+.+...-.       ..........+.+++|+++|+|||||+..
T Consensus        90 ~~~~f~~l~l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~~~~~~~l~~a~TGsGKT~a~  148 (300)
T 3fmo_B           90 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF  148 (300)
T ss_dssp             CCCCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHTSSSCCCEEEECCTTSSHHHHH
T ss_pred             CcCCHhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCCeEEEECCCCCCccHHH
Confidence            45577777777777665543210       00011111234579999999999999854

>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=92.92  E-value=0.052  Score=47.20  Aligned_cols=25  Identities=20%  Similarity=0.417  Sum_probs=21.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .-+|++.|++|+|||+|...+....
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCc
Confidence            3489999999999999999988643

>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=92.91  E-value=0.048  Score=55.05  Aligned_cols=26  Identities=31%  Similarity=0.432  Sum_probs=22.1

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.|.||+|||||+|.++|+...
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            33467789999999999999999865

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=92.91  E-value=0.061  Score=56.74  Aligned_cols=34  Identities=24%  Similarity=0.282  Sum_probs=25.9

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +++.|+|.|+||+|||+++..||..+   |..+..+.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd  136 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLIC  136 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEe
Confidence            35689999999999999999999776   55554443

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=92.91  E-value=0.038  Score=57.84  Aligned_cols=48  Identities=8%  Similarity=-0.004  Sum_probs=30.2

Q ss_pred             ccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHH-HHHh
Q 012671          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREI-ARKS  411 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaL-A~~~  411 (458)
                      |+|++.+++.+.-.+... ..+..  .--|+||.|+||| ||++++++ +..+
T Consensus       215 I~G~e~vK~aLll~L~GG-~~k~r--gdihVLL~G~PGt-KS~Lar~i~~~i~  263 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFSC-VGKNS--ERLHVLLAGYPVV-CSEILHHVLDHLA  263 (506)
T ss_dssp             STTCHHHHHHHHHHHTTC-CSSGG--GCCCEEEESCHHH-HHHHHHHHHHHTC
T ss_pred             cCCCHHHHHHHHHHHcCC-ccccC--CceeEEEECCCCh-HHHHHHHHHHHhC
Confidence            677877665543222110 00111  0128999999999 99999999 6654

>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=92.90  E-value=0.048  Score=52.51  Aligned_cols=26  Identities=27%  Similarity=0.505  Sum_probs=22.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHH
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+..-+.+.||+|+|||+|.+.|+..
T Consensus        44 ~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           44 HPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34456779999999999999999985

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=92.90  E-value=0.029  Score=59.87  Aligned_cols=26  Identities=31%  Similarity=0.456  Sum_probs=23.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ...+.|.||+|+|||+|+++|+..++
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhhc
Confidence            35788999999999999999999985

>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=92.88  E-value=0.039  Score=52.31  Aligned_cols=27  Identities=30%  Similarity=0.474  Sum_probs=22.8

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+...+.+.||+|+|||+|.++|+...
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344567899999999999999999765

>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=92.88  E-value=0.039  Score=52.79  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=21.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.+.||+|+|||+|.++|+...
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3467799999999999999999765

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=92.88  E-value=0.046  Score=60.90  Aligned_cols=22  Identities=45%  Similarity=0.712  Sum_probs=17.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+|++||||||||+++..+...
T Consensus       377 ~~lI~GppGTGKT~~i~~~i~~  398 (802)
T 2xzl_A          377 LSLIQGPPGTGKTVTSATIVYH  398 (802)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999976666543

>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=92.87  E-value=0.046  Score=52.04  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=21.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ..-+.+.||+|+|||+|.+.|+..
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            346779999999999999999985

>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=92.86  E-value=0.05  Score=46.75  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=20.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|++.|+||+|||+|...+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            7899999999999999999854

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=92.85  E-value=0.077  Score=53.11  Aligned_cols=35  Identities=11%  Similarity=0.148  Sum_probs=27.0

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .|..-+++.|+||+|||+|+..+|...   |.+++.++
T Consensus        44 ~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fS   81 (338)
T 4a1f_A           44 NKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFS   81 (338)
T ss_dssp             CTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            444568899999999999999998874   55555544

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.84  E-value=0.075  Score=50.02  Aligned_cols=27  Identities=30%  Similarity=0.293  Sum_probs=23.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +.-|.|.|++|+|||++++.|+..++.
T Consensus        21 ~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           21 SMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            345778899999999999999998765

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=92.84  E-value=0.048  Score=55.10  Aligned_cols=25  Identities=32%  Similarity=0.410  Sum_probs=21.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.|.||+|||||+|.++|+...
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCC
Confidence            3467789999999999999999865

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=92.84  E-value=0.043  Score=49.58  Aligned_cols=24  Identities=42%  Similarity=0.623  Sum_probs=20.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +++|+++|+|+|||+++..++...
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            589999999999999888877654

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=92.83  E-value=0.028  Score=55.91  Aligned_cols=27  Identities=26%  Similarity=0.378  Sum_probs=23.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..++++.||+|+|||+|.++|+....-
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~~  197 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIPK  197 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcC
Confidence            358999999999999999999988643

>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=92.79  E-value=0.055  Score=46.35  Aligned_cols=23  Identities=22%  Similarity=0.353  Sum_probs=20.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|++.|+||+|||+|...+...-
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            58999999999999999998654

>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=92.77  E-value=0.05  Score=55.39  Aligned_cols=25  Identities=36%  Similarity=0.529  Sum_probs=21.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.|.||+|||||+|.++|+...
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcCC
Confidence            3467799999999999999999865

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=92.74  E-value=0.11  Score=48.58  Aligned_cols=29  Identities=31%  Similarity=0.231  Sum_probs=25.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|-|+|.+|||||++++.|+. +|.+++..
T Consensus        11 ~iglTGgigsGKStv~~~l~~-~g~~vida   39 (210)
T 4i1u_A           11 AIGLTGGIGSGKTTVADLFAA-RGASLVDT   39 (210)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH-TTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcEEEC
Confidence            577899999999999999998 99988764

>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=92.72  E-value=0.042  Score=52.30  Aligned_cols=26  Identities=23%  Similarity=0.275  Sum_probs=22.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.+.||+|+|||+|.+.|+...
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34567799999999999999999875

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=92.71  E-value=0.044  Score=52.94  Aligned_cols=27  Identities=30%  Similarity=0.411  Sum_probs=22.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.|.||+|+|||+|.+.|+...
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344567799999999999999999875

>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=92.71  E-value=0.044  Score=51.51  Aligned_cols=26  Identities=23%  Similarity=0.199  Sum_probs=22.4

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.+.||+|+|||+|.+.|+...
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34567799999999999999999865

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=92.71  E-value=0.1  Score=55.61  Aligned_cols=26  Identities=23%  Similarity=0.304  Sum_probs=23.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..|+|.|+||+|||++|+.|+..++.
T Consensus       373 ~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          373 FCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            46889999999999999999998764

>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=92.69  E-value=0.043  Score=51.94  Aligned_cols=25  Identities=28%  Similarity=0.280  Sum_probs=21.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.+.||+|+|||+|.+.|+...
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3467799999999999999999765

>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=92.68  E-value=0.059  Score=46.38  Aligned_cols=24  Identities=17%  Similarity=0.246  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...+....
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            379999999999999999998653

>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=92.68  E-value=0.059  Score=46.20  Aligned_cols=23  Identities=13%  Similarity=0.348  Sum_probs=20.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...+...
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            37999999999999999999863

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=92.67  E-value=0.078  Score=54.92  Aligned_cols=35  Identities=23%  Similarity=0.296  Sum_probs=27.1

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .|..-+++.|+||+|||.||..+|...   |.+++.++
T Consensus       195 ~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fS  232 (444)
T 3bgw_A          195 KRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  232 (444)
T ss_dssp             CSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEEC
T ss_pred             CCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEE
Confidence            444578899999999999999988776   55555554

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=92.67  E-value=0.045  Score=52.50  Aligned_cols=27  Identities=22%  Similarity=0.304  Sum_probs=22.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.+.||+|+|||+|.+.|+...
T Consensus        44 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           44 PSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            344578899999999999999999765

>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=92.66  E-value=0.046  Score=52.65  Aligned_cols=27  Identities=22%  Similarity=0.336  Sum_probs=22.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.|.||+|+|||+|.+.|+...
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            344567799999999999999999765

>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=92.65  E-value=0.047  Score=48.49  Aligned_cols=21  Identities=24%  Similarity=0.643  Sum_probs=19.5

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .+++.|+||+|||+|...++.
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            688999999999999999986

>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=92.64  E-value=0.058  Score=54.42  Aligned_cols=26  Identities=27%  Similarity=0.271  Sum_probs=22.1

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.|.||+|||||+|.+.|+...
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            33467789999999999999999765

>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=92.62  E-value=0.15  Score=50.83  Aligned_cols=32  Identities=19%  Similarity=0.305  Sum_probs=25.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~  418 (458)
                      ...|.|.|+||+|||+|+..|+..+   |..+..+
T Consensus        79 ~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi  113 (355)
T 3p32_A           79 AHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVL  113 (355)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEE
Confidence            4578899999999999999999876   4444433

>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=92.59  E-value=0.057  Score=46.51  Aligned_cols=20  Identities=25%  Similarity=0.576  Sum_probs=18.7

Q ss_pred             ceeeecCCCCChHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIA  408 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA  408 (458)
                      +|++.|+||+|||+|...+.
T Consensus         4 ki~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            68999999999999999986

>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=92.59  E-value=0.046  Score=52.22  Aligned_cols=27  Identities=22%  Similarity=0.375  Sum_probs=22.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +...+.+.||+|+|||+|.+.|+....
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~~   51 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMTS   51 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            344677999999999999999998763

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A

Probab=92.59  E-value=12  Score=41.35  Aligned_cols=53  Identities=17%  Similarity=0.154  Sum_probs=22.9

Q ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH-HHhHHHHHHHHH
Q 012671           94 EAFDI-MRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEE-HRNLVQQKAQAR  147 (458)
Q Consensus        94 ~~~~~-~~~~e~t~q~e~~~~~~e~~~~~~~~~~~~~~~~~ee-~r~~~~~~~~~~  147 (458)
                      -|+|+ .+.||...+++.+....|.....+..++ ..+++.|+ |+++++.|++..
T Consensus       660 lAiEItT~sqEa~Ar~~A~~~eQea~g~Lerqki-~d~a~aE~~r~~Llel~a~s~  714 (861)
T 2zuo_A          660 LAIEITTNSQEAAAKHEAQRLEQEARGRLERQKI-LDQSEAEKARKELLELEAMSM  714 (861)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHhHHHHHHHHhhhhHHHHHH-HHHHHHHHHHHHHHHHHHhhh
Confidence            35555 5566666555533333232222222222 23333333 444455555554

>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=92.57  E-value=0.062  Score=46.00  Aligned_cols=22  Identities=18%  Similarity=0.481  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|++.|+||+|||+|...+...
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            7899999999999999999864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=92.56  E-value=0.058  Score=54.37  Aligned_cols=25  Identities=36%  Similarity=0.453  Sum_probs=21.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.|.||+|||||+|.+.|+...
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3467789999999999999999765

>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=92.56  E-value=0.058  Score=46.96  Aligned_cols=22  Identities=18%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .++|.|+||+|||+|...+...
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6889999999999999999863

>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=92.56  E-value=0.062  Score=54.51  Aligned_cols=25  Identities=36%  Similarity=0.482  Sum_probs=21.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.|.||+|||||+|.++|+...
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            3467789999999999999999765

>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=92.55  E-value=0.061  Score=47.22  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=20.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...+...
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            38999999999999999999864

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.50  E-value=0.061  Score=46.19  Aligned_cols=22  Identities=18%  Similarity=0.463  Sum_probs=20.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|++.|+||+|||+|...+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            7899999999999999999863

>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=92.50  E-value=0.048  Score=52.94  Aligned_cols=25  Identities=16%  Similarity=0.149  Sum_probs=21.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.+.||+|+|||+|.++|+...
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            3467789999999999999999765

>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=92.49  E-value=0.05  Score=52.15  Aligned_cols=26  Identities=31%  Similarity=0.314  Sum_probs=22.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.|.||+|+|||+|.+.|+...
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34567799999999999999999765

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=92.46  E-value=0.05  Score=52.03  Aligned_cols=24  Identities=21%  Similarity=0.463  Sum_probs=21.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ..+|.|.|+||+|||+|..+|...
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            358999999999999999999764

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=92.46  E-value=0.05  Score=52.34  Aligned_cols=26  Identities=23%  Similarity=0.286  Sum_probs=22.2

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.+.||+|+|||+|.+.|+...
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34567799999999999999999765

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.45  E-value=0.057  Score=46.97  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=20.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...+...
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            37999999999999999999753

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.45  E-value=0.08  Score=48.41  Aligned_cols=28  Identities=21%  Similarity=0.420  Sum_probs=23.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ...+++.|+||+|||+|...++...+..
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            4588899999999999999999886543

>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=92.44  E-value=0.054  Score=46.50  Aligned_cols=21  Identities=38%  Similarity=0.743  Sum_probs=19.1

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|++.|+||+|||+|...+..
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            789999999999999999863

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=92.44  E-value=0.034  Score=50.05  Aligned_cols=26  Identities=19%  Similarity=0.231  Sum_probs=22.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..+.+.||+|+|||+|++.|+..+.-
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            35778999999999999999988743

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.43  E-value=0.058  Score=46.84  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...|...
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            48999999999999999998743

>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=92.40  E-value=0.062  Score=54.46  Aligned_cols=25  Identities=40%  Similarity=0.516  Sum_probs=21.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.|.||+|||||+|.++|+...
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcCC
Confidence            3467789999999999999999765

>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=92.36  E-value=0.063  Score=46.50  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=20.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|++|+|||+|...+...
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            37999999999999999999854

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.34  E-value=0.051  Score=52.78  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=22.2

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.+.||+|+|||+|.+.|+...
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            33467799999999999999999765

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=92.29  E-value=0.065  Score=47.21  Aligned_cols=23  Identities=17%  Similarity=0.447  Sum_probs=20.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ..++|.|++|+|||+|...|+..
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999999863

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=92.27  E-value=0.068  Score=49.81  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=21.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      -|.|.||+|+|||++++.|+..+.
T Consensus         5 ~i~~eG~~gsGKsT~~~~l~~~l~   28 (213)
T 4tmk_A            5 YIVIEGLEGAGKTTARNVVVETLE   28 (213)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            577889999999999999998873

>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=0.071  Score=46.73  Aligned_cols=23  Identities=17%  Similarity=0.488  Sum_probs=20.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|++.|+||+|||+|...|....
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            79999999999999999998654

>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=92.25  E-value=0.071  Score=45.89  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=20.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...+...
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            48999999999999999999764

>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=92.25  E-value=0.059  Score=51.92  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=22.1

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.+.||+|+|||+|.++|+...
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34467789999999999999999765

>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=92.22  E-value=0.072  Score=46.15  Aligned_cols=24  Identities=21%  Similarity=0.407  Sum_probs=21.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|++|+|||+|...+....
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            489999999999999999998654

>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=92.22  E-value=0.071  Score=47.14  Aligned_cols=24  Identities=17%  Similarity=0.430  Sum_probs=21.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|++|+|||+|...|....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            389999999999999999998654

>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=92.22  E-value=0.071  Score=47.35  Aligned_cols=24  Identities=25%  Similarity=0.468  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|+|.|+||+|||+|...|...-
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            389999999999999999998743

>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=92.20  E-value=0.051  Score=54.60  Aligned_cols=26  Identities=31%  Similarity=0.432  Sum_probs=22.1

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+.|.||+|||||+|.+.|+...
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcCC
Confidence            33467789999999999999999765

>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=92.18  E-value=0.073  Score=46.48  Aligned_cols=24  Identities=17%  Similarity=0.418  Sum_probs=21.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|++|+|||+|...|...-
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCC
Confidence            489999999999999999998643

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=92.18  E-value=0.12  Score=51.99  Aligned_cols=24  Identities=25%  Similarity=0.491  Sum_probs=21.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+++.||||+|||++++.|...+
T Consensus        36 ~~~~i~G~~G~GKs~~~~~~~~~~   59 (392)
T 4ag6_A           36 SNWTILAKPGAGKSFTAKMLLLRE   59 (392)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEcCCCCCHHHHHHHHHHHH
Confidence            499999999999999999998764

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=92.15  E-value=0.055  Score=51.72  Aligned_cols=25  Identities=16%  Similarity=0.155  Sum_probs=21.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.+.||+|+|||+|.+.|+...
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3467799999999999999999865

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.15  E-value=0.085  Score=45.81  Aligned_cols=24  Identities=21%  Similarity=0.194  Sum_probs=21.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ...|++.|+||+|||+|...+...
T Consensus         8 ~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            8 PPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999753

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=92.13  E-value=0.09  Score=52.70  Aligned_cols=30  Identities=13%  Similarity=0.197  Sum_probs=25.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      ..-+.|.||+|+|||+|.+.|++...-+..
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~~~~~~g  100 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNGASADII  100 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCEE
Confidence            347889999999999999999999865543

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=92.08  E-value=0.075  Score=54.93  Aligned_cols=27  Identities=26%  Similarity=0.356  Sum_probs=23.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+++.++|.|++|+|||+++-.||..+
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            346788999999999999999999776

>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=92.08  E-value=0.078  Score=51.81  Aligned_cols=26  Identities=27%  Similarity=0.273  Sum_probs=22.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++..+.+.||+|+|||+++..||..+
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~  122 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34567788999999999999999876

>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=92.07  E-value=0.073  Score=46.19  Aligned_cols=23  Identities=17%  Similarity=0.423  Sum_probs=21.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+|++.|++|+|||+|...+...
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            48999999999999999999875

>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=0.078  Score=46.19  Aligned_cols=23  Identities=17%  Similarity=0.471  Sum_probs=20.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...+...
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            38999999999999999999864

>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=92.04  E-value=0.072  Score=46.73  Aligned_cols=24  Identities=29%  Similarity=0.486  Sum_probs=21.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|++|+|||+|...+....
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            389999999999999999998653

>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=92.04  E-value=0.072  Score=47.07  Aligned_cols=24  Identities=21%  Similarity=0.339  Sum_probs=21.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -.|++.|+||+|||+|...+....
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            378999999999999999998753

>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=92.01  E-value=0.14  Score=47.25  Aligned_cols=30  Identities=30%  Similarity=0.486  Sum_probs=24.0

Q ss_pred             eeeecCCCCChHHHHHHHHHHh--Ccceeeec
Q 012671          390 MLFYGPPGTGKTMVAREIARKS--EEMLHLLV  419 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~--g~~~~~~~  419 (458)
                      |.|-|+.|+|||++++.|+..+  |.+++...
T Consensus         5 I~~EG~dGsGKsTq~~~L~~~L~~~~~v~~~~   36 (205)
T 4hlc_A            5 ITFEGPEGSGKTTVINEVYHRLVKDYDVIMTR   36 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHCCCCEEEee
Confidence            5678999999999999999988  45554443

>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=92.00  E-value=0.079  Score=46.12  Aligned_cols=24  Identities=21%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...+....
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            389999999999999999998654

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.96  E-value=0.08  Score=46.65  Aligned_cols=23  Identities=13%  Similarity=0.392  Sum_probs=21.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -.|++.|+||+|||+|..+|...
T Consensus         8 ~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            8 YKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            37999999999999999999876

>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=91.95  E-value=0.08  Score=46.25  Aligned_cols=23  Identities=17%  Similarity=0.247  Sum_probs=20.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|++.|+||+|||+|...+....
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            78999999999999999998643

>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=91.90  E-value=0.082  Score=46.33  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=21.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|+|.|+||+|||+|...+....
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            489999999999999999998653

>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=91.88  E-value=0.08  Score=55.83  Aligned_cols=27  Identities=26%  Similarity=0.354  Sum_probs=22.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+...++++||||||||+|++.++...
T Consensus       279 ~~G~i~~i~G~~GsGKSTLl~~l~g~~  305 (525)
T 1tf7_A          279 FKDSIILATGATGTGKTLLVSRFVENA  305 (525)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            344578899999999999999999764

>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=91.88  E-value=0.082  Score=46.61  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=21.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|.+.|....
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhc
Confidence            379999999999999999888654

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=91.88  E-value=0.097  Score=54.17  Aligned_cols=30  Identities=20%  Similarity=0.290  Sum_probs=25.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      ..-+.+.||+|||||+|.+.|++....+..
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~~~~~~G  186 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARYTRADVI  186 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcccCCCeE
Confidence            346789999999999999999999865543

>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=91.75  E-value=0.081  Score=53.96  Aligned_cols=27  Identities=22%  Similarity=0.369  Sum_probs=22.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.|.||+|||||+|.++|+...
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            344577899999999999999999754

>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=91.74  E-value=0.087  Score=45.91  Aligned_cols=24  Identities=17%  Similarity=0.177  Sum_probs=21.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...+....
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            489999999999999999998643

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=91.73  E-value=0.23  Score=45.28  Aligned_cols=57  Identities=21%  Similarity=0.174  Sum_probs=31.9

