Citrus Sinensis ID: 012305

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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-------460------
Protein Sequence
MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHccccccccccHHHHcccccccccccHHHHHHHHHHHHHHHHHccccccccEEEccccccHHHHHHHHHHHHcccEEEEEcccccccHHHHHHHHHHHHHHHHHccccEEEEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEccccccccHHHHHHHHHcHHHHHHHHcccccccHccccccEEccHHHHHHHHHHHHHHHHHHHccccccEEEEEcccccHHHHHHHHHHHHccccEEEEEccccccccHHHHHHHHHHHHHHHcccccEEEEEEHHHHHHHcccccc
Coil and Loop (DISEMBL)
MPASKLSSCLAVAAAVASLSTasnrafadapsrfsffssspqptssgndeaeqtadaqksrepeeprgsgfdpEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNrilgqpsliressigkfpwsglLSQAMNKVIRnktsagtagpveaiknngdiilhpSLQRRIQHLAKATAntkihqapfrnmlfygppgtgktMVAREIARKSGldyammtggdvaplgaQAVTKIHEIFDWAKKSKKGLLLFIDEAdaflcdnqdfi
Flexible Loop (DISEMBL)
MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTAdaqksrepeeprgsgfdpEALERAAKALRefnssrhareaFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQaraqglrnedELARKRlqtdheaqrrhntelvkmqeessirkeqarrsteeqiqaqqrltekeraeierETIRVKAmaeaegraheakltedhnrRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATAntkihqapfrnMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI
Low Complexity Region (SEG)
MPasklssclavaaavaslstasNRAFADApsrfsffssspqptssGNDEAEQTADAQKSREPEEPRGSGFDPealeraakalreFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI
Disordered region (IsUnstruct)
*********LAVAAAV***********************************************************************************************VEKVHYE***************************************************************************************************************************MLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDW**************************
Disordered Region (DISOPRED)
*********LAVAAAVASL*******************************************************ALERAAKALREFNSSRHAREAFDIM*********************************************************************************************************************IRV***************T*D**********************TTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVN*********************************************IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN****
Disordered Region (DISEMBL)
**********AVAAAVASLSTASNRAFADAPSRFSFF*********************************FDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHR****************EDELARKRLQTDHEAQRRHNTEL********************************RAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI
Disordered Region (DISPRO)
*********************************************************************GFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVE*IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSGNDEAEQTADAQKSREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERxxxxxxxxxxxxxxxxxxxxxGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQAxxxxxxxxxxxxxxxxxxxxxxxxxTIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI
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	466	2.2.26 [Sep-21-2011]
Q6NVR9	594	ATPase family AAA domain-	yes	no	0.751	0.589	0.386	2e-64
Q58E76	593	ATPase family AAA domain-	N/A	no	0.755	0.593	0.386	2e-64
Q6PAX2	593	ATPase family AAA domain-	N/A	no	0.787	0.618	0.385	4e-64
Q20748	595	ATPase family AAA domain-	yes	no	0.770	0.603	0.391	6e-64
A7YWC4	586	ATPase family AAA domain-	yes	no	0.787	0.626	0.388	5e-62
Q5T9A4	648	ATPase family AAA domain-	yes	no	0.787	0.566	0.393	4e-61
Q3KRE0	591	ATPase family AAA domain-	yes	no	0.856	0.675	0.363	2e-60
Q925I1	591	ATPase family AAA domain-	yes	no	0.785	0.619	0.383	2e-60
Q9NVI7	634	ATPase family AAA domain-	no	no	0.791	0.582	0.344	2e-53
Q5T2N8	411	ATPase family AAA domain-	no	no	0.442	0.501	0.409	3e-44

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

 Score =  246 bits (629), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 159/411 (38%), Positives = 233/411 (56%), Gaps = 61/411 (14%)

Query: 69  SGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVER 128
           S FDP  LERAAKA RE + SRHA+EA ++ + QE+T   E   +   YEA   Q+  E+
Sbjct: 44  SNFDPTGLERAAKAARELDQSRHAKEALNLAKVQEETLQLEQQSKIKEYEAAVEQLKNEQ 103

Query: 129 QRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSI 185
            R  AEE R  + ++    QARAQ    +D+LAR+R +     Q+  N E ++ QEES  
Sbjct: 104 IRVQAEERRKTLNEETKQHQARAQ---YQDKLARQRYEDQLRQQQLQNEENLRRQEESVQ 160