Q ss_pred             CCCccccCChHHHHHHHHHHHH--HHhhh---hhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          355 KNNGDIILHPSLQRRIQHLAKA--TANTK---IHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~--~~~~~---~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..|+++.+++.+.+.+...-..  +....   ......+++++.+|+|+|||..+-..+...
T Consensus        14 ~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~li~~~TGsGKT~~~~~~~~~~   75 (220)
T 1t6n_A           14 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ   75 (220)
T ss_dssp             CCSTTSCCCHHHHHHHHHTTCCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCchhhhhhHHHHHh
Confidence            3577676667666655432110  00000   000112589999999999998766555444

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.69  E-value=0.088  Score=46.58  Aligned_cols=24  Identities=25%  Similarity=0.458  Sum_probs=21.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|+|.|+||+|||+|...|....
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            389999999999999999998754

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=91.68  E-value=0.039  Score=52.06  Aligned_cols=23  Identities=17%  Similarity=0.213  Sum_probs=20.2

Q ss_pred             eeeecCCCCChHHHHHHHHHHhC
Q 012671          390 MLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +.++||+|+|||+|..+|+..+.
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~~   52 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTALI   52 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhcccc
Confidence            45789999999999999998874

>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=91.66  E-value=0.089  Score=46.59  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...+...-
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            389999999999999999998654

>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=91.66  E-value=0.086  Score=55.57  Aligned_cols=27  Identities=30%  Similarity=0.317  Sum_probs=21.4

Q ss_pred             CCCcceeeecCCCCChHHHHHH--HHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVARE--IARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAka--LA~~~  411 (458)
                      .+...+++.||||||||+|++.  ++...
T Consensus        37 ~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~   65 (525)
T 1tf7_A           37 PIGRSTLVSGTSGTGKTLFSIQFLYNGII   65 (525)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3456788999999999999999  44443

>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=91.63  E-value=0.14  Score=47.93  Aligned_cols=33  Identities=24%  Similarity=0.337  Sum_probs=25.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh--Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS--EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~--g~~~~~~~  419 (458)
                      ...+++.|++|+|||+++..|+..+  |..+..+.
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd   48 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   48 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEe
Confidence            3467789999999999999999776  44444443

>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=91.57  E-value=0.082  Score=46.51  Aligned_cols=23  Identities=22%  Similarity=0.484  Sum_probs=20.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -.++|.|+||+|||+|...|+..
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            47899999999999999999864

>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=91.52  E-value=0.07  Score=52.16  Aligned_cols=27  Identities=22%  Similarity=0.192  Sum_probs=22.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.+.||+|+|||+|.+.|+...
T Consensus        62 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           62 ERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            344567899999999999999999765

>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=91.51  E-value=0.095  Score=46.76  Aligned_cols=24  Identities=21%  Similarity=0.403  Sum_probs=21.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .-+|++.|+||+|||+|...+...
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            348999999999999999999865

>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=91.51  E-value=0.054  Score=54.53  Aligned_cols=25  Identities=36%  Similarity=0.433  Sum_probs=21.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.|.||+|||||+|.+.|+...
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3467789999999999999999765

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=91.51  E-value=0.21  Score=51.28  Aligned_cols=52  Identities=23%  Similarity=0.332  Sum_probs=30.6

Q ss_pred             CCCCCccccCChHHHHHHHHHHH-------HHHhhhhhcCCCcceeeecCCCCChHHHH
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAK-------ATANTKIHQAPFRNMLFYGPPGTGKTMVA  404 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~-------~~~~~~~~~~p~rnvLl~GPPGTGKT~lA  404 (458)
                      +...|++..+++.+.+.+...-.       ..........+.+++|++||+|+|||..+
T Consensus        90 ~~~~f~~~~l~~~l~~~l~~~g~~~p~~~Q~~ai~~il~~~~~~~l~~a~TGsGKT~~~  148 (479)
T 3fmp_B           90 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF  148 (479)
T ss_dssp             CCCCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHTSBSCCEEEEECCSSSSHHHHH
T ss_pred             CcCCHHHcCCCHHHHHHHHHcCCCCCCHHHHHHHHHHHcCCCCcEEEEcCCCCchhHHH
Confidence            34567777777776665543110       00001111124579999999999999864

>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A

Probab=91.50  E-value=19  Score=39.66  Aligned_cols=15  Identities=27%  Similarity=0.570  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHHHHHH
Q 012671          156 ELARKRLQTDHEAQR  170 (458)
Q Consensus       156 ~L~rkr~q~e~e~~~  170 (458)
                      .|+|+++.++.+...
T Consensus       687 ~Lerqki~d~a~aE~  701 (861)
T 2zuo_A          687 RLERQKILDQSEAEK  701 (861)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH
Confidence            344444444444444

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=91.50  E-value=0.073  Score=51.23  Aligned_cols=25  Identities=32%  Similarity=0.530  Sum_probs=21.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ...+.+.||+|+|||+|.+.|+...
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            3467789999999999999999875

>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=91.46  E-value=0.08  Score=46.52  Aligned_cols=22  Identities=23%  Similarity=0.501  Sum_probs=20.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|++.|+||+|||+|...+...
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            6899999999999999999864

>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=91.45  E-value=0.097  Score=46.17  Aligned_cols=24  Identities=21%  Similarity=0.425  Sum_probs=21.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...|....
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            389999999999999999998653

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=91.44  E-value=0.1  Score=49.70  Aligned_cols=29  Identities=21%  Similarity=0.216  Sum_probs=25.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +.|+|++|+|||++++.|...+|.+++.+
T Consensus         4 i~ltG~~~sGK~tv~~~l~~~~g~~~~~~   32 (241)
T 1dek_A            4 IFLSGVKRSGKDTTADFIMSNYSAVKYQL   32 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEECCT
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCeEEec
Confidence            56899999999999999999888776543

>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=91.44  E-value=0.094  Score=54.87  Aligned_cols=34  Identities=12%  Similarity=0.034  Sum_probs=26.1

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      +..-+++.||||+|||.|+..+|...    |.+++.++
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s  278 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAM  278 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEE
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEe
Confidence            34467899999999999999999775    44555544

>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=91.43  E-value=0.12  Score=45.92  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=21.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|+|.|++|+|||+|...+....
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            89999999999999999998765

>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=91.43  E-value=0.099  Score=46.51  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=21.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -.|++.|++|+|||+|...+....
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhCC
Confidence            389999999999999999988643

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=91.42  E-value=0.16  Score=50.57  Aligned_cols=27  Identities=19%  Similarity=0.236  Sum_probs=22.6

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+...+.|.||||+|||+|.++|+..+
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            334567799999999999999999765

>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=91.42  E-value=0.092  Score=46.93  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=20.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ..|++.|+||+|||+|...+...
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            38999999999999999999973

>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=91.36  E-value=0.075  Score=46.36  Aligned_cols=24  Identities=17%  Similarity=0.223  Sum_probs=21.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -.|++.|+||+|||+|...+...-
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            379999999999999999998753

>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=91.34  E-value=0.1  Score=46.61  Aligned_cols=24  Identities=17%  Similarity=0.418  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|+|.|++|+|||+|...+....
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            489999999999999999998643

>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=91.33  E-value=0.097  Score=46.64  Aligned_cols=24  Identities=17%  Similarity=0.383  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|++|+|||+|...+....
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            389999999999999999998654

>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=91.33  E-value=0.1  Score=46.33  Aligned_cols=24  Identities=25%  Similarity=0.263  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...+...-
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHcCC
Confidence            379999999999999999998643

>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=91.31  E-value=0.1  Score=46.42  Aligned_cols=24  Identities=17%  Similarity=0.285  Sum_probs=21.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...+....
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            389999999999999999998754

>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=91.30  E-value=0.11  Score=53.26  Aligned_cols=27  Identities=33%  Similarity=0.465  Sum_probs=23.3

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+...++++||||||||+|+..|++..
T Consensus       172 ~rGQr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          172 GRGQRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             BTTCEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEecCCCCChhHHHHHHHHHH
Confidence            344589999999999999999999865

>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=91.30  E-value=0.1  Score=45.57  Aligned_cols=23  Identities=26%  Similarity=0.302  Sum_probs=20.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -.+++||.|+|||.+..+|.-.+
T Consensus        25 ~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           25 INLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999998665

>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=91.30  E-value=0.1  Score=46.40  Aligned_cols=23  Identities=13%  Similarity=0.219  Sum_probs=20.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.|+||+|||+|...+....
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            89999999999999998887654

>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=91.29  E-value=0.1  Score=46.34  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|++.|++|+|||+|...+...
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            8999999999999999999864

>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=91.29  E-value=0.1  Score=46.12  Aligned_cols=23  Identities=17%  Similarity=0.309  Sum_probs=20.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|+|.|++|+|||+|...+...
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            48999999999999999999854

>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=91.27  E-value=0.09  Score=51.49  Aligned_cols=32  Identities=28%  Similarity=0.259  Sum_probs=24.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~  418 (458)
                      +..+++.||+|+|||+++..||..+   |..+..+
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            4567789999999999999999776   4444443

>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=91.27  E-value=0.1  Score=46.25  Aligned_cols=24  Identities=13%  Similarity=0.339  Sum_probs=21.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ..+|++.|+||+|||+|...|...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999754

>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=91.23  E-value=0.1  Score=45.67  Aligned_cols=23  Identities=17%  Similarity=0.332  Sum_probs=20.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+|+|.|+||+|||+|...+...
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            38999999999999999999853

>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=91.22  E-value=0.1  Score=53.76  Aligned_cols=26  Identities=27%  Similarity=0.273  Sum_probs=22.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++..++|.||+|+|||+++..||..+
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45578889999999999999999887

>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=91.22  E-value=0.1  Score=46.69  Aligned_cols=24  Identities=13%  Similarity=0.339  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...+....
T Consensus        29 ~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           29 YKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            489999999999999999997543

>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=91.20  E-value=0.099  Score=46.77  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=21.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|+|.|+||+|||+|...+....
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            389999999999999999998643

>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=91.19  E-value=0.085  Score=49.12  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=20.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .-+.|.||.|+|||++++.|+..
T Consensus        21 ~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           21 FTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             EEEEEECSTTSCHHHHHHTTGGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            35668899999999999999987

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=91.19  E-value=0.31  Score=48.27  Aligned_cols=58  Identities=22%  Similarity=0.325  Sum_probs=34.9

Q ss_pred             CCCCCCCCCCccccCChHHHHHHHHHHH-------HHHhhhhhcCCCcceeeecCCCCChHHHHH
Q 012671          348 AGPVEAIKNNGDIILHPSLQRRIQHLAK-------ATANTKIHQAPFRNMLFYGPPGTGKTMVAR  405 (458)
Q Consensus       348 ~~~~~~~~~~~dvi~~~~l~~~l~~l~~-------~~~~~~~~~~p~rnvLl~GPPGTGKT~lAk  405 (458)
                      ..+..+...|+++.+++.+.+.+...-.       ............+++|+.+|+|+|||+.+-
T Consensus        18 ~~~~~~~~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~~~lv~apTGsGKT~~~~   82 (412)
T 3fht_A           18 NSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFV   82 (412)
T ss_dssp             TSTTCCSSCTGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHHHSSSCCCEEEECCTTSCHHHHHH
T ss_pred             CCCccccCCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCCeEEEECCCCchHHHHHH
Confidence            3334456678888777877776654211       000011111234799999999999998753

>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=91.16  E-value=0.23  Score=52.51  Aligned_cols=23  Identities=22%  Similarity=0.397  Sum_probs=21.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .+.|.++|++|+|||+||+.+++
T Consensus       152 ~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          152 SFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHH
Confidence            46788999999999999999996

>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=91.14  E-value=0.11  Score=46.47  Aligned_cols=25  Identities=24%  Similarity=0.480  Sum_probs=21.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .-+|++.|+||+|||+|...+....
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3489999999999999999998754

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=91.08  E-value=0.2  Score=45.78  Aligned_cols=32  Identities=22%  Similarity=0.257  Sum_probs=25.3

Q ss_pred             eeeecCCCCChHHHHHHHHHHh---Ccceeeeccc
Q 012671          390 MLFYGPPGTGKTMVAREIARKS---EEMLHLLVHR  421 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~  421 (458)
                      |.|-|+-|+|||+.++.|+..+   |.+++.....
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~treP   37 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKREP   37 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECC
Confidence            4577999999999999999887   6666655433

>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=91.00  E-value=0.23  Score=46.03  Aligned_cols=41  Identities=24%  Similarity=0.372  Sum_probs=29.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcc-eeeeccccchhhhh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEM-LHLLVHRLLPRSMR  428 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~-~~~~~~~~~se~~~  428 (458)
                      .|..-|+|+|.||+||+++|..+...+|.. +..++   +++.+.
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~~~g~~~~~vv~---msD~iK   50 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQSRLGADVCAVLR---LSGPLK   50 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHHHHCTTTEEEEC---THHHHH
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHHHcCCCCceEEE---ccHHHH
Confidence            466678899999999999999998877632 33344   444444

>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=0.11  Score=46.61  Aligned_cols=23  Identities=22%  Similarity=0.453  Sum_probs=20.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...+...
T Consensus        21 ~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           21 MKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            48999999999999999999854

>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=90.94  E-value=0.11  Score=46.71  Aligned_cols=23  Identities=22%  Similarity=0.434  Sum_probs=20.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|+|.|+||+|||+|...|...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            38999999999999999999864

>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=90.92  E-value=0.1  Score=45.83  Aligned_cols=24  Identities=21%  Similarity=0.357  Sum_probs=21.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .-+|++.|+||+|||+|...+...
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            348999999999999999999753

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=90.92  E-value=0.52  Score=46.16  Aligned_cols=23  Identities=39%  Similarity=0.439  Sum_probs=18.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHH
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIA  408 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA  408 (458)
                      ..+++|+.+|+|+|||+.+-..+
T Consensus        43 ~~~~~lv~a~TGsGKT~~~~~~~   65 (395)
T 3pey_A           43 PPRNMIAQSQSGTGKTAAFSLTM   65 (395)
T ss_dssp             SCCCEEEECCTTSCHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHH
Confidence            34799999999999998655443

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=90.85  E-value=0.12  Score=45.51  Aligned_cols=23  Identities=17%  Similarity=0.393  Sum_probs=20.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ..|++.|++|+|||+|...+...
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            37999999999999999999765

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=90.84  E-value=0.11  Score=46.57  Aligned_cols=24  Identities=25%  Similarity=0.397  Sum_probs=21.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|+|.|+||+|||+|...+...-
T Consensus        25 ~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           25 RKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCC
Confidence            489999999999999999998754

>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=90.80  E-value=0.11  Score=47.21  Aligned_cols=24  Identities=21%  Similarity=0.339  Sum_probs=21.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -.|++.|+||+|||+|...+...-
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            389999999999999999998753

>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=90.70  E-value=0.068  Score=48.13  Aligned_cols=24  Identities=17%  Similarity=0.277  Sum_probs=20.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ...+.|.||||+|||+|..+|+..
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            347889999999999999988754

>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=90.66  E-value=0.074  Score=46.61  Aligned_cols=23  Identities=30%  Similarity=0.470  Sum_probs=10.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            9 FKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEECCCCC------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            48999999999999999988754

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=90.65  E-value=0.18  Score=46.07  Aligned_cols=32  Identities=16%  Similarity=0.234  Sum_probs=25.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .-.+++||+|+|||+.+..++..+   |..++.+.
T Consensus         9 ~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k   43 (191)
T 1xx6_A            9 WVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFK   43 (191)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence            356679999999999888888776   67766664

>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=90.65  E-value=0.13  Score=46.56  Aligned_cols=24  Identities=29%  Similarity=0.448  Sum_probs=21.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+|++.|+||+|||+|...+....
T Consensus         8 ~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            8 RAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            489999999999999999998654

>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=90.64  E-value=0.12  Score=45.78  Aligned_cols=24  Identities=21%  Similarity=0.243  Sum_probs=21.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|++|+|||+|...+....
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            389999999999999999998754

>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=90.63  E-value=0.077  Score=46.39  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=20.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .-+|++.|+||+|||+|...+..
T Consensus        18 ~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999998873

>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=90.58  E-value=0.13  Score=45.68  Aligned_cols=23  Identities=17%  Similarity=0.460  Sum_probs=20.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|+||+|||+|...|...
T Consensus         9 ~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            9 YRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCcHHHHHHHHHcC
Confidence            48999999999999999999864

>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=90.58  E-value=0.12  Score=46.89  Aligned_cols=24  Identities=25%  Similarity=0.474  Sum_probs=21.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|+|.|+||+|||+|...+....
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            389999999999999999998643

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=90.52  E-value=0.18  Score=46.08  Aligned_cols=57  Identities=19%  Similarity=0.177  Sum_probs=30.8

Q ss_pred             CCCCccccCChHHHHHHHHHHHH--HHhhh---hhcCCCcceeeecCCCCChHHH-HHHHHHH
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKA--TANTK---IHQAPFRNMLFYGPPGTGKTMV-AREIARK  410 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~--~~~~~---~~~~p~rnvLl~GPPGTGKT~l-AkaLA~~  410 (458)
                      ...|+++-+++.+.+.+...-..  +....   ......+++++.+|+|+|||.. +..+...
T Consensus        13 ~~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~~pTGsGKT~~~~~~~l~~   75 (224)
T 1qde_A           13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR   75 (224)
T ss_dssp             CCCGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCChhhcCCCHHHHHHHHHCCCCCCcHHHHHHHHHHhcCCCEEEECCCCCcHHHHHHHHHHHH
Confidence            34577666666666655433110  00000   0001136899999999999986 3334433

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=90.51  E-value=0.15  Score=47.49  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=17.1

Q ss_pred             cceeeecCCCCChHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIA  408 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA  408 (458)
                      +++++.||+|||||++...+.
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHH
Confidence            589999999999997655443

>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=90.50  E-value=0.11  Score=45.87  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=20.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -.|++.|+||+|||+|...+...
T Consensus        17 ~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           17 VRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            47999999999999999999864

>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=90.45  E-value=0.099  Score=53.98  Aligned_cols=21  Identities=24%  Similarity=0.452  Sum_probs=19.6

Q ss_pred             eeeecCCCCChHHHHHHHHHH
Q 012671          390 MLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +.|.||+|+|||+|.+.|++.
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            789999999999999999875

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=90.40  E-value=0.12  Score=45.92  Aligned_cols=25  Identities=16%  Similarity=0.305  Sum_probs=21.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ...|+|.|++|+|||+|...+....
T Consensus        17 ~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           17 KLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999987543

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=90.36  E-value=0.13  Score=45.86  Aligned_cols=23  Identities=17%  Similarity=0.247  Sum_probs=20.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|++|+|||+|...+...
T Consensus        21 ~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           21 VKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            48999999999999999998743

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=90.33  E-value=0.13  Score=47.10  Aligned_cols=25  Identities=24%  Similarity=0.185  Sum_probs=21.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      -.+++||.|+|||++..+|.-.++.
T Consensus        25 ~~~I~G~NgsGKStil~ai~~~l~g   49 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAILVGLYW   49 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            5678999999999999999876654

>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=90.33  E-value=0.13  Score=45.49  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=21.2

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .-+|++.|+||+|||+|...+...
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            348999999999999999999853

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=90.30  E-value=0.37  Score=47.48  Aligned_cols=23  Identities=26%  Similarity=0.247  Sum_probs=18.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +++|+.+|+|+|||..+-..+..
T Consensus        46 ~~~lv~a~TGsGKT~~~~~~~~~   68 (391)
T 1xti_A           46 MDVLCQAKSGMGKTAVFVLATLQ   68 (391)
T ss_dssp             CCEEEECSSCSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCcHHHHHHHHHHH
Confidence            68999999999999876554443

>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=90.29  E-value=0.078  Score=52.29  Aligned_cols=27  Identities=30%  Similarity=0.525  Sum_probs=23.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.+.||+|+|||+|.+.|++..
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            455678899999999999999999865

>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=90.25  E-value=0.14  Score=46.28  Aligned_cols=23  Identities=17%  Similarity=0.355  Sum_probs=20.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+|++.|++|+|||+|...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            38999999999999999999864

>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=90.24  E-value=0.13  Score=46.29  Aligned_cols=22  Identities=27%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      -+|++.|++|+|||+|...+..
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~   47 (200)
T 2o52_A           26 FKFLVIGSAGTGKSCLLHQFIE   47 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHh
Confidence            4899999999999999999874

>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=90.16  E-value=0.15  Score=51.48  Aligned_cols=27  Identities=19%  Similarity=0.193  Sum_probs=22.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.+.||+|+|||+|.++|+...
T Consensus        52 ~~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           52 PAGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            334467789999999999999999765

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=90.14  E-value=0.19  Score=52.45  Aligned_cols=26  Identities=19%  Similarity=0.383  Sum_probs=23.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..++++|++|||||.|...||.....
T Consensus       153 Qr~~Ifgg~G~GKt~Ll~~Ia~~~~~  178 (469)
T 2c61_A          153 QKLPIFSASGLPHNEIALQIARQASV  178 (469)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            46788899999999999999999875

>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=90.10  E-value=0.13  Score=46.07  Aligned_cols=22  Identities=23%  Similarity=0.357  Sum_probs=20.0

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      -+|++.|+||+|||+|...+..
T Consensus        30 ~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           30 MRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCS
T ss_pred             cEEEEECCCCCCHHHHHHHHHh
Confidence            4899999999999999999964

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=90.02  E-value=0.15  Score=46.21  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=20.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|+|.|+||+|||+|...|...
T Consensus        27 ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           27 KLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            8999999999999999999854

>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=89.98  E-value=0.15  Score=45.95  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|+|.|+||+|||+|...+...
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhhC
Confidence            38999999999999999999754

>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=89.96  E-value=0.15  Score=47.47  Aligned_cols=25  Identities=20%  Similarity=0.404  Sum_probs=21.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..+|+|.|+||+|||+|..+|....
T Consensus        29 ~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           29 QLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHcCCC
Confidence            3489999999999999999998643

>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=89.95  E-value=0.15  Score=45.82  Aligned_cols=23  Identities=17%  Similarity=0.332  Sum_probs=20.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|++.|+||+|||+|...+....
T Consensus        27 ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           27 KLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            89999999999999999998743

>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=89.93  E-value=0.11  Score=46.71  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=19.9

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      ..|++.|+||+|||+|...+..
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            3799999999999999999974

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=89.92  E-value=0.14  Score=45.58  Aligned_cols=22  Identities=23%  Similarity=0.496  Sum_probs=19.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|++.|++|+|||+|...|...
T Consensus        28 ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           28 QVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHCC-
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            7999999999999999998743

>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=89.91  E-value=0.24  Score=49.15  Aligned_cols=27  Identities=19%  Similarity=0.239  Sum_probs=22.9

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .....+.+.||||+|||++...|+..+
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            344578899999999999999999765

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=89.91  E-value=0.23  Score=47.69  Aligned_cols=32  Identities=16%  Similarity=0.121  Sum_probs=25.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +++++.+|+|+|||+.+-..+...+...+.++
T Consensus        32 ~~~lv~~~TGsGKT~~~~~~~~~~~~~~liv~   63 (337)
T 2z0m_A           32 KNVVVRAKTGSGKTAAYAIPILELGMKSLVVT   63 (337)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTCCEEEEC
T ss_pred             CCEEEEcCCCCcHHHHHHHHHHhhcCCEEEEe
Confidence            58999999999999987777766676666554

>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=89.87  E-value=0.14  Score=46.54  Aligned_cols=22  Identities=27%  Similarity=0.373  Sum_probs=20.1

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      -+|++.|++|+|||+|...+..
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~   56 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFAD   56 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHc
Confidence            3899999999999999999975

>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=89.86  E-value=0.12  Score=45.36  Aligned_cols=23  Identities=17%  Similarity=0.364  Sum_probs=20.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -+|++.|++|+|||+|...+...
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            38999999999999999999854

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=89.68  E-value=0.16  Score=45.79  Aligned_cols=24  Identities=17%  Similarity=0.110  Sum_probs=21.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -.|++.|+||+|||+|...+....
T Consensus        10 ~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A           10 IKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            379999999999999999998643

>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=89.65  E-value=0.16  Score=45.84  Aligned_cols=24  Identities=17%  Similarity=0.203  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|+||+|||+|...+....
T Consensus        31 ~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           31 IKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCC
Confidence            489999999999999999998644

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=89.58  E-value=0.24  Score=45.62  Aligned_cols=32  Identities=19%  Similarity=0.265  Sum_probs=25.0

Q ss_pred             cceeeecCCCCChH-HHHHHHHHHh--Ccceeeec
Q 012671          388 RNMLFYGPPGTGKT-MVAREIARKS--EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT-~lAkaLA~~~--g~~~~~~~  419 (458)
                      +-.++|||.|+||| +|.+++.+..  |..++.++
T Consensus        21 ~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~k   55 (195)
T 1w4r_A           21 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIK   55 (195)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEc
Confidence            45667999999999 8999988764  56666664

>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=89.58  E-value=0.13  Score=45.62  Aligned_cols=24  Identities=21%  Similarity=0.383  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|++.|++|+|||+|...+....
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            389999999999999999997654

>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=89.52  E-value=0.17  Score=52.84  Aligned_cols=25  Identities=24%  Similarity=0.514  Sum_probs=21.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..++|+||||||||+|+..|+....
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~  176 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIA  176 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhh
Confidence            4789999999999999998887653

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=89.45  E-value=0.18  Score=46.09  Aligned_cols=24  Identities=17%  Similarity=0.436  Sum_probs=21.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -+|+|.|+||+|||+|...|...-
T Consensus        14 ~ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           14 FKIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            389999999999999999998643

>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=89.40  E-value=0.14  Score=46.09  Aligned_cols=22  Identities=23%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      -.|+|.|+||+|||+|...+..
T Consensus        24 ~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           24 FKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3789999999999999999853

>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*

Probab=89.29  E-value=0.19  Score=53.71  Aligned_cols=24  Identities=38%  Similarity=0.397  Sum_probs=17.9

Q ss_pred             CcceeeecCCCCChHHHHHH-HHHH
Q 012671          387 FRNMLFYGPPGTGKTMVARE-IARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAka-LA~~  410 (458)
                      ..++|+.||||||||+++.. ++..
T Consensus        22 ~~~~lV~a~aGsGKT~~l~~ri~~l   46 (647)
T 3lfu_A           22 RSNLLVLAGAGSGKTRVLVHRIAWL   46 (647)
T ss_dssp             SSCEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHH
Confidence            35789999999999996543 4433

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=89.29  E-value=0.23  Score=46.06  Aligned_cols=54  Identities=26%  Similarity=0.201  Sum_probs=30.2

Q ss_pred             CCCCCccccCChHHHHHHHHHHHH--HHhhh---hhcCCCcceeeecCCCCChHHHHHH
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKA--TANTK---IHQAPFRNMLFYGPPGTGKTMVARE  406 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~--~~~~~---~~~~p~rnvLl~GPPGTGKT~lAka  406 (458)
                      +...|+++-+.+.+.+.+...-..  +....   ......+++|+.+|+|+|||..+-.
T Consensus        28 ~~~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~ai~~i~~~~~~li~apTGsGKT~~~~l   86 (237)
T 3bor_A           28 IVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAI   86 (237)
T ss_dssp             CCCSGGGSCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEECCCSSHHHHHHHHH
T ss_pred             ccCChhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHHH
Confidence            345677777777766655432110  00000   0001136899999999999986443

>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=89.21  E-value=0.19  Score=50.60  Aligned_cols=25  Identities=24%  Similarity=0.427  Sum_probs=21.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..+.|.||||+|||+|..+|+....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             CEEEEECCCCccHHHHHHHHhcccc
Confidence            4678999999999999999997554

>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=89.19  E-value=0.14  Score=50.02  Aligned_cols=22  Identities=18%  Similarity=0.418  Sum_probs=19.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|++.||+|+|||+|.+.|+..
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6789999999999999998753

>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=89.09  E-value=0.21  Score=44.67  Aligned_cols=22  Identities=27%  Similarity=0.466  Sum_probs=19.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||+|||+|...+...
T Consensus         8 kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            8 RVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6899999999999999999853

>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=89.05  E-value=0.2  Score=45.71  Aligned_cols=24  Identities=21%  Similarity=0.373  Sum_probs=21.2

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -.|+|.|++|+|||+|...+....
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            389999999999999999998653

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=89.05  E-value=0.16  Score=48.39  Aligned_cols=23  Identities=26%  Similarity=0.488  Sum_probs=20.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ++|+|.|+||+|||+|..+|...
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            47899999999999999999764

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=89.00  E-value=0.089  Score=46.92  Aligned_cols=22  Identities=18%  Similarity=0.297  Sum_probs=4.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +|++.|++|+|||+|...+...
T Consensus        22 ~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           22 KVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEC-----------------
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            8999999999999999988765

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=88.95  E-value=0.2  Score=49.63  Aligned_cols=24  Identities=29%  Similarity=0.428  Sum_probs=21.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+++||.||+|+|||++|..|...
T Consensus       144 g~~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          144 GVGVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHhc
Confidence            468999999999999999999874

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=88.93  E-value=0.77  Score=42.18  Aligned_cols=18  Identities=28%  Similarity=0.407  Sum_probs=15.7

Q ss_pred             cceeeecCCCCChHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAR  405 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAk  405 (458)
                      +++++.+|+|+|||+.+-
T Consensus        63 ~~~li~a~TGsGKT~~~~   80 (236)
T 2pl3_A           63 KDVLGAAKTGSGKTLAFL   80 (236)
T ss_dssp             CCEEEECCTTSCHHHHHH
T ss_pred             CCEEEEeCCCCcHHHHHH
Confidence            689999999999998544

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=88.92  E-value=0.17  Score=48.17  Aligned_cols=21  Identities=24%  Similarity=0.407  Sum_probs=19.6

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|+|.|+||+|||+|..+|..
T Consensus         7 kI~lvG~~nvGKTsL~n~l~g   27 (258)
T 3a1s_A            7 KVALAGCPNVGKTSLFNALTG   27 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            789999999999999999975

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=88.92  E-value=0.2  Score=52.46  Aligned_cols=25  Identities=16%  Similarity=0.127  Sum_probs=22.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .-+.|.||+|+|||+|.++|+....
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~~   54 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTALI   54 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCC
Confidence            5677899999999999999998763

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=88.89  E-value=0.26  Score=50.25  Aligned_cols=31  Identities=32%  Similarity=0.633  Sum_probs=23.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~  418 (458)
                      .|++++||||+|||.+.+.|...+   |..++++
T Consensus        54 ~h~~i~G~tGsGKs~~~~~li~~~~~~g~~viv~   87 (437)
T 1e9r_A           54 RHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIV   87 (437)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            599999999999999887666543   5454443

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=88.89  E-value=0.27  Score=50.27  Aligned_cols=26  Identities=23%  Similarity=0.275  Sum_probs=22.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .-.+|+||.|+|||+|..+|+..++.
T Consensus        27 ~~~~i~G~nG~GKstll~ai~~~~~~   52 (430)
T 1w1w_A           27 NFTSIIGPNGSGKSNMMDAISFVLGV   52 (430)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhhcc
Confidence            45778999999999999999987764

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=88.78  E-value=0.25  Score=44.31  Aligned_cols=19  Identities=26%  Similarity=0.385  Sum_probs=16.0

Q ss_pred             cceeeecCCCCChHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVARE  406 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAka  406 (458)
                      +++++.+|+|+|||..+-.
T Consensus        39 ~~~li~~~TGsGKT~~~~~   57 (207)
T 2gxq_A           39 KDLIGQARTGTGKTLAFAL   57 (207)
T ss_dssp             CCEEEECCTTSCHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHHH
Confidence            5899999999999986433

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=88.78  E-value=0.39  Score=49.13  Aligned_cols=31  Identities=26%  Similarity=0.238  Sum_probs=27.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ++|+++|+|+|||..+..++..++...++++
T Consensus       110 ~~ll~~~TGsGKT~~~l~~i~~~~~~~Lvl~  140 (472)
T 2fwr_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIVV  140 (472)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCSCEEEEE
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEEE
Confidence            6999999999999999999888887777766

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=88.68  E-value=0.17  Score=49.99  Aligned_cols=27  Identities=22%  Similarity=0.368  Sum_probs=22.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      .+++||.||||+|||++|..|.. -|..
T Consensus       147 g~gvli~G~sG~GKStlal~l~~-~G~~  173 (312)
T 1knx_A          147 GVGVLLTGRSGIGKSECALDLIN-KNHL  173 (312)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHT-TTCE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH-cCCE
Confidence            56999999999999999988864 3443

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=88.67  E-value=0.28  Score=51.50  Aligned_cols=29  Identities=24%  Similarity=0.310  Sum_probs=24.9

Q ss_pred             cceeeecCCCCChHHH-HHHHHHHhCccee
Q 012671          388 RNMLFYGPPGTGKTMV-AREIARKSEEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~l-AkaLA~~~g~~~~  416 (458)
                      ..++++||+|||||.| ...|+++.+.+++
T Consensus       163 QR~~Ifg~~g~GKT~Lal~~I~~~~~~dv~  192 (502)
T 2qe7_A          163 QRELIIGDRQTGKTTIAIDTIINQKGQDVI  192 (502)
T ss_dssp             CBCEEEECSSSCHHHHHHHHHHGGGSCSEE
T ss_pred             CEEEEECCCCCCchHHHHHHHHHhhcCCcE
Confidence            4789999999999999 5699999887754

---

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	458
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	1e-06
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	1e-04
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	1e-04
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	3e-04
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	3e-04
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	4e-04
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	6e-04
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	6e-04
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	8e-04
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	0.001
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	0.003
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	0.003
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	0.003
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	0.003
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	0.004

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 47.0 bits (110), Expect = 1e-06
 Identities = 11/90 (12%), Positives = 23/90 (25%), Gaps = 4/90 (4%)

Query: 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHR 421
            +P L+   + L  +    + H A    +L    PG G   +   ++R            
Sbjct: 3   WYPWLRPDFEKLVASYQAGRGHHA----LLIQALPGMGDDALIYALSRYLLCQQPQGHKS 58

Query: 422 LLPRSMRYLIGRRNQRKACCFLLTRLMHFY 451
                   L+              +  +  
Sbjct: 59  CGHCRGCQLMQAGTHPDYYTLAPEKGKNTL 88

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 41.1 bits (95), Expect = 1e-04
 Identities = 13/36 (36%), Positives = 18/36 (50%)

Query: 370 IQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAR 405
            Q L       K  + P  ++L +GPPG GKT +A 
Sbjct: 18  KQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAH 53

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.9 bits (94), Expect = 1e-04
 Identities = 11/54 (20%), Positives = 18/54 (33%), Gaps = 7/54 (12%)

Query: 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIA 408
           K+   +  +  L      L   +   +        +L YGP GTGK      + 
Sbjct: 8   KSLNALSHNEEL---TNFLKSLSDQPRDLPH----LLLYGPNGTGKKTRCMALL 54

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 39.9 bits (92), Expect = 3e-04
 Identities = 15/55 (27%), Positives = 22/55 (40%), Gaps = 1/55 (1%)

Query: 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQ-APFRNMLFYGPPGTGKTMVAR 405
            +   NG I     + R +         TK     P  ++L  GPP +GKT +A 
Sbjct: 4   ASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAA 58

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.8 bits (91), Expect = 3e-04
 Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 9/58 (15%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPF---------RNMLFYGPPGTGKTMVAREI 407
            +  +     ++++      N+K +             R  + YGPPG GKT  A  +
Sbjct: 15  QVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLV 72

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

 Score = 39.9 bits (92), Expect = 4e-04
 Identities = 14/65 (21%), Positives = 25/65 (38%), Gaps = 4/65 (6%)

Query: 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE 413
           I N  D      L   ++ L +     K         L  G PG+GKT +   I  +++ 
Sbjct: 3   IVNFTDKQFENRLNDNLEELIQG----KKAVESPTAFLLGGQPGSGKTSLRSAIFEETQG 58

Query: 414 MLHLL 418
            + ++
Sbjct: 59  NVIVI 63

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

 Score = 39.2 bits (90), Expect = 6e-04
 Identities = 14/40 (35%), Positives = 20/40 (50%)

Query: 370 IQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIAR 409
            + L+ A    K+      ++L  GPPG GKT +A  IA 
Sbjct: 18  KKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIAS 57

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

 Score = 39.0 bits (91), Expect = 6e-04
 Identities = 14/46 (30%), Positives = 28/46 (60%)

Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS 411
           +   +++L + +   K+     + +L  GPPGTGKT++A+ IA ++
Sbjct: 24  VAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA 69

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 39.0 bits (89), Expect = 8e-04
 Identities = 7/49 (14%), Positives = 14/49 (28%)

Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM 414
            +   +       +              G  G GKT +A+   ++  E 
Sbjct: 25  AEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEA 73

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score = 38.9 bits (90), Expect = 0.001
 Identities = 12/48 (25%), Positives = 18/48 (37%)

Query: 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIAR 409
           LH  L +    +         +    R  LF GP  +GKT +A  +  
Sbjct: 129 LHCLLPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLE 176

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Length = 198

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 36.6 bits (84), Expect = 0.003
 Identities = 5/28 (17%), Positives = 12/28 (42%)

Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIAR 409
           I ++   ++L  G   +    V+ E+  
Sbjct: 10  IEKSEGISILINGEDLSYPREVSLELPE 37

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (85), Expect = 0.003
 Identities = 23/136 (16%), Positives = 46/136 (33%)

Query: 107 LAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDH 166
           + +L   K  Y     +     +              A  +      E E   +  +   
Sbjct: 154 VQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKA 213

Query: 167 EAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAE 226
           E+ +     L +MQ ++    EQ  RS +E ++      E +R ++ +E  R  A+   E
Sbjct: 214 ESAQASAKMLHEMQRKNEQMMEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQE 273

Query: 227 GRAHEAKLTEDHNRRM 242
                 +  +  +R M
Sbjct: 274 QEQLLKEGFQKESRIM 289

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

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]

 Score = 37.0 bits (84), Expect = 0.003
 Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 8/56 (14%)

Query: 355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK 410
           KN  ++         +  L K   +  +      +MLFYGPPGTGKT     + ++
Sbjct: 9   KNLDEVTAQDHA---VTVLKKTLKSANLP-----HMLFYGPPGTGKTSTILALTKE 56

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 37.1 bits (85), Expect = 0.003
 Identities = 11/24 (45%), Positives = 16/24 (66%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIAR 409
             +N+L  GP G GKT +AR +A+
Sbjct: 48  TPKNILMIGPTGVGKTEIARRLAK 71

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 36.7 bits (83), Expect = 0.004
 Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 1/45 (2%)

Query: 370 IQHLAKATAN-TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE 413
           +Q L     N  +     +      G PGTGKT+  R++    ++
Sbjct: 25  LQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKD 69

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	458
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.71
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.67
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.62
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.55
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.47
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.46
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.32
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.27
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.25
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.07
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	99.06
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.94
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	98.85
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.84
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.81
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.76
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	98.72
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.59
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.58
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.47
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.45
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.43
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.42
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.39
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	98.26
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.23
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.21
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.19
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.11
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.07
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.06
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.0
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.98
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.92
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.85
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.79
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.79
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.78
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.78
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.75
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.73
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.73
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.7
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.69
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.68
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.66
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.64
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.62
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.6
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.58
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.57
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.55
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.52
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.52
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.5
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.46
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.43
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.4
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.37
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.3
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.26
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.25
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.23
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.02
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.01
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.93
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.91
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.85
d1tuea_	205	Replication protein E1 helicase domain {Human papi	96.79
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.76
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.71
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.67
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.58
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.57
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.42
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.21
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	96.04
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.98
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.97
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.85
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.82
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	95.57
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.55
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.41
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.39
d1okkd2	207	GTPase domain of the signal recognition particle r	95.35
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.18
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.16
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.08
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.05
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.04
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.02
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.02
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.93
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.92
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.84
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	94.69
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.67
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.65
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.62
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.56
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	94.49
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.3
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	94.28
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.05
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.02
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.99
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.94
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.88
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.71
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	93.61
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.6
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.59
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.59
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	93.57
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.56
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	93.54
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.52
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	93.49
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.47
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.45
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.43
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.42
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	93.25
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	93.21
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.13
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.02
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.01
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	92.92
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	92.9
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	92.83
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.77
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	92.71
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	92.65
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	92.65
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.6
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.56
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	92.55
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.54
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	92.54
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.51
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	92.51
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	92.49
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.37
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.33
d1nrjb_	209	Signal recognition particle receptor beta-subunit	92.27
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.23
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	92.2
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	92.19
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.13
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.12
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.12
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.05
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	92.01
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	91.99
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	91.98
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	91.96
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	91.82
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	91.8
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	91.78
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	91.75
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.74
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	91.7
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	91.66
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	91.65
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	91.64
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	91.62
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	91.49
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.48
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	91.45
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.42
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	91.38
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	91.33
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	91.31
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	91.24
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	91.23
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.18
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	91.13
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.09
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	90.95
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	90.89
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.87
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	90.76
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	90.71
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	90.66
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	90.63
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	90.62
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	90.62
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	90.6
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	90.59
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	90.51
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	90.5
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	90.25
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	90.25
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	90.2
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	90.12
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.09
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.01
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	89.97
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	89.87
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	89.85
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.69
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	89.65
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	89.64
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	89.63
d1xpua3	289	Transcription termination factor Rho, ATPase domai	89.42
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	89.2
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	89.19
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	89.07
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	89.01
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	88.97
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	88.85
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	88.69
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	88.48
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	88.21
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	88.09
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	88.07
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	87.63
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	87.63
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	87.62
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	87.6
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	87.57
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	87.56
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	87.53
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	87.5
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	87.44
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	87.24
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	87.18
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	87.12
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.72
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	86.47
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	86.32
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.1
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	86.1
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	86.06
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	85.99
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	85.86
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	85.75
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	85.59
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	84.61
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	84.53
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	84.36
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	84.34
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	84.1
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	84.07
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	84.01
d2ncda_	368	Kinesin motor Ncd (non-claret disjunctional) {Frui	83.9
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	83.89
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	83.65
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	83.29
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	83.08
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	83.07
d1x88a1	345	Kinesin {Human (Homo sapiens), mitotic kinesin eg5	82.87
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	81.94
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	81.93
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	81.25
d1v8ka_	362	Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090	81.02
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	80.84
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	80.4
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	80.23