Query: 186 RKEQARRSTEE------------QIQAQQRL---TEKERAEIERETIRVKAMAEAEGRAH 230
           ++E  R++T E            +I+A+ R     E+E A+I RE IR+KA         
Sbjct: 161 KQEAMRKATVEHEMELRHKNEMLRIEAEARARAKVERENADIIRENIRLKAA-------- 212

Query: 231 EAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALA 290
                 +H            R+  L +I T  +   EG R+ ++D +K+  TV G + LA
Sbjct: 213 ------EH------------RQTVLESIKTAGTVFGEGFRAFISDWDKVTATVAGLSLLA 254

Query: 291 AGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQA--MNKVIRNKTSAGTA 348
            GIYT +    V   Y+   LG+PSL+R++S  +F  +  +     ++K + +K      
Sbjct: 255 VGIYTAKNATGVAGRYIEARLGKPSLVRDTS--RFTVAEAVKHPVKISKRLLSKIQDALE 312

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

Query: 409 RKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
             SG+DYA+MTGGDVAP+G + VT +H++FDWA  SK+GLLLF+DEADAFL
Sbjct: 363 MHSGMDYAIMTGGDVAPMGREGVTAMHKVFDWAGTSKRGLLLFVDEADAFL 413

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 =  246 bits (629), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 158/409 (38%), Positives = 229/409 (55%), Gaps = 57/409 (13%)

Query: 69  SGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVER 128
           S FDP  LERAAKA RE + SRHA+EA ++ + QE+T   E   +   YEA   Q+  E+
Sbjct: 44  SNFDPTGLERAAKAARELDQSRHAKEAINLAKVQEETLQMEQQAKIKEYEAAVEQLKNEQ 103

Query: 129 QRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSI 185
            R  AEE R  + ++    QARAQ    +D+LAR+R +     Q+  N E ++ QE+S  
Sbjct: 104 IRVQAEERRKTLNEETKQHQARAQ---YQDKLARQRYEDQLRQQQLQNEENLRRQEDSVQ 160

Query: 186 RKEQARRSTEE------------QIQAQQRL---TEKERAEIERETIRVKAMAEAEGRAH 230
           ++E  RR+T E            +I+A+ R     E+E A+I RE IR+KA         
Sbjct: 161 KQEAMRRATVEHEMELRHKNEMLRIEAEARAQAKVERENADIIREQIRLKAA-------- 212

Query: 231 EAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALA 290
                 +H            R+  L +I T  +   EG R+ ++D +K+  TV G T LA
Sbjct: 213 ------EH------------RQTVLESIKTAGTVFGEGFRTFISDWDKVTATVAGLTLLA 254

Query: 291 AGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGP 350
            G+YT +    V   Y+   LG+PSL+R++S      +      + K + +K      G 
Sbjct: 255 VGVYTAKNATGVAGRYIEARLGKPSLVRDTSRITVAEAVKHPIKITKRLYSKIQDALEG- 313

Query: 351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK 410
                    +IL P L+ R++ +A AT NTK ++  +RN+L YGPPGTGKT+ A+++A  
Sbjct: 314 ---------VILSPRLEERVRDIAIATRNTKANKGLYRNILMYGPPGTGKTLFAKKLAMH 364

Query: 411 SGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
           SG+DYA+MTGGDVAP+G + VT +H++FDWA  SK+GLLLF+DEADAFL
Sbjct: 365 SGMDYAIMTGGDVAPMGREGVTAMHKVFDWAGTSKRGLLLFVDEADAFL 413

Xenopus laevis (taxid: 8355)

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

 Score =  246 bits (627), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 152/394 (38%), Positives = 224/394 (56%), Gaps = 27/394 (6%)

Query: 69  SGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVER 128
           S FDP  LERAAKA RE + SRHA+EA ++ + QE+T   E   +   YEA   Q+  E+
Sbjct: 44  SNFDPTGLERAAKAARELDQSRHAKEALNLAKVQEETLQMEQQAKIKEYEAAVEQIKNEQ 103

Query: 129 QRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSI 185
            R  +EE R  + ++    QARAQ    +D+LAR+R +     Q+  N E ++ QEES  
Sbjct: 104 IRVQSEEKRKTLNEETKQHQARAQ---YQDKLARQRYEDQLRQQQLQNEENLRRQEESVQ 160