>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=99.71  E-value=1.1e-17  Score=159.98  Aligned_cols=101  Identities=19%  Similarity=0.218  Sum_probs=86.0

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHHHhh----hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhh
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSM  427 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~~~~----~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~  427 (458)
                      .|...|+||+|.++.++.|.+++....+.    ..+..+++++|||||||||||++|++||+++|.+++.++   ++.+.
T Consensus         3 ~p~~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~---~~~l~   79 (247)
T d1ixza_           3 APKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITAS---GSDFV   79 (247)
T ss_dssp             CCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEE---HHHHH
T ss_pred             CCCCcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEE---hHHhh
Confidence            35678999999999999998887665432    234566789999999999999999999999999999998   89999


Q ss_pred             hhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          428 RYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       428 ~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++|+|++.+..   ..+|+.++.++||||||
T Consensus        80 ~~~~g~~~~~l---~~~f~~a~~~~p~Ii~i  107 (247)
T d1ixza_          80 EMFVGVGAARV---RDLFETAKRHAPCIVFI  107 (247)
T ss_dssp             HSCTTHHHHHH---HHHHHHHTTSSSEEEEE
T ss_pred             hccccHHHHHH---HHHHHHHHHcCCEEEEE
Confidence            99999887654   45678899999999996

>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=99.67  E-value=3.8e-17  Score=156.92  Aligned_cols=100  Identities=19%  Similarity=0.261  Sum_probs=83.3

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhh----hhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~----~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      ...+|+||+|.++.++.|.+++.+..+.    +.+..+++++|||||||||||++|++||.++|.+++.++   ++.+++
T Consensus         7 ~~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~---~~~l~~   83 (256)
T d1lv7a_           7 IKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTIS---GSDFVE   83 (256)
T ss_dssp             SCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEEC---SCSSTT
T ss_pred             CCCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEE---hHHhhh
Confidence            4568999999999999998887664432    234567789999999999999999999999999999999   888999


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +|+|++...   +..+|+.++.+.||||||
T Consensus        84 ~~~g~~~~~---l~~~f~~A~~~~P~il~i  110 (256)
T d1lv7a_          84 MFVGVGASR---VRDMFEQAKKAAPCIIFI  110 (256)
T ss_dssp             SCCCCCHHH---HHHHHHHHHTTCSEEEEE
T ss_pred             cchhHHHHH---HHHHHHHHHHcCCEEEEE
Confidence            999988664   446677888999999996

>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=99.62  E-value=2.1e-16  Score=151.49  Aligned_cols=97  Identities=27%  Similarity=0.385  Sum_probs=82.0

Q ss_pred             CCccccCChHHHHHHHHHHHH-HHh----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhh
Q 012671          356 NNGDIILHPSLQRRIQHLAKA-TAN----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~-~~~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~  430 (458)
                      +|+||+|.+..++.|.+.+.. ..+    .+.+..+++++|||||||||||++++++|.+++.+++.+.   ++.+...|
T Consensus         2 ~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~---~~~l~~~~   78 (258)
T d1e32a2           2 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN---GPEIMSKL   78 (258)
T ss_dssp             CGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEEC---HHHHTTSC
T ss_pred             ChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEE---chhhcccc
Confidence            799999999999988887653 222    3334567889999999999999999999999999999999   88899999


Q ss_pred             hhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          431 IGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       431 ~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +|++..   .+..+|+.++.++||||||
T Consensus        79 ~g~~~~---~l~~~f~~A~~~~p~il~i  103 (258)
T d1e32a2          79 AGESES---NLRKAFEEAEKNAPAIIFI  103 (258)
T ss_dssp             TTHHHH---HHHHHHHHHHHTCSEEEEE
T ss_pred             cccHHH---HHHHHHHHHHhcCCeEEEe
Confidence            998755   4556788899999999986

>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=99.55  E-value=1.7e-15  Score=145.88  Aligned_cols=99  Identities=23%  Similarity=0.349  Sum_probs=80.3

Q ss_pred             CCCCccccCChHHHHHHHHHHHHH-Hh----hhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKAT-AN----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR  428 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~-~~----~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~  428 (458)
                      ...|+||+|.++.++.|.+.+... .+    ...+..++++||||||||||||+++++||.++|.+|+.++   ++.+..
T Consensus         3 ~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~---~~~l~~   79 (265)
T d1r7ra3           3 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIK---GPELLT   79 (265)
T ss_dssp             CCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEEC---HHHHHT
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEE---HHHhhh
Confidence            457888888888888777665432 22    2234466789999999999999999999999999999998   888889


Q ss_pred             hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          429 YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       429 ~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      .+.|.+..   .+..+|+.++.++||||||
T Consensus        80 ~~~~~~~~---~l~~~f~~A~~~~p~il~i  106 (265)
T d1r7ra3          80 MWFGESEA---NVREIFDKARQAAPCVLFF  106 (265)
T ss_dssp             SCTTTHHH---HHHHHHHHHHHTCSEEEEE
T ss_pred             ccccchHH---HHHHHHHHHHhcCCcceeH
Confidence            99997754   4456788899999999986

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.47  E-value=3.5e-14  Score=135.09  Aligned_cols=90  Identities=20%  Similarity=0.184  Sum_probs=67.1

Q ss_pred             hHHHHHHHHHHHHHHhhhh-hcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhhhhhhhhhhhhhH
Q 012671          364 PSLQRRIQHLAKATANTKI-HQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYLIGRRNQRKACCF  442 (458)
Q Consensus       364 ~~l~~~l~~l~~~~~~~~~-~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~~ge~~~~~~~i~  442 (458)
                      +.+...+..........+. ...|+++||||||||||||++|++||+++|.+|+.++   .++.+.++.+...  ...+.
T Consensus        16 ~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~---~~~~~~g~~~~~~--~~~i~   90 (246)
T d1d2na_          16 DPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKIC---SPDKMIGFSETAK--CQAMK   90 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEE---CGGGCTTCCHHHH--HHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcccccccccc---cccccccccccch--hhhhh
Confidence            3344444444443333332 3357889999999999999999999999999999988   6777777766442  23466


Q ss_pred             HHHHHhhhcCCceeeC
Q 012671          443 LLTRLMHFYASATVYI  458 (458)
Q Consensus       443 ~lf~~a~~~~p~iifi  458 (458)
                      .+|..++.+.||||||
T Consensus        91 ~if~~A~~~~p~il~i  106 (246)
T d1d2na_          91 KIFDDAYKSQLSCVVV  106 (246)
T ss_dssp             HHHHHHHTSSEEEEEE
T ss_pred             hhhhhhhhcccceeeh
Confidence            7899999999999996

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.46  E-value=1.7e-14  Score=141.54  Aligned_cols=93  Identities=19%  Similarity=0.227  Sum_probs=65.9

Q ss_pred             ccCChHHHHHHHHHHHHH------HhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhh--hh
Q 012671          360 IILHPSLQRRIQHLAKAT------ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRY--LI  431 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~------~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~--~~  431 (458)
                      |+||+++++.|...+...      ........|++|+|||||||||||+||++||..++.+++.+.   ++++++.  |.
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~---~s~~~~~~~~~   92 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVE---ATKFTEVGYVG   92 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEE---GGGGSSCCSGG
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhccc---ccccccceeEe
Confidence            899999999887555221      112223357899999999999999999999999999999888   7887743  56


Q ss_pred             hhhhhhhhhhHHHHHHhh-----hcCCceeeC
Q 012671          432 GRRNQRKACCFLLTRLMH-----FYASATVYI  458 (458)
Q Consensus       432 ge~~~~~~~i~~lf~~a~-----~~~p~iifi  458 (458)
                      |......+.+   |..++     .++||||||
T Consensus        93 ~~~~~~~~~~---f~~a~~~~~~~~~~~IIf~  121 (309)
T d1ofha_          93 KEVDSIIRDL---TDSAGGAIDAVEQNGIVFI  121 (309)
T ss_dssp             GSTTHHHHHH---HHTTTTCHHHHHHHCEEEE
T ss_pred             eecccccccc---chhhhcccccccCCceEEe
Confidence            6554444433   33332     235777775

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=99.32  E-value=3.7e-13  Score=125.88  Aligned_cols=65  Identities=28%  Similarity=0.468  Sum_probs=54.3

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecccc
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRL  422 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~  422 (458)
                      ..|+||||++++++.+..++.+   .+.+..++.|+|||||||||||++|++||++++.++..++..+
T Consensus         6 ~~~ddivGq~~~~~~L~~~i~~---~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~   70 (239)
T d1ixsb2           6 KTLDEYIGQERLKQKLRVYLEA---AKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPA   70 (239)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHH---HTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTT
T ss_pred             CCHHHhCCHHHHHHHHHHHHHH---HHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCc
Confidence            4799999999999988766544   3344556789999999999999999999999999998887443

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.27  E-value=2.6e-12  Score=119.82  Aligned_cols=64  Identities=25%  Similarity=0.423  Sum_probs=53.2

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccc
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHR  421 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~  421 (458)
                      ..|+|++|++++++.+..++..   ...++.++.|+|||||||||||++|++||.+++.++..++..
T Consensus         6 ~~~~divGqe~~~~~l~~~i~~---~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~   69 (238)
T d1in4a2           6 KSLDEFIGQENVKKKLSLALEA---AKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGP   69 (238)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHH---HHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETT
T ss_pred             CcHHHcCChHHHHHHHHHHHHH---HHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCc
Confidence            4799999999998887765543   334456677999999999999999999999999999887743

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.25  E-value=1e-12  Score=129.15  Aligned_cols=65  Identities=12%  Similarity=0.047  Sum_probs=54.0

Q ss_pred             CCcc-eeeecCCCCChHHHHHHHHHHhC--cceeeeccccchhhhhhhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          386 PFRN-MLFYGPPGTGKTMVAREIARKSE--EMLHLLVHRLLPRSMRYLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       386 p~rn-vLl~GPPGTGKT~lAkaLA~~~g--~~~~~~~~~~~se~~~~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      +++| +|||||||||||++|++||.++|  .+|+.++   +++++++|+|+..++.   +.+|+.+++  ||||||
T Consensus       121 ~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~---~~~~~~~~~G~~e~~~---~~~f~~a~~--~~ilf~  188 (321)
T d1w44a_         121 YASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVR---FGEPLSGYNTDFNVFV---DDIARAMLQ--HRVIVI  188 (321)
T ss_dssp             EESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEE---BSCSSTTCBCCHHHHH---HHHHHHHHH--CSEEEE
T ss_pred             cCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEE---hhHhhhcccchHHHHH---HHHHHHHhh--ccEEEe
Confidence            3455 55699999999999999999987  6788888   8999999999997655   466777764  899997

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.07  E-value=7.8e-11  Score=110.12  Aligned_cols=66  Identities=23%  Similarity=0.277  Sum_probs=52.0

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhh---------hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTK---------IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~---------~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      ..|+|++|+++..+.|..+.....+..         .+..+.+++|||||||||||++|++||++++.+++.+..
T Consensus        11 ~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~   85 (253)
T d1sxja2          11 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNA   85 (253)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECT
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhcccc
Confidence            469999999998887776654322221         123455799999999999999999999999999988873

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=99.06  E-value=3.5e-11  Score=113.09  Aligned_cols=62  Identities=21%  Similarity=0.275  Sum_probs=45.9

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      .+|+|.-+...+...+..+    .........|++||||||||||||++|++||.+++.+|+.++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~----~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~   65 (273)
T d1gvnb_           4 VNFTDKQFENRLNDNLEEL----IQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   65 (273)
T ss_dssp             TCCCHHHHHHHHHHHHHHH----HTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             cccChHHHHHHHHHHHHHH----HhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEec
Confidence            4566554444444444433    3333445667899999999999999999999999999999983

>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=98.94  E-value=8.8e-11  Score=115.07  Aligned_cols=93  Identities=19%  Similarity=0.221  Sum_probs=63.5

Q ss_pred             ccCChHHHHHHHHHHH-HHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh----------
Q 012671          360 IILHPSLQRRIQHLAK-ATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR----------  428 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~-~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~----------  428 (458)
                      |+||+++.+.|...+. +.........|..++||+||||||||.||+.||..++.+++.+.   ++++.+          
T Consensus        24 viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d---~s~~~~~~~~~~l~g~  100 (315)
T d1r6bx3          24 VFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFD---MSEYMERHTVSRLIGA  100 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEE---GGGCSSSSCCSSSCCC
T ss_pred             ecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEec---cccccchhhhhhhccc
Confidence            8999999997765443 33333333456668999999999999999999999999988877   555433          


Q ss_pred             --hhhhhh--------hhhhhhhHHHHHHhhhcCCce
Q 012671          429 --YLIGRR--------NQRKACCFLLTRLMHFYASAT  455 (458)
Q Consensus       429 --~~~ge~--------~~~~~~i~~lf~~a~~~~p~i  455 (458)
                        +|+|..        ....++++++|+++++++|.|
T Consensus       101 ~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V  137 (315)
T d1r6bx3         101 PPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDV  137 (315)
T ss_dssp             CSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHH
T ss_pred             CCCccccccCChhhHHHHhCccchhhhcccccccchH
Confidence              233321        122334555666666666654

>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=98.85  E-value=2.1e-09  Score=107.17  Aligned_cols=70  Identities=17%  Similarity=0.249  Sum_probs=49.5

Q ss_pred             ccCChHHHHHHHHHHHHHH----------------------hhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          360 IILHPSLQRRIQHLAKATA----------------------NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~----------------------~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      ||||++.++.+...+...+                      .......|+.||||.||+|||||.+|++||..++.+|+.
T Consensus        19 ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~ir   98 (364)
T d1um8a_          19 VIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIAI   98 (364)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEE
T ss_pred             ecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhcccceee
Confidence            9999999887754442110                      011124688999999999999999999999999999887


Q ss_pred             eccccchhhhh-hhhh
Q 012671          418 LVHRLLPRSMR-YLIG  432 (458)
Q Consensus       418 ~~~~~~se~~~-~~~g  432 (458)
                      +.   ++++++ +|+|
T Consensus        99 ~D---~s~~~e~gyvg  111 (364)
T d1um8a_          99 SD---ATSLTEAGYVG  111 (364)
T ss_dssp             EE---GGGCC------
T ss_pred             hh---hhhcccchhhH
Confidence            66   666665 4444

>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=98.84  E-value=2.8e-09  Score=108.85  Aligned_cols=71  Identities=23%  Similarity=0.344  Sum_probs=51.5

Q ss_pred             ccCChHHHHHHHHHHHHHHhhh------hhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhh-hhhh
Q 012671          360 IILHPSLQRRIQHLAKATANTK------IHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMR-YLIG  432 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~~~~~~~------~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~-~~~g  432 (458)
                      ||||++.++.|.-.+...+...      .....++||||.||||||||+||++||+.++.||+.+.   ++.+.+ +|+|
T Consensus        16 VvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~d---aT~fTeaGYvG   92 (443)
T d1g41a_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVE---ATKFTEVGYVG   92 (443)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEE---GGGGC----CC
T ss_pred             ccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEee---cceeeecceee
Confidence            9999999998765443222111      11134679999999999999999999999999999998   555544 6777


Q ss_pred             h
Q 012671          433 R  433 (458)
Q Consensus       433 e  433 (458)
                      +
T Consensus        93 ~   93 (443)
T d1g41a_          93 K   93 (443)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=98.81  E-value=4.5e-10  Score=110.01  Aligned_cols=94  Identities=22%  Similarity=0.322  Sum_probs=59.8

Q ss_pred             ccCChHHHHHHHHHHH-HHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeeccccchhhhh-------
Q 012671          360 IILHPSLQRRIQHLAK-ATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLVHRLLPRSMR-------  428 (458)
Q Consensus       360 vi~~~~l~~~l~~l~~-~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~~~~se~~~-------  428 (458)
                      |+||+++.+.|..... +.........|..++||+||||||||++|+.||..+   +.+++.+.   ++++..       
T Consensus        25 v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~---~~~~~~~~~~~~L  101 (315)
T d1qvra3          25 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRID---MTEYMEKHAVSRL  101 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEEC---TTTCCSSGGGGGC
T ss_pred             EeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEe---ccccccchhhhhh
Confidence            8999998886654433 322222334555688999999999999999999998   45666554   444432       


Q ss_pred             -----hhhhh--------hhhhhhhhHHHHHHhhhcCCcee
Q 012671          429 -----YLIGR--------RNQRKACCFLLTRLMHFYASATV  456 (458)
Q Consensus       429 -----~~~ge--------~~~~~~~i~~lf~~a~~~~p~ii  456 (458)
                           +|+|.        .-+..++++++||++++++|.++
T Consensus       102 ~g~~~gyvG~~~~~~l~~~~~~~p~~Vvl~DEieK~~~~v~  142 (315)
T d1qvra3         102 IGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVF  142 (315)
T ss_dssp             --------------CHHHHHHHCSSEEEEESSGGGSCHHHH
T ss_pred             cCCCCCCcCcccCChHHHHHHhCCCcEEEEehHhhcCHHHH
Confidence                 34442        12223456777888888887664

>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=98.76  E-value=4.9e-09  Score=96.68  Aligned_cols=51  Identities=33%  Similarity=0.581  Sum_probs=41.0

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..|+|++|++++...|..++..        ....++|||||||||||++|++||.+++.
T Consensus        21 ~~~~diig~~~~~~~l~~~i~~--------~~~~~lll~Gp~G~GKTtla~~iak~l~~   71 (231)
T d1iqpa2          21 QRLDDIVGQEHIVKRLKHYVKT--------GSMPHLLFAGPPGVGKTTAALALARELFG   71 (231)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHH--------TCCCEEEEESCTTSSHHHHHHHHHHHHHG
T ss_pred             CCHHHccCcHHHHHHHHHHHHc--------CCCCeEEEECCCCCcHHHHHHHHHHHHHh
Confidence            3799999999888877665432        12348999999999999999999998753

>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=98.72  E-value=1.2e-09  Score=108.95  Aligned_cols=43  Identities=26%  Similarity=0.259  Sum_probs=36.3

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhCcceeeeccccchhhhhhh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLVHRLLPRSMRYL  430 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~~~se~~~~~  430 (458)
                      ...+++|||||||||||++|++||+.+|.+++.++   +++..+.+
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in---~s~~rs~~  194 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVN---LPLDRLNF  194 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCS---SCTTTHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEE---CcchhhHH
Confidence            33468999999999999999999999999999887   55555544

>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=98.59  E-value=2e-08  Score=92.25  Aligned_cols=54  Identities=26%  Similarity=0.333  Sum_probs=41.8

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      .+..|+|++|++++.+.|..+..   +     ....|+|||||||||||++|+.||++++..
T Consensus        10 rP~~~~d~ig~~~~~~~L~~~~~---~-----~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~   63 (224)
T d1sxjb2          10 RPQVLSDIVGNKETIDRLQQIAK---D-----GNMPHMIISGMPGIGKTTSVHCLAHELLGR   63 (224)
T ss_dssp             CCSSGGGCCSCTHHHHHHHHHHH---S-----CCCCCEEEECSTTSSHHHHHHHHHHHHHGG
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHH---c-----CCCCeEEEECCCCCCchhhHHHHHHHHhcc
Confidence            34579999999988777665432   1     122389999999999999999999998643

>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=98.58  E-value=2.1e-08  Score=91.97  Aligned_cols=51  Identities=25%  Similarity=0.473  Sum_probs=40.6

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..|+|++|++++.+.|..++..      +  ...++|||||||||||+++++||++++
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~------~--~~~~lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDE------G--KLPHLLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHT------T--CCCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc------C--CCCeEEEECCCCCChhHHHHHHHHHhh
Confidence            34799999999888777655421      1  123799999999999999999999975

>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=98.47  E-value=2.7e-08  Score=92.21  Aligned_cols=50  Identities=22%  Similarity=0.388  Sum_probs=39.1

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..|+|++|++++...|..+...       ...+.++|||||||||||++|+++|+++
T Consensus         8 ~~~~diig~~~~~~~L~~~~~~-------~~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           8 KSLNALSHNEELTNFLKSLSDQ-------PRDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTC-------TTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHc-------CCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            4699999999887777543221       1223489999999999999999999986

>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=98.45  E-value=4.6e-08  Score=89.71  Aligned_cols=50  Identities=32%  Similarity=0.523  Sum_probs=39.2

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..|+|++|++++.+.|..+..   +     ....++|||||||||||+++++||+++
T Consensus         8 P~~~~diig~~~~~~~l~~~i~---~-----~~~~~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLK---S-----ANLPHMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTT---C-----TTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHH---c-----CCCCeEEEECCCCCChHHHHHHHHHHH
Confidence            4579999999988776654432   1     123479999999999999999999986

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.43  E-value=2.2e-07  Score=85.39  Aligned_cols=57  Identities=18%  Similarity=0.280  Sum_probs=36.2

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..+|++++..+........+.....+.   +..+..++||||||||||||+.++|+++.
T Consensus         5 ~~~tFdnF~vg~~N~~a~~~~~~~~~~~---~~~~n~l~l~G~~G~GKTHLl~A~~~~~~   61 (213)
T d1l8qa2           5 PKYTLENFIVGEGNRLAYEVVKEALENL---GSLYNPIFIYGSVGTGKTHLLQAAGNEAK   61 (213)
T ss_dssp             TTCCSSSCCCCTTTHHHHHHHHHHHHTT---TTSCSSEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCCChhhccCCCcHHHHHHHHHHHHhCc---CCCCCcEEEECCCCCcHHHHHHHHHHHhc
Confidence            5667888764443333222222222221   22234699999999999999999999974

>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=98.42  E-value=1.6e-07  Score=86.68  Aligned_cols=55  Identities=16%  Similarity=0.186  Sum_probs=38.5

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      -.+.+++.+.-.+.|..++....  +....++.++|||||||||||+++++|+..++
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l--~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~   68 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWL--RNPGHHYPRATLLGRPGTGKTVTLRKLWELYK   68 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHH--HSTTSSCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHH--hCCCCCCCceEEECCCCCCHHHHHHHHHHHHh
Confidence            34457777665555554443321  12235678999999999999999999999984

>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=98.39  E-value=1.2e-07  Score=88.11  Aligned_cols=53  Identities=21%  Similarity=0.248  Sum_probs=42.0

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..|+|++|++++.+.+..++..       +..+.++|||||||||||++|++++..++.+
T Consensus         9 ~~~~dlig~~~~~~~L~~~i~~-------~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~   61 (239)
T d1njfa_           9 QTFADVVGQEHVLTALANGLSL-------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCE   61 (239)
T ss_dssp             SSGGGSCSCHHHHHHHHHHHHT-------TCCCSEEEEECSTTSSHHHHHHHHHHHHHCT
T ss_pred             CCHHHccChHHHHHHHHHHHHc-------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCc
Confidence            4899999999888776654332       3344579999999999999999999988643

>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=98.26  E-value=2.6e-07  Score=89.84  Aligned_cols=51  Identities=22%  Similarity=0.298  Sum_probs=38.7

Q ss_pred             CCCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       353 ~~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +...|.+|+|++.+++.+.-.+.   ....|     |+||+||||||||++|++++.-+
T Consensus         2 ~~~~f~~I~Gq~~~kral~laa~---~~~~h-----~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_           2 PVFPFSAIVGQEDMKLALLLTAV---DPGIG-----GVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHH---CGGGC-----CEEEECCGGGCTTHHHHHHHHHS
T ss_pred             CCCChhhccCcHHHHHHHHHHHh---ccCCC-----eEEEECCCCccHHHHHHHHHHhC
Confidence            34579999999998886542221   11122     89999999999999999999876

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=98.23  E-value=2.6e-07  Score=78.32  Aligned_cols=31  Identities=29%  Similarity=0.541  Sum_probs=28.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ++|+|.||||||||++|+.||..+|++|+.+
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~~~id~   33 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDS   33 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEEH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            5899999999999999999999999998754

>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=98.21  E-value=3.9e-07  Score=84.60  Aligned_cols=55  Identities=11%  Similarity=0.038  Sum_probs=33.6

Q ss_pred             ccccCChHHHHHHHHHH-HHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          358 GDIILHPSLQRRIQHLA-KATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       358 ~dvi~~~~l~~~l~~l~-~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +.+++.+.-.+.|..++ ....+......++.+++||||||||||++++++++.++
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHH
Confidence            44555554444444433 22222222222233567899999999999999999874

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.19  E-value=2.9e-07  Score=79.70  Aligned_cols=33  Identities=12%  Similarity=0.182  Sum_probs=29.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .++|+|.||||||||+||++||..+|.+++...
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~   39 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEY   39 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeee
Confidence            368999999999999999999999999887654

>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=98.11  E-value=2.4e-06  Score=81.11  Aligned_cols=89  Identities=17%  Similarity=0.172  Sum_probs=57.7

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccchh
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLLPR  425 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~se  425 (458)
                      .++-++|.+.-..++..+.   .     .....|+||.||||+|||.++..||+..          +..++.++   ++.
T Consensus        16 ~ld~~igRd~Ei~~l~~iL---~-----r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~---~~~   84 (268)
T d1r6bx2          16 GIDPLIGREKELERAIQVL---C-----RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD---IGS   84 (268)
T ss_dssp             CSCCCCSCHHHHHHHHHHH---T-----SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECC---CC-
T ss_pred             CCCcccChHHHHHHHHHHH---h-----cCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEee---ech
Confidence            4556888876544443322   1     1223499999999999999999999764          33455555   677


Q ss_pred             hhh--hhhhhhhhhhhhhHHHHHHhhhcCCceeeC
Q 012671          426 SMR--YLIGRRNQRKACCFLLTRLMHFYASATVYI  458 (458)
Q Consensus       426 ~~~--~~~ge~~~~~~~i~~lf~~a~~~~p~iifi  458 (458)
                      ++.  +|.|+...   .+..+++.+..+..+|+||
T Consensus        85 liag~~~~g~~e~---r~~~i~~~~~~~~~iIlfi  116 (268)
T d1r6bx2          85 LLAGTKYRGDFEK---RFKALLKQLEQDTNSILFI  116 (268)
T ss_dssp             --CCCCCSSCHHH---HHHHHHHHHSSSSCEEEEE
T ss_pred             HhccCccchhHHH---HHHHHHHHhhccCCceEEe
Confidence            775  56666644   3455677787888889886

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=98.07  E-value=7.9e-07  Score=76.51  Aligned_cols=31  Identities=39%  Similarity=0.567  Sum_probs=28.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      -+|+|.||||||||++|+.|+..+|++++.+
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~~~~i~~   35 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSGLKYINV   35 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCcEEec
Confidence            3899999999999999999999999998764

>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=98.06  E-value=5.5e-06  Score=74.82  Aligned_cols=89  Identities=17%  Similarity=0.178  Sum_probs=56.1

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh----------Ccceeeeccccchh
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------EEMLHLLVHRLLPR  425 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~----------g~~~~~~~~~~~se  425 (458)
                      .++-++|.++-..++..+   ..-     ....|+||.||||+|||.++..||+..          +..++.++   ++.
T Consensus        20 ~ld~~igRd~Ei~~l~~i---L~r-----~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld---~~~   88 (195)
T d1jbka_          20 KLDPVIGRDEEIRRTIQV---LQR-----RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALD---MGA   88 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHH---HTS-----SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEEC---HHH
T ss_pred             CCCCCcCcHHHHHHHHHH---Hhc-----cCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEee---HHH
Confidence            455688877544444322   211     112499999999999999999999854          34455555   777


Q ss_pred             hhh--hhhhhhhhhhhhhHHHHHHhhhcC-CceeeC
Q 012671          426 SMR--YLIGRRNQRKACCFLLTRLMHFYA-SATVYI  458 (458)
Q Consensus       426 ~~~--~~~ge~~~~~~~i~~lf~~a~~~~-p~iifi  458 (458)
                      ++.  +|.|+...+   +..+.+++.... ..|+||
T Consensus        89 LiAg~~~rG~~E~r---l~~il~e~~~~~~~iILfI  121 (195)
T d1jbka_          89 LVAGAKYRGEFEER---LKGVLNDLAKQEGNVILFI  121 (195)
T ss_dssp             HHTTTCSHHHHHHH---HHHHHHHHHHSTTTEEEEE
T ss_pred             HhccCCccHHHHHH---HHHHHHHHhcCCCcEEEEc
Confidence            774  556655443   334555555444 567776

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=98.00  E-value=2.4e-06  Score=73.67  Aligned_cols=33  Identities=24%  Similarity=0.352  Sum_probs=29.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeecc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLVH  420 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~  420 (458)
                      +-|+|.||||||||++|+.|+..+|.+++.+..
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~   37 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANLPGVPKVHFHS   37 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTCSSSCEEEECT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCEEEecH
Confidence            457899999999999999999999999988764

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.98  E-value=1.6e-06  Score=75.42  Aligned_cols=31  Identities=29%  Similarity=0.506  Sum_probs=29.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +||+|.||||+|||++++.||..+|++|+.+
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l~~~~~d~   31 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDLDLVFLDS   31 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCCCEEec
Confidence            5899999999999999999999999999864

>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=97.92  E-value=3e-06  Score=73.60  Aligned_cols=30  Identities=27%  Similarity=0.425  Sum_probs=27.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +++|.||||||||++++.||..+|++|+.+
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~~~fiD~   32 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALGVGLLDT   32 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            688889999999999999999999999864

>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=97.85  E-value=3.7e-06  Score=73.34  Aligned_cols=31  Identities=29%  Similarity=0.351  Sum_probs=28.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      ++|+|.||||||||++|+.||..+|++|+..
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~   33 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGYEFVDT   33 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEeh
Confidence            5788999999999999999999999998864

>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=97.79  E-value=5.3e-06  Score=70.81  Aligned_cols=29  Identities=21%  Similarity=0.456  Sum_probs=25.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      +-|+|.||||||||++|+.|+..++..++
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            35889999999999999999999987665

>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=97.79  E-value=4.5e-06  Score=71.87  Aligned_cols=24  Identities=33%  Similarity=0.686  Sum_probs=22.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +||+++||||||||+|+++++..+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            689999999999999999999887

>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=97.78  E-value=6.7e-06  Score=70.53  Aligned_cols=32  Identities=19%  Similarity=0.228  Sum_probs=28.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +-|+|+||||+|||++|++|+..+|.+++.+.
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~   35 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFG   35 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCeEEee
Confidence            46889999999999999999999998887654

>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=97.78  E-value=7.8e-06  Score=70.22  Aligned_cols=32  Identities=25%  Similarity=0.296  Sum_probs=27.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +-++|+||||||||++|+.|+..+|..++...
T Consensus         7 ~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d   38 (171)
T d1knqa_           7 HIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   38 (171)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeechh
Confidence            45778999999999999999999998876644

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.75  E-value=7.9e-06  Score=70.27  Aligned_cols=27  Identities=44%  Similarity=0.560  Sum_probs=24.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +-+|+|+||||+|||++|+.|+..++.
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l~~   31 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAELDG   31 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            347999999999999999999999864

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.73  E-value=6.1e-06  Score=73.00  Aligned_cols=31  Identities=19%  Similarity=0.204  Sum_probs=27.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      -.|+|.||||||||++|+.|+..+|+.++.+
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~~~~~is~   34 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKYQLAHISA   34 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCCEECCH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHCCcEEeh
Confidence            3689999999999999999999999988653

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.73  E-value=7e-06  Score=72.03  Aligned_cols=30  Identities=33%  Similarity=0.431  Sum_probs=27.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|+|.||||||||++|+.|+..+|+.++.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~~   31 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQIST   31 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEch
Confidence            688999999999999999999999887754

>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=97.70  E-value=6.2e-06  Score=70.79  Aligned_cols=29  Identities=17%  Similarity=0.215  Sum_probs=24.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      ..|+|.|+||+|||++|++||..++..++
T Consensus         7 ~~I~l~G~~GsGKTTia~~La~~L~~~~~   35 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARALQVTLNQQGG   35 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCC
Confidence            35778999999999999999999965443

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.69  E-value=8.7e-06  Score=70.95  Aligned_cols=30  Identities=27%  Similarity=0.309  Sum_probs=27.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|++.||||+|||++|+.||.++|+.++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~~   31 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHIST   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceech
Confidence            588999999999999999999999887754

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.68  E-value=1.1e-05  Score=71.31  Aligned_cols=30  Identities=27%  Similarity=0.396  Sum_probs=27.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .++|.||||+|||++|+.||..+|+.++.+
T Consensus         5 riil~G~pGSGKsT~a~~La~~~g~~~i~~   34 (190)
T d1ak2a1           5 RAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   34 (190)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            678899999999999999999999887654

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.66  E-value=1e-05  Score=71.62  Aligned_cols=32  Identities=22%  Similarity=0.231  Sum_probs=28.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      |.-|+++||||+|||++|+.||.++|+.++.+
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~~~g~~~i~~   37 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLSA   37 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCceEch
Confidence            45788999999999999999999999877653

>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=97.64  E-value=5e-05  Score=75.37  Aligned_cols=90  Identities=17%  Similarity=0.210  Sum_probs=50.2

Q ss_pred             CCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh--C--------cceeeeccccch
Q 012671          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS--E--------EMLHLLVHRLLP  424 (458)
Q Consensus       355 ~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~--g--------~~~~~~~~~~~s  424 (458)
                      +.++-++|.+.-..++-.+..   -     ....|+||.||||+|||.++..||...  |        ..++.+.   ++
T Consensus        19 g~ld~~~gr~~ei~~~~~~L~---r-----~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld---~~   87 (387)
T d1qvra2          19 GKLDPVIGRDEEIRRVIQILL---R-----RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQ---MG   87 (387)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHH---C-----SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEEC---C-
T ss_pred             CCCCCCcCcHHHHHHHHHHHh---c-----CCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEee---Hh
Confidence            346668888765554433221   1     112489999999999999999999753  2        2344444   77


Q ss_pred             hhhh--hhhhhhhhhhhhhHHHHHHhhhc-CCceeeC
Q 012671          425 RSMR--YLIGRRNQRKACCFLLTRLMHFY-ASATVYI  458 (458)
Q Consensus       425 e~~~--~~~ge~~~~~~~i~~lf~~a~~~-~p~iifi  458 (458)
                      .++.  +|.|+...+.   ..+...+... .++|+||
T Consensus        88 ~l~ag~~~~g~~e~r~---~~i~~~~~~~~~~~ilfi  121 (387)
T d1qvra2          88 SLLAGAKYRGEFEERL---KAVIQEVVQSQGEVILFI  121 (387)
T ss_dssp             ----------CHHHHH---HHHHHHHHTTCSSEEEEE
T ss_pred             hhhcccCcchhHHHHH---HHHHHHhccCCCceEEEe
Confidence            7775  5667665443   3344445444 4677886

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.62  E-value=1.5e-05  Score=71.03  Aligned_cols=30  Identities=27%  Similarity=0.347  Sum_probs=26.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|+|.||||+|||++|+.||..+|+.++.+
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~g~~~is~   37 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHFELKHLSS   37 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHBCCEEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHCCeEEcH
Confidence            788899999999999999999999777543

>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=97.60  E-value=3.6e-05  Score=70.33  Aligned_cols=52  Identities=15%  Similarity=0.056  Sum_probs=39.2

Q ss_pred             CCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      .-++++|.....+.+..            ...+++++|||+|+|||+|++.++..++..+..+.
T Consensus        10 ~~~~f~GR~~el~~l~~------------~~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~   61 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKG------------LRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLD   61 (283)
T ss_dssp             SGGGSCCCHHHHHHHHH------------TCSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEE
T ss_pred             ChhhCCChHHHHHHHHh------------ccCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEE
Confidence            34667888765555431            12468999999999999999999999988776654

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.58  E-value=1.5e-05  Score=70.77  Aligned_cols=31  Identities=16%  Similarity=0.278  Sum_probs=27.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .-|+|.||||+|||++|+.||..+|+.++.+
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~g~~~is~   39 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEeh
Confidence            4678899999999999999999999887653

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.57  E-value=1.6e-05  Score=69.71  Aligned_cols=30  Identities=30%  Similarity=0.369  Sum_probs=27.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|+|.||||+|||++|+.||..+|+.++.+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~~~is~   31 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGTPHIST   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceeeH
Confidence            478999999999999999999999988764

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.55  E-value=1.7e-05  Score=69.32  Aligned_cols=30  Identities=23%  Similarity=0.201  Sum_probs=27.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      +|+|.||||+|||++|+.|+.++|+.++.+
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~~   31 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceech
Confidence            578999999999999999999999887764

>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=97.52  E-value=8e-06  Score=71.57  Aligned_cols=30  Identities=20%  Similarity=0.117  Sum_probs=25.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|+|+||||+|||++|+.|+..++..++..
T Consensus        21 vI~L~G~pGSGKTTiAk~La~~l~~~~~~~   50 (195)
T d1x6va3          21 TVWLTGLSGAGKTTVSMALEEYLVCHGIPC   50 (195)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHHHHTTCCE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCCc
Confidence            466889999999999999999997665543

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.52  E-value=2.2e-05  Score=69.70  Aligned_cols=30  Identities=23%  Similarity=0.331  Sum_probs=26.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      +-|+|.||||+|||++|+.||..+|+.++.
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~~~g~~~is   38 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQKYGYTHLS   38 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTCCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeeEe
Confidence            468899999999999999999999987764

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.50  E-value=2.3e-05  Score=68.72  Aligned_cols=30  Identities=27%  Similarity=0.468  Sum_probs=26.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLL  418 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~  418 (458)
                      .|+|.||||+|||++|+.||..+|+.++.+
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            477889999999999999999999887664

>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=97.46  E-value=3.9e-05  Score=64.50  Aligned_cols=23  Identities=43%  Similarity=0.616  Sum_probs=20.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -|+|+||||+|||++|+.|+...
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            47789999999999999997664

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.43  E-value=3.5e-05  Score=67.97  Aligned_cols=29  Identities=24%  Similarity=0.277  Sum_probs=26.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      -|++.||||+|||++|+.||.++|+.++.
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~g~~~i~   31 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKYGYTHLS   31 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEc
Confidence            57899999999999999999999987754

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.40  E-value=3.9e-05  Score=68.45  Aligned_cols=29  Identities=24%  Similarity=0.336  Sum_probs=26.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      -|.+.||||+|||++|+.||..+|++++.
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~iS   33 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLLD   33 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            56678999999999999999999998864

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.37  E-value=5e-05  Score=65.49  Aligned_cols=27  Identities=26%  Similarity=0.564  Sum_probs=24.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      +|++.||||||||+|++.|+..++.+.
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~~~   28 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCCCc
Confidence            589999999999999999999887653

>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=97.30  E-value=0.00011  Score=66.14  Aligned_cols=27  Identities=19%  Similarity=0.294  Sum_probs=23.5

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+..+||+||||+|||.+|+.+|..+.
T Consensus        23 l~h~lLl~Gp~G~GKtt~a~~~a~~l~   49 (207)
T d1a5ta2          23 GHHALLIQALPGMGDDALIYALSRYLL   49 (207)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cCeEEEEECCCCCcHHHHHHHHHHhcc
Confidence            344699999999999999999999763

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.26  E-value=5.6e-05  Score=64.92  Aligned_cols=28  Identities=18%  Similarity=0.247  Sum_probs=24.0

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      +-|+|.||||+|||++++.|+..++...
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            4578999999999999999999886543

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.25  E-value=7.1e-05  Score=67.11  Aligned_cols=28  Identities=29%  Similarity=0.335  Sum_probs=24.7

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      |.+-||||+|||++|+.||.++|++++.
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg~~~is   33 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFGFTYLD   33 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            4456999999999999999999998765

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.23  E-value=6.8e-05  Score=65.74  Aligned_cols=31  Identities=19%  Similarity=0.176  Sum_probs=25.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      .+.-|||+||||+|||++|+.++...|..++
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~~~~~~~i   43 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLVSAGYVHV   43 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTGGGTCEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcCCEEE
Confidence            3567889999999999999999887775443

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.02  E-value=0.00012  Score=64.48  Aligned_cols=26  Identities=23%  Similarity=0.448  Sum_probs=22.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      --|+|+|+||+|||++|+.|+..++.
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            35789999999999999999988854

>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=97.01  E-value=0.00086  Score=66.17  Aligned_cols=149  Identities=19%  Similarity=0.179  Sum_probs=105.6

Q ss_pred             CCCchhhhHHHH-HHHHHhcCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 012671           70 GFDPEALERAAK-ALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARA  148 (458)
Q Consensus        70 ~fdp~~ler~a~-a~~~l~~s~~a~~~~~~~~~~e~t~q~e~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~~~~~~~~~~  148 (458)
                      .|++++++.+++ +-|.|......-+|++|+-.-=.....+...+=                                  
T Consensus       207 ~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~a~~~i~~~s~P----------------------------------  252 (387)
T d1qvra2         207 RISDSAIIAAATLSHRYITERRLPDKAIDLIDEAAARLRMALESAP----------------------------------  252 (387)
T ss_dssp             EECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHHHHHTTTTHH----------------------------------
T ss_pred             cccHHHHHHHHHhcccccccccChhhHHHHHHHHHHHHHhhccCCc----------------------------------
Confidence            377888888884 445677777777787776432111111100000                                  


Q ss_pred             HHhhhhHHHHHHHHHHHHHHHHHhchHHHhhhHhhHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012671          149 QGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRST---EEQIQAQQRLTEKERAEIERETIRVKAMAEA  225 (458)
Q Consensus       149 ~~a~y~D~L~rkr~q~e~e~~~~~~e~~~~~qees~~rqE~~r~~~---e~~l~~lr~~~e~e~~~l~~~~~~~k~~~e~  225 (458)
                         +-=|.++|+..++++|..++.++..    .++..|+..+..+.   ++++..++.+|+.++..++...++++.+..+
T Consensus       253 ---~el~~ler~I~qLe~E~~aL~ke~d----~~s~~rl~~le~el~~lee~~~~L~~~w~~ek~~l~~i~~Lk~~Le~l  325 (387)
T d1qvra2         253 ---EEIDALERKKLQLEIEREALKKEKD----PDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEV  325 (387)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHSSCSS----HHHHSCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHHhccc----hHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               0136778888999999999988753    33334444433333   3478889999999999999999999999999


Q ss_pred             hhhHHHHHhhcChhHHHHHHHHHhhhHHHHHhhchhhhhh
Q 012671          226 EGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHI  265 (458)
Q Consensus       226 ~~r~~~~r~n~D~~le~~~~~a~~~r~~~l~~i~~~~~~l  265 (458)
                      +..+..+.++.|+      .++.+.++..++.++.....+
T Consensus       326 r~~le~A~r~gd~------e~AaeL~y~~ip~le~el~~l  359 (387)
T d1qvra2         326 RREIELAERQYDL------NRAAELRYGELPKLEAEVEAL  359 (387)
T ss_dssp             HHHHHHHTTTTCH------HHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccH------HHHHHHhhchHHHHHHHHHHH
Confidence            9999999999999      778888999998887765544

>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=96.93  E-value=0.00058  Score=63.20  Aligned_cols=27  Identities=37%  Similarity=0.512  Sum_probs=23.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..||++||||||||++|++|...++..
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih~~s~~~   50 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIHKLSDRS   50 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHHHSTTT
T ss_pred             CCEEEECCCCcCHHHHHHHHHHhcCCc
Confidence            479999999999999999999877543

>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=96.91  E-value=0.00018  Score=61.85  Aligned_cols=27  Identities=22%  Similarity=0.292  Sum_probs=23.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      -++|.||||+|||++++.|+..++...
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~~~   29 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDNQG   29 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            467899999999999999999986543

>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=96.85  E-value=0.00067  Score=61.05  Aligned_cols=32  Identities=19%  Similarity=0.199  Sum_probs=26.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      .-|+|+|+||+|||++|+.|+..+    +.+.+.+.
T Consensus        25 ~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ld   60 (208)
T d1m7ga_          25 LTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLD   60 (208)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEc
Confidence            468899999999999999999766    45555555

>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=96.79  E-value=0.00052  Score=61.66  Aligned_cols=32  Identities=22%  Similarity=0.430  Sum_probs=25.8

Q ss_pred             cCCCc-ceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          384 QAPFR-NMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       384 ~~p~r-nvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      +.|.+ .++|||||+||||++|-+|...++-.+
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~v   81 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAV   81 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEE
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHHHhCCEE
Confidence            34555 577999999999999999999986443

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.76  E-value=0.00047  Score=59.66  Aligned_cols=47  Identities=23%  Similarity=0.234  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          367 QRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       367 ~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      ..++..++....+.+.. . +--|-+.||||+|||+||+.|+..++...
T Consensus         4 ~~~~~~~~~~~~~~~~~-~-~~iIgI~G~~GSGKSTla~~L~~~l~~~~   50 (198)
T d1rz3a_           4 RDRIDFLCKTILAIKTA-G-RLVLGIDGLSRSGKTTLANQLSQTLREQG   50 (198)
T ss_dssp             HHHHHHHHHHHHTSCCS-S-SEEEEEEECTTSSHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhccCC-C-CEEEEEECCCCCCHHHHHHHHHHHhcccc
Confidence            34555555555442221 1 11344899999999999999999876543

>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=96.71  E-value=0.00036  Score=59.02  Aligned_cols=31  Identities=23%  Similarity=0.210  Sum_probs=25.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+.|.||||+|||+|++.|+..+   |..+..+.
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~   37 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK   37 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEec
Confidence            67899999999999999999876   55555443

>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=96.67  E-value=0.0016  Score=58.57  Aligned_cols=27  Identities=26%  Similarity=0.354  Sum_probs=23.3

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-++++||||||||.||..++...
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~~   50 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVENA   50 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            344578899999999999999999886

>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=96.58  E-value=0.00066  Score=59.92  Aligned_cols=27  Identities=19%  Similarity=0.587  Sum_probs=23.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      -|+|.||||+|||++++.|+...+..|
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            488999999999999999999876444

>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=96.57  E-value=0.00066  Score=59.56  Aligned_cols=26  Identities=27%  Similarity=0.609  Sum_probs=22.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      |-|+|+||||+|||+|++.|+.....
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~   27 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPD   27 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCc
Confidence            45899999999999999999988643

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.42  E-value=0.00079  Score=58.16  Aligned_cols=27  Identities=22%  Similarity=0.221  Sum_probs=23.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-++++||||+|||.||..+|.+.
T Consensus        21 ~~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          21 ETGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cCCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            445678899999999999999999775

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.21  E-value=0.00079  Score=60.03  Aligned_cols=26  Identities=19%  Similarity=0.204  Sum_probs=21.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHH
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .+.+-++|+||||||||+||..++..
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            34457889999999999999988754

>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=96.04  E-value=0.0013  Score=58.68  Aligned_cols=27  Identities=19%  Similarity=0.058  Sum_probs=24.0

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+.++|||||||||||.+|+.++....
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~   40 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVE   40 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHh
Confidence            356999999999999999999998763

>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=95.98  E-value=0.002  Score=57.69  Aligned_cols=27  Identities=19%  Similarity=0.236  Sum_probs=22.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+.+-++++||||||||.||..++.+.
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            334478899999999999999998754

>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=95.97  E-value=0.0014  Score=58.92  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=21.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+-++++||||||||.||-.++.+.
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3468899999999999999888764

>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=95.85  E-value=0.0023  Score=55.43  Aligned_cols=24  Identities=29%  Similarity=0.563  Sum_probs=21.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +-|+|.||||+|||++++.|....
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            457899999999999999999876

>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=95.82  E-value=0.0054  Score=53.98  Aligned_cols=25  Identities=32%  Similarity=0.394  Sum_probs=20.4

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHH
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .+..-++|+||||+|||+||..++.
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            4456788999999999999977654

>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=95.57  E-value=0.0063  Score=56.67  Aligned_cols=30  Identities=37%  Similarity=0.504  Sum_probs=24.8

Q ss_pred             cCCCcc-eeeecCCCCChHHHHHHHHHHhCc
Q 012671          384 QAPFRN-MLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       384 ~~p~rn-vLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ..|.+| ++|||||+||||+|+.+|...+|.
T Consensus       100 ~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~  130 (267)
T d1u0ja_         100 KFGKRNTIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             CSTTCCEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CCCccEEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            345555 568999999999999999999975

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.55  E-value=0.003  Score=55.87  Aligned_cols=25  Identities=20%  Similarity=0.240  Sum_probs=22.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcc
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      |-+.||+|+|||++|+.|+..+|..
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~~~   29 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLGQN   29 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhchh
Confidence            4478999999999999999998764

>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=95.41  E-value=0.0027  Score=60.94  Aligned_cols=32  Identities=22%  Similarity=0.377  Sum_probs=27.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +|+|+.||+|+|||++..+|..+...+.-+++
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~~rivt  198 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKEERIIS  198 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTTCCEEE
T ss_pred             CCEEEEeeccccchHHHHHHhhhcccccceee
Confidence            59999999999999999999998876655544

>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=95.39  E-value=0.0035  Score=55.51  Aligned_cols=26  Identities=23%  Similarity=0.224  Sum_probs=22.5

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-++++||||+|||.||..+|..+
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34578899999999999999999866

>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=95.35  E-value=0.0044  Score=55.69  Aligned_cols=25  Identities=32%  Similarity=0.373  Sum_probs=20.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ++-++|+||+|+|||+.+-.||..+
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~   30 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYY   30 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3567899999999999777777665

>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=95.18  E-value=0.0048  Score=57.01  Aligned_cols=17  Identities=35%  Similarity=0.428  Sum_probs=14.6

Q ss_pred             cceeeecCCCCChHHHH
Q 012671          388 RNMLFYGPPGTGKTMVA  404 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lA  404 (458)
                      .++|+.||||||||+++
T Consensus        15 ~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SEEEECCCTTSCHHHHH
T ss_pred             CCEEEEeeCCccHHHHH
Confidence            47899999999999854

>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=95.16  E-value=0.005  Score=55.58  Aligned_cols=26  Identities=31%  Similarity=0.396  Sum_probs=20.6

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +|.-++|.||+|+|||+.+-.||..+
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~   35 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMF   35 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34567899999999999777777655

>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=95.08  E-value=0.0051  Score=55.19  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=19.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -++|.||+|+|||+.+-.||..+
T Consensus        12 vi~lvGp~GvGKTTTiaKLA~~~   34 (207)
T d1ls1a2          12 LWFLVGLQGSGKTTTAAKLALYY   34 (207)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            35779999999999888888666

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.05  E-value=0.0066  Score=52.80  Aligned_cols=24  Identities=17%  Similarity=0.524  Sum_probs=21.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +-|+|.||+|+|||+|.+.|....
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            468899999999999999999765

>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=95.04  E-value=0.0048  Score=55.58  Aligned_cols=25  Identities=28%  Similarity=0.304  Sum_probs=16.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.-++|.||||+|||+.+-.||..+
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA~~~   36 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLAYFY   36 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4567789999999999877777665

>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=95.02  E-value=0.01  Score=55.09  Aligned_cols=23  Identities=26%  Similarity=0.483  Sum_probs=20.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +-|.+||++|+|||+||+.+.+.
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            45779999999999999999876

>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=95.02  E-value=0.0062  Score=54.86  Aligned_cols=33  Identities=27%  Similarity=0.309  Sum_probs=24.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +.-++|.||+|+|||+.+-.||..+   |..+..++
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit   44 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAA   44 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            4567789999999999777778655   44444443

>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=94.93  E-value=0.0062  Score=50.26  Aligned_cols=23  Identities=22%  Similarity=0.353  Sum_probs=20.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.|+||+|||+|...+...-
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998654

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.92  E-value=0.0098  Score=51.06  Aligned_cols=30  Identities=20%  Similarity=0.197  Sum_probs=25.8

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhCcce
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSEEML  415 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g~~~  415 (458)
                      |..-|+|+|+=|+|||+|++.+++.+|..-
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg~~~   61 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIGHQG   61 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTTCCS
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhccccc
Confidence            434577899999999999999999999763

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.84  E-value=0.011  Score=52.68  Aligned_cols=30  Identities=20%  Similarity=0.306  Sum_probs=23.9

Q ss_pred             eeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          390 MLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      |.|.||.|+|||++++.|+..+   |.++..+.
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            4456999999999999999977   56665554

>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=94.69  E-value=0.0078  Score=50.95  Aligned_cols=30  Identities=13%  Similarity=0.054  Sum_probs=24.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          390 MLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      +-+.|+||+|||+|+..|..++   |..+..+.
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik   36 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   36 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            4589999999999999999876   55565554

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.67  E-value=0.0073  Score=52.94  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      |+|+|.||||+|||+|...|...
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            58999999999999999999864

>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=94.65  E-value=0.0091  Score=51.65  Aligned_cols=27  Identities=22%  Similarity=0.132  Sum_probs=22.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      |-++|+||+|||++|+.|. ..|.+++.
T Consensus         6 IgitG~~gSGKstva~~l~-~~g~~~~~   32 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLR-SWGYPVLD   32 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHH-HTTCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEE
Confidence            3378999999999999994 67877654

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=94.62  E-value=0.0073  Score=58.59  Aligned_cols=20  Identities=40%  Similarity=0.639  Sum_probs=16.2

Q ss_pred             cceeeecCCCCChHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREI  407 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaL  407 (458)
                      +-++++||||||||++...+
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHH
Confidence            36788999999999877543

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.56  E-value=0.0099  Score=52.93  Aligned_cols=23  Identities=17%  Similarity=0.443  Sum_probs=20.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -|+|.||||+|||+|.+.|....
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            47789999999999999999875

>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=94.49  E-value=0.0089  Score=54.52  Aligned_cols=26  Identities=27%  Similarity=0.336  Sum_probs=21.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      |..-.+|+||||||||+|+..||..+
T Consensus        28 pg~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          28 AGTVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34467789999999999999888763

>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=94.30  E-value=0.011  Score=51.53  Aligned_cols=29  Identities=28%  Similarity=0.352  Sum_probs=23.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      .+++||.||||+|||++|-.|... |..++
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~-g~~lv   42 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR-GHRLI   42 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEE
Confidence            469999999999999999988865 55443

>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=94.28  E-value=0.01  Score=48.52  Aligned_cols=33  Identities=18%  Similarity=0.232  Sum_probs=27.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      ++..|+.+|+|+|||.++-.+....|...+.+.
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~   40 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLN   40 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHHHTTTCCEEEEE
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEc
Confidence            468899999999999998877777777766654

>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=94.05  E-value=0.013  Score=52.07  Aligned_cols=23  Identities=39%  Similarity=0.677  Sum_probs=20.5

Q ss_pred             eeeecCCCCChHHHHHHHHHHhC
Q 012671          390 MLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +++.||||+|||+|...|..+++
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Confidence            67899999999999999998764

>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=94.02  E-value=0.023  Score=49.37  Aligned_cols=31  Identities=16%  Similarity=0.270  Sum_probs=25.1

Q ss_pred             eeeecCCCCChHHHHHHHHHHh---Ccceeeecc
Q 012671          390 MLFYGPPGTGKTMVAREIARKS---EEMLHLLVH  420 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~~  420 (458)
                      |.|-|+.|+|||++++.|+..+   |.++..+..
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~~   36 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAF   36 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEec
Confidence            5678999999999999999876   666666543

>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=93.99  E-value=0.014  Score=54.40  Aligned_cols=22  Identities=36%  Similarity=0.477  Sum_probs=16.5

Q ss_pred             cceeeecCCCCChHHHH-HHHHH
Q 012671          388 RNMLFYGPPGTGKTMVA-REIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lA-kaLA~  409 (458)
                      .++|+.||||||||+++ ..++.
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~   47 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAY   47 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHH
Confidence            46899999999999854 33443

>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=93.94  E-value=0.013  Score=47.94  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -|+|.|+||+|||+|...|...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998864

>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=93.88  E-value=0.014  Score=48.31  Aligned_cols=23  Identities=26%  Similarity=0.443  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.|+||||||+|..++...-
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999987653

>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=93.71  E-value=0.024  Score=51.71  Aligned_cols=35  Identities=17%  Similarity=0.165  Sum_probs=26.2

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh----Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS----EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~----g~~~~~~~  419 (458)
                      .|..-+++.||||+|||+|+..++..+    |.++..++
T Consensus        33 ~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s   71 (277)
T d1cr2a_          33 RGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (277)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEee
Confidence            344567899999999999998888653    55665554

>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=93.61  E-value=0.018  Score=53.37  Aligned_cols=25  Identities=28%  Similarity=0.480  Sum_probs=21.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+-.+||||||||||+||-.++...
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~   78 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAA   78 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHH
Confidence            3467799999999999998888765

>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=93.60  E-value=0.014  Score=48.84  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=19.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|...|...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            5899999999999999998754

>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=93.59  E-value=0.026  Score=49.48  Aligned_cols=23  Identities=22%  Similarity=0.341  Sum_probs=20.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      =|.|-||+|+|||++++.|+..+
T Consensus         4 fIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36678999999999999999877

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=93.59  E-value=0.018  Score=49.96  Aligned_cols=27  Identities=26%  Similarity=0.354  Sum_probs=22.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ..++||.||||.|||++|-.|... |..
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~-g~~   41 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR-GHR   41 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCe
Confidence            469999999999999999887765 443

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=93.57  E-value=0.012  Score=47.14  Aligned_cols=19  Identities=26%  Similarity=0.118  Sum_probs=16.0

Q ss_pred             CcceeeecCCCCChHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAR  405 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAk  405 (458)
                      .+++++++|||+|||..+.
T Consensus         7 ~~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           7 GMTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             TCEEEECCCTTSSTTTTHH
T ss_pred             CCcEEEEcCCCCChhHHHH
Confidence            3689999999999997654

>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=93.56  E-value=0.014  Score=50.89  Aligned_cols=29  Identities=24%  Similarity=0.378  Sum_probs=23.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      ..++||.||||.|||.+|-.|... |..++
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~-G~~lv   43 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK-NHLFV   43 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT-TCEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCcee
Confidence            468999999999999999888754 55443

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.54  E-value=0.022  Score=50.22  Aligned_cols=31  Identities=26%  Similarity=0.238  Sum_probs=27.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~  419 (458)
                      +.++.+|+|+|||.++..++..++...+.++
T Consensus        87 ~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~  117 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAMAAINELSTPTLIVV  117 (206)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEE
T ss_pred             CcEEEeCCCCCceehHHhHHHHhcCceeEEE
Confidence            5678899999999999999999988877766

>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=93.52  E-value=0.043  Score=53.66  Aligned_cols=51  Identities=16%  Similarity=0.228  Sum_probs=35.3

Q ss_pred             CCCCccccCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       354 ~~~~~dvi~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      ...|+++...+.....+..+.         ..|..-|||.||+|+|||++..++-.++..
T Consensus       134 ~~~l~~LG~~~~~~~~l~~l~---------~~~~GliLvtGpTGSGKSTTl~~~l~~~~~  184 (401)
T d1p9ra_         134 RLDLHSLGMTAHNHDNFRRLI---------KRPHGIILVTGPTGSGKSTTLYAGLQELNS  184 (401)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHH---------TSSSEEEEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             chhhhhhcccHHHHHHHHHHH---------hhhhceEEEEcCCCCCccHHHHHHhhhhcC
Confidence            345777776666555554332         223336778999999999999999888754

>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=93.49  E-value=0.039  Score=52.20  Aligned_cols=25  Identities=20%  Similarity=0.191  Sum_probs=21.5

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      --|-+.||||+|||++|+.|...+.
T Consensus        81 ~iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          81 YIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCCCcHHHHHHHHHHh
Confidence            3455789999999999999999874

>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=93.47  E-value=0.018  Score=48.45  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.||||+|||+|...+...-
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            68899999999999999997644

>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=93.45  E-value=0.018  Score=48.92  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=19.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||||||.|...+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4889999999999999998754

>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=93.43  E-value=0.013  Score=52.00  Aligned_cols=25  Identities=32%  Similarity=0.417  Sum_probs=21.6

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+.|.||+|+|||+|.++|+..+
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            3467799999999999999999765

>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=93.42  E-value=0.015  Score=53.26  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=19.7

Q ss_pred             eeeecCCCCChHHHHHHHHHHh
Q 012671          390 MLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.|.||+|||||+|.++|+..+
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            4478999999999999999876

>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=93.25  E-value=0.079  Score=49.46  Aligned_cols=20  Identities=35%  Similarity=0.685  Sum_probs=17.6

Q ss_pred             eecCCCCChHHHHHHHHHHh
Q 012671          392 FYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       392 l~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.||||+|||+|+..|...+
T Consensus        32 i~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          32 FSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             EECCTTSSHHHHHHHHHHHH
T ss_pred             eECCCCCCHHHHHHHHHHHH
Confidence            68999999999999887665

>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=93.21  E-value=0.014  Score=50.53  Aligned_cols=28  Identities=21%  Similarity=0.360  Sum_probs=23.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      -|.+-|+.|+|||++++.|+.+++...+
T Consensus        11 ~I~ieG~~GsGKTTl~~~L~~~l~~~~~   38 (197)
T d2vp4a1          11 TVLIEGNIGSGKTTYLNHFEKYKNDICL   38 (197)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGGTTTEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            5668899999999999999999865443

>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=93.13  E-value=0.015  Score=48.83  Aligned_cols=22  Identities=23%  Similarity=0.463  Sum_probs=19.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|..+|...
T Consensus        15 kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6999999999999999998653

>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=93.02  E-value=0.025  Score=51.48  Aligned_cols=26  Identities=35%  Similarity=0.502  Sum_probs=22.1

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+-|.||+|||||+|.+.|+...
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34467789999999999999999765

>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=93.01  E-value=0.026  Score=49.78  Aligned_cols=27  Identities=26%  Similarity=0.243  Sum_probs=22.8

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      |-++|++|+|||++|+.+. .+|.+++.
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~vid   32 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINVID   32 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEEEE
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcEEE
Confidence            4479999999999999986 77887765

>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=92.92  E-value=0.021  Score=51.83  Aligned_cols=26  Identities=23%  Similarity=0.309  Sum_probs=22.0

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +...+-+.||+|||||+|.++|+...
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCC
Confidence            34567789999999999999999765

>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=92.90  E-value=0.024  Score=47.50  Aligned_cols=22  Identities=18%  Similarity=0.373  Sum_probs=19.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|...+...
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5889999999999999988864

>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=92.83  E-value=0.044  Score=48.61  Aligned_cols=33  Identities=27%  Similarity=0.234  Sum_probs=26.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCcceeeeccc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEEMLHLLVHR  421 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~~~~~~~~~  421 (458)
                      =|.|-|+-|+|||++++.|+..+...+..+...
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~~L~~~~~~~~~p   37 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYKKLQPNCKLLKFP   37 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTTSEEEEESS
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhCCEEEEEC
Confidence            466889999999999999999987666655543

>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=92.77  E-value=0.025  Score=48.44  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|...+...
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4889999999999999998753

>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=92.71  E-value=0.027  Score=47.26  Aligned_cols=23  Identities=17%  Similarity=0.440  Sum_probs=20.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.|+||+|||+|...+...-
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            58899999999999999998643

>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=92.65  E-value=0.028  Score=47.47  Aligned_cols=23  Identities=30%  Similarity=0.367  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.|+||+|||+|...+...-
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~~   29 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADDS   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            48899999999999999998653

>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=92.65  E-value=0.026  Score=51.50  Aligned_cols=27  Identities=37%  Similarity=0.482  Sum_probs=22.7

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..-+-|.||+|||||+|.++|+....
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            344677899999999999999998763

>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=92.60  E-value=0.029  Score=47.36  Aligned_cols=23  Identities=22%  Similarity=0.502  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|+||+|||.|...+....
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998754

>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=92.56  E-value=0.029  Score=51.27  Aligned_cols=25  Identities=40%  Similarity=0.516  Sum_probs=21.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+-|.||+|||||+|.++|+...
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            3467789999999999999999765

>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=92.55  E-value=0.021  Score=52.56  Aligned_cols=28  Identities=25%  Similarity=0.407  Sum_probs=23.6

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+...+.+.||+|||||+|++.|+....
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcccC
Confidence            4456788999999999999999997653

>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=92.54  E-value=0.033  Score=48.94  Aligned_cols=26  Identities=27%  Similarity=0.179  Sum_probs=22.3

Q ss_pred             eeecCCCCChHHHHHHHHHHhCcceee
Q 012671          391 LFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       391 Ll~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      -++|++|||||++|+.+. ..|.+++.
T Consensus         6 gITG~igSGKStv~~~l~-~~G~~vid   31 (205)
T d1jjva_           6 GLTGGIGSGKTTIANLFT-DLGVPLVD   31 (205)
T ss_dssp             EEECSTTSCHHHHHHHHH-TTTCCEEE
T ss_pred             EEECCCCCCHHHHHHHHH-HCCCeEEE
Confidence            379999999999999886 67887765

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=92.54  E-value=0.087  Score=47.67  Aligned_cols=54  Identities=26%  Similarity=0.245  Sum_probs=36.1

Q ss_pred             cCChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          361 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       361 i~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+.++....+..+.....     ...+.+.||+|.+|+|||.++-..+...   |...+.|.
T Consensus        55 ~lt~~Q~~~~~~i~~~~~-----~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~  111 (233)
T d2eyqa3          55 ETTPDQAQAINAVLSDMC-----QPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLV  111 (233)
T ss_dssp             CCCHHHHHHHHHHHHHHH-----SSSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEEC
T ss_pred             ccchhHHHHHHHHHHHHh-----ccCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEc
Confidence            344555556655544432     2234588999999999999887777654   77777765

>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=92.51  E-value=0.028  Score=47.49  Aligned_cols=22  Identities=27%  Similarity=0.597  Sum_probs=19.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|...+...
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999999864

>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=92.51  E-value=0.03  Score=47.05  Aligned_cols=22  Identities=23%  Similarity=0.490  Sum_probs=19.5

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||+|||+|...+...
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998864

>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=92.49  E-value=0.021  Score=52.19  Aligned_cols=25  Identities=20%  Similarity=0.200  Sum_probs=21.5

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+-|.||+|||||+|.++|+...
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            3466789999999999999999765

>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=92.37  E-value=0.041  Score=46.12  Aligned_cols=23  Identities=17%  Similarity=0.364  Sum_probs=20.6

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -.|+|.|+||+|||+|...|...
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            37999999999999999998764

>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=92.33  E-value=0.025  Score=52.85  Aligned_cols=28  Identities=25%  Similarity=0.238  Sum_probs=23.8

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+..-+.+.||+|+|||+|.+.|++.+.
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCCc
Confidence            4556788999999999999999998763

>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=92.27  E-value=0.032  Score=48.17  Aligned_cols=22  Identities=23%  Similarity=0.502  Sum_probs=20.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|..+|.+.
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7899999999999999999865

>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=92.23  E-value=0.033  Score=47.20  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=19.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||+|||+|...+...
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999998753

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=92.20  E-value=0.038  Score=47.64  Aligned_cols=22  Identities=45%  Similarity=0.590  Sum_probs=18.2

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      +|+|+++|+|+|||.++-.++.
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEeCCCCcHHHHHHHHHH
Confidence            3899999999999987666654

>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=92.19  E-value=0.019  Score=52.12  Aligned_cols=26  Identities=31%  Similarity=0.402  Sum_probs=22.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..-+.|.||+|||||+|.++|+....
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            34577899999999999999998763

>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=92.13  E-value=0.039  Score=49.21  Aligned_cols=28  Identities=18%  Similarity=0.176  Sum_probs=24.4

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCcceee
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEEMLHL  417 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~~~~~  417 (458)
                      |-|+|+.|||||++|..|+..+|..++.
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~i~   31 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVKYQ   31 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeEEc
Confidence            5689999999999999999988876654

>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=92.12  E-value=0.034  Score=46.93  Aligned_cols=22  Identities=18%  Similarity=0.425  Sum_probs=19.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|.||+|||+|...+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999998764

>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=92.12  E-value=0.036  Score=46.72  Aligned_cols=21  Identities=24%  Similarity=0.506  Sum_probs=18.8

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|++.|+||+|||+|...+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            378999999999999999875

>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=92.05  E-value=0.034  Score=46.63  Aligned_cols=23  Identities=17%  Similarity=0.475  Sum_probs=20.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|+||+|||+|...+....
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            48899999999999999998753

>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=92.01  E-value=0.027  Score=51.40  Aligned_cols=27  Identities=30%  Similarity=0.474  Sum_probs=23.1

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+..-+.+.||+|+|||+|.+.|+...
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            445578899999999999999999765

>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=91.99  E-value=0.029  Score=51.49  Aligned_cols=27  Identities=30%  Similarity=0.402  Sum_probs=23.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+...+.+.||+|+|||+|++.|.+..
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            455688899999999999999999765

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=91.98  E-value=0.036  Score=46.68  Aligned_cols=21  Identities=24%  Similarity=0.588  Sum_probs=19.0

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|++.|+||+|||+|..+|.+
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999974

>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=91.96  E-value=0.038  Score=46.37  Aligned_cols=23  Identities=17%  Similarity=0.303  Sum_probs=19.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.|.||||||.|...+...-
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988643

>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=91.82  E-value=0.04  Score=46.39  Aligned_cols=23  Identities=13%  Similarity=0.397  Sum_probs=20.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|+||+|||.|...+...-
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            57899999999999999998654

>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=91.80  E-value=0.038  Score=46.27  Aligned_cols=23  Identities=22%  Similarity=0.479  Sum_probs=19.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|+||+|||+|...+...-
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988643

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=91.78  E-value=0.049  Score=52.80  Aligned_cols=32  Identities=31%  Similarity=0.574  Sum_probs=24.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh---Ccceeee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS---EEMLHLL  418 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~  418 (458)
                      .+|++++|+||+|||.+.+.|...+   |..++++
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iii   84 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIV   84 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEE
Confidence            3699999999999999887666443   5555544

>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=91.75  E-value=0.041  Score=46.30  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||+|||.|...+...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999988764

>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=91.74  E-value=0.034  Score=46.81  Aligned_cols=22  Identities=27%  Similarity=0.551  Sum_probs=19.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||+|||+|...+...
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6999999999999999988653

>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=91.70  E-value=0.031  Score=50.98  Aligned_cols=28  Identities=21%  Similarity=0.218  Sum_probs=23.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+...+.+.||+|+|||+|++.|.+.+.
T Consensus        27 ~~Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          27 KQGEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3445788999999999999999998763

>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=91.66  E-value=0.04  Score=46.16  Aligned_cols=24  Identities=17%  Similarity=0.321  Sum_probs=20.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..|++.|++|+|||+|...+...-
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            368999999999999999987643

>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=91.65  E-value=0.041  Score=46.21  Aligned_cols=22  Identities=18%  Similarity=0.463  Sum_probs=19.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||+|||+|...+...
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988754

>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=91.64  E-value=0.043  Score=46.80  Aligned_cols=23  Identities=26%  Similarity=0.524  Sum_probs=19.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -|++.|.||||||+|...+.+.-
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999988643

>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=91.62  E-value=0.044  Score=45.63  Aligned_cols=22  Identities=18%  Similarity=0.371  Sum_probs=19.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|++|+|||.|...+...
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999999864

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=91.49  E-value=0.021  Score=48.11  Aligned_cols=24  Identities=17%  Similarity=0.198  Sum_probs=20.7

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCc
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .+|+||.|+|||++..||.-.++-
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~g   50 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALIP   50 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Confidence            457899999999999999987753

>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=91.48  E-value=0.039  Score=46.50  Aligned_cols=22  Identities=36%  Similarity=0.684  Sum_probs=19.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|...+...
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            4788999999999999988753

>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=91.45  E-value=0.043  Score=46.27  Aligned_cols=22  Identities=32%  Similarity=0.576  Sum_probs=19.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|...+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999998754

>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=91.42  E-value=0.027  Score=51.56  Aligned_cols=26  Identities=35%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHh
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..-+-+.||+|||||+|.++|+...
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            34577799999999999999999765

>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=91.38  E-value=0.044  Score=50.74  Aligned_cols=24  Identities=38%  Similarity=0.558  Sum_probs=20.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +-..||||||||||+||..++...
T Consensus        58 ~itei~G~~~sGKT~l~l~~~~~a   81 (268)
T d1xp8a1          58 RITEIYGPESGGKTTLALAIVAQA   81 (268)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEecCCccchHHHHHHHHHHH
Confidence            356699999999999998888765

>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=91.33  E-value=0.058  Score=47.86  Aligned_cols=30  Identities=17%  Similarity=0.192  Sum_probs=25.1

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCccee
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEMLH  416 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~~~  416 (458)
                      |+=|.|-|+-|+|||++++.|+.+++...+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            355778999999999999999999875443

>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=91.31  E-value=0.046  Score=46.23  Aligned_cols=23  Identities=17%  Similarity=0.387  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|.||+|||+|...+...-
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            59999999999999999888644

>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=91.24  E-value=0.047  Score=46.26  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|++|+|||+|...+...-
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            58899999999999999988754

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.23  E-value=0.051  Score=45.87  Aligned_cols=22  Identities=18%  Similarity=0.453  Sum_probs=19.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|...+...
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999888764

>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=91.18  E-value=0.051  Score=46.09  Aligned_cols=22  Identities=23%  Similarity=0.474  Sum_probs=19.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||+|||+|...+...
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998763

>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=91.13  E-value=0.06  Score=49.83  Aligned_cols=25  Identities=36%  Similarity=0.503  Sum_probs=20.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+-..||||||||||+||-.++...
T Consensus        60 g~i~e~~G~~~~GKT~l~l~~~~~~   84 (269)
T d1mo6a1          60 GRVIEIYGPESSGKTTVALHAVANA   84 (269)
T ss_dssp             SSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             ceeEEEecCCCcHHHHHHHHHHHHH
Confidence            3456799999999999997777655

>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=91.09  E-value=0.04  Score=50.75  Aligned_cols=25  Identities=24%  Similarity=0.247  Sum_probs=21.3

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHh
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..-+-+.||+|+|||+|+++|+...
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCc
Confidence            3467789999999999999998754

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.95  E-value=0.056  Score=45.30  Aligned_cols=23  Identities=17%  Similarity=0.434  Sum_probs=20.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|.+|+|||.|...+...-
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            48999999999999999988654

>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=90.89  E-value=0.054  Score=45.81  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=18.8

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|+|.|++|+|||.|...+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            488999999999999998874

>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=90.87  E-value=0.033  Score=47.04  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.7

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||+|||+|...+...
T Consensus        14 kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6999999999999999998743

>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=90.71  E-value=0.057  Score=44.94  Aligned_cols=22  Identities=23%  Similarity=0.453  Sum_probs=19.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|.+|+|||+|...+...
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999998753

>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=90.66  E-value=0.062  Score=44.96  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.|.||+|||+|...+...-
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            58899999999999999998644

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=90.63  E-value=0.051  Score=45.90  Aligned_cols=21  Identities=19%  Similarity=0.474  Sum_probs=19.2

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|+|+|+||+|||+|..+|.+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999975

>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=90.62  E-value=0.063  Score=45.22  Aligned_cols=22  Identities=23%  Similarity=0.471  Sum_probs=19.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|++|||||+|...+...
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5789999999999999998864

>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=90.62  E-value=0.057  Score=46.60  Aligned_cols=22  Identities=23%  Similarity=0.502  Sum_probs=19.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      -|++.|+||+|||+|...+...
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4889999999999999988754

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=90.60  E-value=0.046  Score=47.54  Aligned_cols=19  Identities=37%  Similarity=0.578  Sum_probs=16.4

Q ss_pred             CcceeeecCCCCChHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAR  405 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAk  405 (458)
                      .+++++.+|+|+|||..+.
T Consensus        40 ~~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          40 GKNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             CSCEEEECSSHHHHHHHHH
T ss_pred             CCCEEEEcCCCCchhHHHH
Confidence            3589999999999998763

>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=90.59  E-value=0.32  Score=45.81  Aligned_cols=31  Identities=19%  Similarity=0.315  Sum_probs=23.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      -|=+.||||+|||+|.-+|+..+   |..+..+.
T Consensus        53 ~igitG~pGaGKSTli~~l~~~~~~~g~~vaVia   86 (323)
T d2qm8a1          53 RVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLA   86 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeee
Confidence            45589999999999999999764   55555543

>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=90.51  E-value=0.064  Score=44.96  Aligned_cols=23  Identities=13%  Similarity=0.404  Sum_probs=19.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.|+||+|||.|...+...-
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            57899999999999999887643

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=90.50  E-value=0.18  Score=46.28  Aligned_cols=53  Identities=25%  Similarity=0.249  Sum_probs=35.2

Q ss_pred             CChHHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHH---hCcceeeec
Q 012671          362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK---SEEMLHLLV  419 (458)
Q Consensus       362 ~~~~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~---~g~~~~~~~  419 (458)
                      +.++-.+.+.++.....     ...+-+.||+|..|+|||.+|-..+..   .|...+.|.
T Consensus        84 LT~~Q~~ai~ei~~d~~-----~~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~  139 (264)
T d1gm5a3          84 LTNAQKRAHQEIRNDMI-----SEKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMV  139 (264)
T ss_dssp             CCHHHHHHHHHHHHHHH-----SSSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEEC
T ss_pred             CCchHHHHHHHHHHHhh-----ccCcceeeeeccccccccHHHHHHHHHHHhcccceeEEe
Confidence            33555556666544332     233458899999999999987766544   477777776

>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=90.25  E-value=0.058  Score=46.32  Aligned_cols=22  Identities=14%  Similarity=0.299  Sum_probs=19.7

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      ..|.|.|+||+|||+|..+|.+
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHhcC
Confidence            3689999999999999999974

>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=90.25  E-value=0.064  Score=45.15  Aligned_cols=24  Identities=17%  Similarity=0.418  Sum_probs=20.7

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      --|++.|+||+|||+|...+...-
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            368999999999999999987643

>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=90.20  E-value=0.063  Score=44.29  Aligned_cols=22  Identities=23%  Similarity=0.531  Sum_probs=19.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|+|.|+||+|||+|..+|...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999999743

>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=90.12  E-value=0.043  Score=46.67  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.4

Q ss_pred             cceeeecCCCCChHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~  409 (458)
                      -.|+|.|+||+|||+|...+..
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3799999999999999998753

>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=90.01  E-value=0.043  Score=46.39  Aligned_cols=21  Identities=33%  Similarity=0.558  Sum_probs=8.9

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|+|.|.||||||+|...+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999988875

>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=89.97  E-value=0.07  Score=45.48  Aligned_cols=23  Identities=22%  Similarity=0.385  Sum_probs=20.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|+|.|++|+|||.|...+...-
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            57899999999999999888753

>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=89.87  E-value=0.042  Score=48.54  Aligned_cols=25  Identities=16%  Similarity=0.274  Sum_probs=22.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +-|.|-||-|+|||++++.|+..+.
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4577899999999999999999884

>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=89.85  E-value=0.037  Score=50.93  Aligned_cols=28  Identities=25%  Similarity=0.325  Sum_probs=23.7

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .+...+.+.||+|+|||+|.+.|.+...
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~   69 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRFYD   69 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhcCC
Confidence            4556888999999999999999987653

>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=89.65  E-value=0.073  Score=49.74  Aligned_cols=31  Identities=13%  Similarity=0.126  Sum_probs=20.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC---cceeeec
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE---EMLHLLV  419 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g---~~~~~~~  419 (458)
                      -|-+.|++|+|||+++++|...++   .....+.
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~   39 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIE   39 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEe
Confidence            356899999999999999998774   3444444

>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=89.64  E-value=0.077  Score=45.54  Aligned_cols=23  Identities=17%  Similarity=0.232  Sum_probs=19.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|++|+|||+|...+...-
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999998887654

>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=89.63  E-value=0.083  Score=44.94  Aligned_cols=23  Identities=17%  Similarity=0.247  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|.||+|||+|...+...-
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            68999999999999999888654

>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=89.42  E-value=0.083  Score=49.39  Aligned_cols=28  Identities=32%  Similarity=0.395  Sum_probs=23.7

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCcc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      ...++++||+|||||+|+..|++....+
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            3479999999999999999999877543

>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=89.20  E-value=0.089  Score=44.94  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=20.4

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|++.|.+|+|||.|...+....
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            68899999999999999988654

>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=89.19  E-value=0.056  Score=45.63  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=18.0

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|++.|+||+|||+|...+...
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999887654

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.07  E-value=0.2  Score=43.64  Aligned_cols=47  Identities=26%  Similarity=0.155  Sum_probs=27.4

Q ss_pred             CCccccCChHHHHHHHHHHH-------HHHhhhhhcCCCcceeeecCCCCChHHHH
Q 012671          356 NNGDIILHPSLQRRIQHLAK-------ATANTKIHQAPFRNMLFYGPPGTGKTMVA  404 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~-------~~~~~~~~~~p~rnvLl~GPPGTGKT~lA  404 (458)
                      +|+++-+++.+.+.|...-.       ......  .-..+++++.+|+|+|||+..
T Consensus         2 sF~~l~L~~~l~~~L~~~g~~~pt~iQ~~aip~--il~g~dvi~~a~tGsGKTlay   55 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPV--AITGRDILARAKNGTGKTAAF   55 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHTTCCSCCHHHHHHHHH--HHHTCCEEEECCTTSCHHHHH
T ss_pred             ChHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHH--HHcCCCEEEecCCcchhhhhh
Confidence            56666677776666554310       000000  011369999999999999643

>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=89.01  E-value=0.079  Score=48.06  Aligned_cols=27  Identities=30%  Similarity=0.317  Sum_probs=22.3

Q ss_pred             CCcceeeecCCCCChHHHHHHHHHHhC
Q 012671          386 PFRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       386 p~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      +..-+-|.||+|+|||+|.++|+..+-
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            334566899999999999999998764

>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=88.97  E-value=0.084  Score=47.93  Aligned_cols=26  Identities=27%  Similarity=0.275  Sum_probs=21.9

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..-+-|.||+|+|||+|.++|+....
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            34666899999999999999997663

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.85  E-value=0.091  Score=46.76  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=18.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      +++++.+|+|+|||+++-..+..
T Consensus        59 ~~~~i~apTGsGKT~~~~~~~~~   81 (237)
T d1gkub1          59 ESFAATAPTGVGKTSFGLAMSLF   81 (237)
T ss_dssp             CCEECCCCBTSCSHHHHHHHHHH
T ss_pred             CCEEEEecCCChHHHHHHHHHHH
Confidence            69999999999999876655544

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=88.69  E-value=0.089  Score=44.44  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=19.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|.|.|+||+|||+|..+|.+.
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999999854

>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=88.48  E-value=0.21  Score=46.13  Aligned_cols=24  Identities=25%  Similarity=0.498  Sum_probs=21.4

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      ..++++|++|||||+|+.-++...
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~   92 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNV   92 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHH
Confidence            479999999999999999998773

>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=88.21  E-value=0.1  Score=47.76  Aligned_cols=26  Identities=27%  Similarity=0.346  Sum_probs=22.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhC
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..-+-|.||.|+|||+|.++|+....
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            34567899999999999999997763

>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=88.09  E-value=0.1  Score=46.90  Aligned_cols=24  Identities=25%  Similarity=0.394  Sum_probs=20.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ..-+-|.||+|+|||+|.++|+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            346678999999999999999874

>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=88.07  E-value=0.11  Score=44.25  Aligned_cols=20  Identities=20%  Similarity=0.521  Sum_probs=18.3

Q ss_pred             ceeeecCCCCChHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIA  408 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA  408 (458)
                      .|+|.|.+|+|||+|...+.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            58899999999999999994

>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=87.63  E-value=0.049  Score=44.97  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=19.8

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|.|.|+||+|||+|..+|.+.
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            4789999999999999999865

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.63  E-value=0.15  Score=48.40  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=20.2

Q ss_pred             eeecCCCCChHHHHHHHHHHhCcc
Q 012671          391 LFYGPPGTGKTMVAREIARKSEEM  414 (458)
Q Consensus       391 Ll~GPPGTGKT~lAkaLA~~~g~~  414 (458)
                      +++||.|+|||.+..||+-.+|..
T Consensus        29 ~i~G~NGsGKS~ileAi~~~lg~~   52 (427)
T d1w1wa_          29 SIIGPNGSGKSNMMDAISFVLGVR   52 (427)
T ss_dssp             EEECSTTSSHHHHHHHHHHHTTC-
T ss_pred             EEECCCCCCHHHHHHHHHHHhCCC
Confidence            689999999999999998766643

>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=87.62  E-value=0.092  Score=44.38  Aligned_cols=21  Identities=24%  Similarity=0.479  Sum_probs=19.3

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      +|.|.|+||+|||+|..+|.+
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            789999999999999999964

>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=87.60  E-value=0.23  Score=45.05  Aligned_cols=43  Identities=19%  Similarity=0.264  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHHHhhhhhcCCCcceeeecCCCCChHHHHHHHHHH
Q 012671          365 SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       365 ~l~~~l~~l~~~~~~~~~~~~p~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .....+.++.......   ....-+|+|+|.||+|||+|.-+|.+.
T Consensus        13 ~~~~~l~e~~~~l~~~---~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          13 ATQTKLLELLGNLKQE---DVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHHHHT---TCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHhhc---CCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            3444555555544332   122348999999999999999998753

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.57  E-value=0.22  Score=43.57  Aligned_cols=48  Identities=25%  Similarity=0.260  Sum_probs=27.1

Q ss_pred             CCccccCChHHHHHHHHHHHH--HHhhh---hhcCCCcceeeecCCCCChHHH
Q 012671          356 NNGDIILHPSLQRRIQHLAKA--TANTK---IHQAPFRNMLFYGPPGTGKTMV  403 (458)
Q Consensus       356 ~~~dvi~~~~l~~~l~~l~~~--~~~~~---~~~~p~rnvLl~GPPGTGKT~l  403 (458)
                      +|+|+-+++.+.+.|...-..  +....   ...-..+++++..|+|||||+.
T Consensus         2 ~F~dl~L~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvl~~A~TGsGKTla   54 (207)
T d1t6na_           2 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAV   54 (207)
T ss_dssp             CSTTSCCCHHHHHHHHHTTCCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHH
T ss_pred             CccccCcCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCeEEEeccccccccc
Confidence            566676777666655432100  00000   0001147999999999999973

>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=87.56  E-value=0.16  Score=45.92  Aligned_cols=35  Identities=23%  Similarity=0.270  Sum_probs=27.5

Q ss_pred             CCCcceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          385 APFRNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       385 ~p~rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      .+++-++|.|--|+|||+++.+||..+   |..+..+.
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD   43 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEe
Confidence            456788889999999999998888877   55555443

>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=87.53  E-value=0.11  Score=43.35  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|+|.|.||+|||+|..+|.+
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999999975

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.50  E-value=0.33  Score=42.87  Aligned_cols=53  Identities=25%  Similarity=0.217  Sum_probs=32.0

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHH--HHhhh---hhcCCCcceeeecCCCCChHHHH
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKA--TANTK---IHQAPFRNMLFYGPPGTGKTMVA  404 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~--~~~~~---~~~~p~rnvLl~GPPGTGKT~lA  404 (458)
                      +...+|+++-+++.+.+.+...-..  +....   ......++++...|+|||||+..
T Consensus         9 e~i~sF~~l~L~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlay   66 (218)
T d2g9na1           9 EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATF   66 (218)
T ss_dssp             CCCCCGGGSCCCHHHHHHHHHHTCCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHH
T ss_pred             CccCCHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhh
Confidence            3556788888888877766533110  00000   00012369999999999999843

>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=87.44  E-value=0.33  Score=45.85  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.3

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      -|=+.||||+|||+|.-+|+..+
T Consensus        56 ~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          56 RLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHH
Confidence            56689999999999999998775

>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=87.24  E-value=0.11  Score=44.11  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=18.8

Q ss_pred             ceeeecCCCCChHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIAR  409 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~  409 (458)
                      .|-|.|+||+|||+|..+|.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            688999999999999999853

>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=87.18  E-value=0.074  Score=44.48  Aligned_cols=21  Identities=19%  Similarity=0.370  Sum_probs=19.0

Q ss_pred             cceeeecCCCCChHHHHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAREIA  408 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA  408 (458)
                      ..|.|.|+|++|||+|..+|.
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~   37 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLT   37 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTC
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            379999999999999999884

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=87.12  E-value=0.13  Score=43.50  Aligned_cols=22  Identities=27%  Similarity=0.480  Sum_probs=19.6

Q ss_pred             ceeeecCCCCChHHHHHHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      .|.|.|+||+|||+|..+|.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            6889999999999999999753

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=86.72  E-value=0.1  Score=49.41  Aligned_cols=18  Identities=39%  Similarity=0.720  Sum_probs=15.3

Q ss_pred             cceeeecCCCCChHHHHH
Q 012671          388 RNMLFYGPPGTGKTMVAR  405 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAk  405 (458)
                      ...||+|.+|||||+|..
T Consensus        15 ~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             CEEEEEECTTSCHHHHTC
T ss_pred             CEEEEEccCCCCcccccc
Confidence            357999999999999764

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.47  E-value=0.47  Score=41.56  Aligned_cols=52  Identities=21%  Similarity=0.187  Sum_probs=32.1

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHHH--Hhhh---hhcCCCcceeeecCCCCChHHH
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKAT--ANTK---IHQAPFRNMLFYGPPGTGKTMV  403 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~~--~~~~---~~~~p~rnvLl~GPPGTGKT~l  403 (458)
                      +....|++.-+++.+.+.|...-...  ....   ...-..+++|+.+|+|||||+.
T Consensus         7 ~~~~sF~~l~l~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a   63 (212)
T d1qdea_           7 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGT   63 (212)
T ss_dssp             CCCCCGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             ccccChhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEeecccccchhhh
Confidence            34567888888888877765432100  0000   0001246999999999999983

>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=86.32  E-value=0.15  Score=44.94  Aligned_cols=23  Identities=17%  Similarity=0.444  Sum_probs=19.9

Q ss_pred             ceeeecCCCCChHHHHHHHHHHh
Q 012671          389 NMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .|||.|++|+|||+|.+.+...-
T Consensus         8 KilllG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999886443

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=86.10  E-value=0.12  Score=48.56  Aligned_cols=17  Identities=41%  Similarity=0.768  Sum_probs=14.8

Q ss_pred             ceeeecCCCCChHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAR  405 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAk  405 (458)
                      --||+|.+|||||+|..
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          16 VAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEEEECSTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            46899999999999773

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.10  E-value=0.14  Score=46.79  Aligned_cols=24  Identities=29%  Similarity=0.430  Sum_probs=20.2

Q ss_pred             eeeecCCCCChHHHHHHHHHHhCc
Q 012671          390 MLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       390 vLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      -+|+||.|+|||.+..||+-.+|.
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~lg~   50 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVFGE   50 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTSCC
T ss_pred             EEEECCCCCcHHHHHHHHHHHhCC
Confidence            368999999999999999766553

>d1bg2a_ c.37.1.9 (A:) Kinesin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.06  E-value=0.21  Score=46.86  Aligned_cols=17  Identities=29%  Similarity=0.554  Sum_probs=14.7

Q ss_pred             cceeeecCCCCChHHHH
Q 012671          388 RNMLFYGPPGTGKTMVA  404 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lA  404 (458)
                      ..|+-||++|+|||+..
T Consensus        77 ~~i~aYGqtgSGKTyT~   93 (323)
T d1bg2a_          77 GTIFAYGQTSSGKTHTM   93 (323)
T ss_dssp             EEEEEECSTTSSHHHHH
T ss_pred             cceeeecccCCCCceec
Confidence            37888999999999865

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.99  E-value=0.53  Score=41.64  Aligned_cols=49  Identities=22%  Similarity=0.190  Sum_probs=32.4

Q ss_pred             CCCCCCccccCChHHHHHHHHHHHH-------HHhhhhhcCCCcceeeecCCCCChHH
Q 012671          352 EAIKNNGDIILHPSLQRRIQHLAKA-------TANTKIHQAPFRNMLFYGPPGTGKTM  402 (458)
Q Consensus       352 ~~~~~~~dvi~~~~l~~~l~~l~~~-------~~~~~~~~~p~rnvLl~GPPGTGKT~  402 (458)
                      +...+|+++-+++.+.+.|...-..       .....  .-..++++...|+|||||+
T Consensus        14 ~~~~sF~~l~L~~~l~~~L~~~g~~~pt~IQ~~aIp~--il~g~dvi~~a~TGSGKTl   69 (222)
T d2j0sa1          14 DVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQ--IIKGRDVIAQSQSGTGKTA   69 (222)
T ss_dssp             CCCCSGGGGCCCHHHHHHHHHHTCCSCCHHHHHHHHH--HHTTCCEEEECCTTSSHHH
T ss_pred             CCCCCHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHH--HHCCCCeEEEcCcchhhhh
Confidence            3455799998888888877654210       00000  0124799999999999997

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.86  E-value=0.24  Score=43.24  Aligned_cols=16  Identities=38%  Similarity=0.418  Sum_probs=14.7

Q ss_pred             CcceeeecCCCCChHH
Q 012671          387 FRNMLFYGPPGTGKTM  402 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~  402 (458)
                      .+++++..|+|||||+
T Consensus        40 g~dvl~~a~TGsGKTl   55 (206)
T d1veca_          40 GRDILARAKNGTGKSG   55 (206)
T ss_dssp             TCCEEEECCSSSTTHH
T ss_pred             CCCEEeeccCcccccc
Confidence            3699999999999997

>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Neurospora crassa [TaxId: 5141]

Probab=85.75  E-value=0.22  Score=47.34  Aligned_cols=16  Identities=31%  Similarity=0.702  Sum_probs=14.0

Q ss_pred             ceeeecCCCCChHHHH
Q 012671          389 NMLFYGPPGTGKTMVA  404 (458)
Q Consensus       389 nvLl~GPPGTGKT~lA  404 (458)
                      .|+-||++|+|||+..
T Consensus        82 ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          82 TVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             EEEEECSTTSSHHHHH
T ss_pred             eEEecccCCCCcceee
Confidence            6888999999999864

>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=85.59  E-value=0.2  Score=42.43  Aligned_cols=24  Identities=17%  Similarity=0.223  Sum_probs=20.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      =.|++.|++|+|||.|...+...-
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            378999999999999999887654

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=84.61  E-value=0.93  Score=39.20  Aligned_cols=24  Identities=21%  Similarity=0.113  Sum_probs=18.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      .+++...|+|+|||+.+-....+.
T Consensus        43 ~d~iv~a~TGsGKT~~~~l~~~~~   66 (208)
T d1hv8a1          43 YNIVAQARTGSGKTASFAIPLIEL   66 (208)
T ss_dssp             SEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             CCeeeechhcccccceeecccccc
Confidence            389999999999999775555443

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.53  E-value=0.23  Score=41.85  Aligned_cols=24  Identities=17%  Similarity=0.365  Sum_probs=21.1

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhC
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      .|+|.|.+|+|||+|...+...-+
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~~   27 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIHG   27 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            589999999999999999976654

>d1sdma_ c.37.1.9 (A:) Kinesin heavy chain-like protein {Potato (Solanum tuberosum) [TaxId: 4113]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin heavy chain-like protein
species: Potato (Solanum tuberosum) [TaxId: 4113]

Probab=84.36  E-value=0.17  Score=48.58  Aligned_cols=17  Identities=35%  Similarity=0.665  Sum_probs=14.4

Q ss_pred             cceeeecCCCCChHHHH
Q 012671          388 RNMLFYGPPGTGKTMVA  404 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lA  404 (458)
                      ..|+-||++|+|||+..
T Consensus        76 ~~i~aYGqTGSGKTyTm   92 (364)
T d1sdma_          76 VCIFAYGQTGSGKTFTI   92 (364)
T ss_dssp             EEEEEECSTTSSHHHHH
T ss_pred             eeeeccccCCCCccccc
Confidence            37888999999999864

>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=84.34  E-value=0.24  Score=45.77  Aligned_cols=27  Identities=22%  Similarity=0.224  Sum_probs=24.4

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .|||-+.|..|+|||+|+-+|...+|.
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g~   32 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTGR   32 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHTS
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcCc
Confidence            579999999999999999999887763

>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=84.10  E-value=0.24  Score=42.35  Aligned_cols=31  Identities=13%  Similarity=0.153  Sum_probs=23.9

Q ss_pred             cceeeecC-CCCChHHHHHHHHHHh---Ccceeee
Q 012671          388 RNMLFYGP-PGTGKTMVAREIARKS---EEMLHLL  418 (458)
Q Consensus       388 rnvLl~GP-PGTGKT~lAkaLA~~~---g~~~~~~  418 (458)
                      +.+++.|- ||+|||+++-.||..+   |..+..+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~i   36 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGY   36 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEE
Confidence            46788888 6999999999998877   5555444

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=84.07  E-value=0.18  Score=47.65  Aligned_cols=17  Identities=41%  Similarity=0.763  Sum_probs=14.9

Q ss_pred             ceeeecCCCCChHHHHH
Q 012671          389 NMLFYGPPGTGKTMVAR  405 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAk  405 (458)
                      -.||+|-+|||||+|..
T Consensus        16 ~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          16 VTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             EEEEECCTTSSHHHHHC
T ss_pred             EEEEEccCCCCccccee
Confidence            46899999999999883

>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=84.01  E-value=0.25  Score=44.24  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.3

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +..+|.|+||+|||+|.-+|....
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CeEEEECCCCCCHHHHHHhhcchh
Confidence            467899999999999999996543

>d2ncda_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {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: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=83.90  E-value=0.18  Score=48.42  Aligned_cols=16  Identities=38%  Similarity=0.713  Sum_probs=14.0

Q ss_pred             ceeeecCCCCChHHHH
Q 012671          389 NMLFYGPPGTGKTMVA  404 (458)
Q Consensus       389 nvLl~GPPGTGKT~lA  404 (458)
                      .|+-||++|+|||+..
T Consensus       127 ti~aYGqtGSGKT~Tm  142 (368)
T d2ncda_         127 CIFAYGQTGSGKTYTM  142 (368)
T ss_dssp             EEEEECSTTSSHHHHH
T ss_pred             eEEeeccCCCccceEe
Confidence            7888999999999853

>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=83.89  E-value=0.26  Score=45.27  Aligned_cols=27  Identities=26%  Similarity=0.490  Sum_probs=23.8

Q ss_pred             CcceeeecCCCCChHHHHHHHHHHhCc
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      .|||-+.|+.|+|||+|+.+|-..+|.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~~g~   28 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYKTGA   28 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTTS
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHHcCC
Confidence            479999999999999999999776653

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=83.65  E-value=0.43  Score=41.11  Aligned_cols=17  Identities=35%  Similarity=0.370  Sum_probs=15.0

Q ss_pred             cceeeecCCCCChHHHH
Q 012671          388 RNMLFYGPPGTGKTMVA  404 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lA  404 (458)
                      +++++..|+|||||+..
T Consensus        39 ~dvii~a~TGSGKTlay   55 (209)
T d1q0ua_          39 ESMVGQSQTGTGKTHAY   55 (209)
T ss_dssp             CCEEEECCSSHHHHHHH
T ss_pred             CCeEeecccccccceee
Confidence            69999999999999843

>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=83.29  E-value=0.17  Score=47.11  Aligned_cols=24  Identities=29%  Similarity=0.267  Sum_probs=20.0

Q ss_pred             CcceeeecCCCCChHHHHHHHHHH
Q 012671          387 FRNMLFYGPPGTGKTMVAREIARK  410 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~lAkaLA~~  410 (458)
                      ...++++||+|+|||+++..++..
T Consensus        68 GQr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          68 GQRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEeecCCCCChHHHHHHHHHh
Confidence            347899999999999998877654

>d1f9va_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]

Probab=83.08  E-value=0.25  Score=46.69  Aligned_cols=17  Identities=35%  Similarity=0.667  Sum_probs=14.2

Q ss_pred             cceeeecCCCCChHHHH
Q 012671          388 RNMLFYGPPGTGKTMVA  404 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lA  404 (458)
                      ..|+-||++|+|||+..
T Consensus        84 ~~i~aYGqtgSGKT~T~  100 (342)
T d1f9va_          84 VCIFAYGQTGSGKTFTM  100 (342)
T ss_dssp             EEEEEECCTTSSHHHHH
T ss_pred             cceeeeeccCCcccccc
Confidence            36778999999999854

>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=83.07  E-value=0.28  Score=46.57  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=22.2

Q ss_pred             ceeeecCCCCChHHHHHHHHHHhCc
Q 012671          389 NMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       389 nvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      -|.|-|+-|+|||++++.|+..++.
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEEECCccCCHHHHHHHHHHHhcc
Confidence            5678899999999999999999854

>d1x88a1 c.37.1.9 (A:18-362) Kinesin {Human (Homo sapiens), mitotic kinesin eg5 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Human (Homo sapiens), mitotic kinesin eg5 [TaxId: 9606]

Probab=82.87  E-value=0.35  Score=45.67  Aligned_cols=16  Identities=44%  Similarity=0.818  Sum_probs=14.0

Q ss_pred             ceeeecCCCCChHHHH
Q 012671          389 NMLFYGPPGTGKTMVA  404 (458)
Q Consensus       389 nvLl~GPPGTGKT~lA  404 (458)
                      .|+-||++|+|||+..
T Consensus        83 ~i~aYGqtgSGKTyTm   98 (345)
T d1x88a1          83 TIFAYGQTGTGKTFTM   98 (345)
T ss_dssp             EEEEEECTTSSHHHHH
T ss_pred             eEEeeeeccccceEEe
Confidence            7888999999999764

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=81.94  E-value=0.29  Score=44.26  Aligned_cols=16  Identities=38%  Similarity=0.409  Sum_probs=14.4

Q ss_pred             CcceeeecCCCCChHH
Q 012671          387 FRNMLFYGPPGTGKTM  402 (458)
Q Consensus       387 ~rnvLl~GPPGTGKT~  402 (458)
                      .+++|+.+|+|+|||+
T Consensus         9 ~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           9 KRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             TCEEEECCCTTSSTTT
T ss_pred             CCcEEEEECCCCCHHH
Confidence            4689999999999996

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=81.93  E-value=0.31  Score=43.63  Aligned_cols=15  Identities=33%  Similarity=0.656  Sum_probs=14.4

Q ss_pred             cceeeecCCCCChHH
Q 012671          388 RNMLFYGPPGTGKTM  402 (458)
Q Consensus       388 rnvLl~GPPGTGKT~  402 (458)
                      +++++..|+|||||+
T Consensus        59 ~dvvi~a~TGsGKTl   73 (238)
T d1wrba1          59 RDIMACAQTGSGKTA   73 (238)
T ss_dssp             CCEEEECCTTSSHHH
T ss_pred             CCEEEECCCCCCcce
Confidence            699999999999998

>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=81.25  E-value=0.52  Score=42.13  Aligned_cols=32  Identities=19%  Similarity=0.421  Sum_probs=24.8

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh---Ccceeeec
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS---EEMLHLLV  419 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~---g~~~~~~~  419 (458)
                      |-|.++|-=|||||++|-.||..+   |..+..+.
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            456689999999999998888776   55655554

>d1v8ka_ c.37.1.9 (A:) Kinesin {Mouse (Mus musculus), kif2c [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Mouse (Mus musculus), kif2c [TaxId: 10090]

Probab=81.02  E-value=0.32  Score=46.45  Aligned_cols=16  Identities=38%  Similarity=0.667  Sum_probs=14.0

Q ss_pred             ceeeecCCCCChHHHH
Q 012671          389 NMLFYGPPGTGKTMVA  404 (458)
Q Consensus       389 nvLl~GPPGTGKT~lA  404 (458)
                      .|+-||.+|+|||+..
T Consensus       116 tifaYGqTGSGKTyTm  131 (362)
T d1v8ka_         116 TCFAYGQTGSGKTHTM  131 (362)
T ss_dssp             EEEEEESTTSSHHHHH
T ss_pred             eEEeeccCCCCCceee
Confidence            6778999999999874

>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=80.84  E-value=0.34  Score=44.68  Aligned_cols=25  Identities=32%  Similarity=0.396  Sum_probs=20.1

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhC
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSE  412 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g  412 (458)
                      ..++++||+|||||+|+..+.....
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~~   92 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQQ   92 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCC
T ss_pred             ceEeeccCCCCChHHHHHHHHhhhc
Confidence            4788999999999999977655443

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=80.40  E-value=0.36  Score=41.50  Aligned_cols=26  Identities=27%  Similarity=0.295  Sum_probs=19.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHhCc
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKSEE  413 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~g~  413 (458)
                      +|+|+.-|+|+|||+.+.......+.
T Consensus        41 ~~vlv~apTGsGKT~~~~~~~~~~~~   66 (206)
T d1oywa2          41 RDCLVVMPTGGGKSLCYQIPALLLNG   66 (206)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHSSS
T ss_pred             CCEEEEcCCCCCCcchhhhhhhhccC
Confidence            59999999999999987555444433

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.23  E-value=0.42  Score=42.82  Aligned_cols=24  Identities=29%  Similarity=0.415  Sum_probs=20.9

Q ss_pred             cceeeecCCCCChHHHHHHHHHHh
Q 012671          388 RNMLFYGPPGTGKTMVAREIARKS  411 (458)
Q Consensus       388 rnvLl~GPPGTGKT~lAkaLA~~~  411 (458)
                      +.++++||.+.|||++.|.+|...
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEeccCchhhHHHHHHHHHHH
Confidence            578899999999999999998543