Query: 186 RKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIE 245
           ++E  R++T E              E+  +   ++  AEA  RA   +   D  R  +  
Sbjct: 161 KQEAMRKATVEH-----------EMELRHKNDMLRIEAEAHARAKVERENADIIREQIRL 209

Query: 246 RINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWG 305
           +    R+  L +I T  +   EG R+ ++D +K+  TV G T LA G+YT + G  V   
Sbjct: 210 KAAEHRQTVLESIKTAGTVFGEGFRTFISDWDKVTATVAGLTLLAVGVYTAKNGTGVAGR 269

Query: 306 YVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPS 365
           Y+   LG+PSL+R++S      +      ++K I +K      G          +IL P 
Sbjct: 270 YIEARLGKPSLVRDTSRITVVEAIKHPIKISKRIFSKIQDALEG----------VILSPR 319

Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425
           L+ R++ +A AT NTK ++  +RN+L YGPPGTGKT+ A+++A  S +DYA+MTGGDVAP
Sbjct: 320 LEERVRDIAIATRNTKANKGLYRNILMYGPPGTGKTLFAKKLAMHSSMDYAIMTGGDVAP 379

Query: 426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
           +G + VT +H++FDWA  SK+GLLLF+DEADAFL
Sbjct: 380 MGREGVTAMHKVFDWAGTSKRGLLLFVDEADAFL 413

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 =  245 bits (625), Expect = 6e-64,   Method: Compositional matrix adjust.
 Identities = 156/398 (39%), Positives = 228/398 (57%), Gaps = 39/398 (9%)

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+ + E    R +A A  + R     + KL E+ NR+ +IE+I
Sbjct: 167 RKQTIEHELALKHKYELEKIDAE---TRARAKAARDNRDVNLEQMKLHEEENRKTVIEKI 223

Query: 248 NGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYV 307
                       T+   I  G+   L D+ K+   VGG TALA G YT + G  VT  Y+
Sbjct: 224 K-----------TSGELIGSGLNQFLNDKTKIAAAVGGLTALAVGWYTAKRGTGVTARYI 272

Query: 308 NRILGQPSLIRESS------IGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDII 361
              LG+PSL+RE+S      + K P   +  Q M +  ++        P+     NG ++
Sbjct: 273 ESRLGKPSLVRETSRITPLEVLKHPIKSV--QMMTRQKKD--------PL-----NG-VV 316

Query: 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGG 421
           L P+L+RR++ +A  T+NTK +   FRN++FYGPPGTGKT+ A+ +A+ SGLDYA++TGG
Sbjct: 317 LPPALERRLRDIAITTSNTKRNNGLFRNVMFYGPPGTGKTLFAKSLAQHSGLDYAVLTGG 376

Query: 422 DVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
           D+APLG   V+ IH++FDWA KS+KGL++FIDEADAFL
Sbjct: 377 DIAPLGRDGVSAIHKVFDWASKSRKGLIVFIDEADAFL 414

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 =  239 bits (609), Expect = 5e-62,   Method: Compositional matrix adjust.
 Identities = 153/394 (38%), Positives = 227/394 (57%), Gaps = 27/394 (6%)

Query: 69  SGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVER 128
           S FDP  LERAAKA RE   SRHA+EA  + + QEQT   E   +   YEA   Q+  ++
Sbjct: 47  SNFDPTGLERAAKAARELEHSRHAKEALSLAQMQEQTLQLEHQAKLKEYEAAVEQLKGDQ 106

Query: 129 QRKLAEEHRNLVQQKA---QARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSI 185
            R  AEE R  + ++    QARAQ    +D+LAR+R +   + Q+  N E ++ QEES  
Sbjct: 107 IRVQAEERRKTLSEETRQHQARAQ---YQDKLARQRYEDQLKQQQLLNEENLRKQEESVQ 163

Query: 186 RKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIE 245
           ++E  RR+T E+    +   E  R E E           A+    + +L    +R+ ++E
Sbjct: 164 KQEALRRATVEREMELRHKNEMLRVEAEARARAKAERENADIIREQIRLKAAEHRQTILE 223

Query: 246 RINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWG 305
                      +I T  +   EG R+ +TD +K+  TV G T LA GIY+ +    V   
Sbjct: 224 -----------SIRTAGTLFGEGFRAFVTDWDKVTATVAGLTLLAVGIYSAKNATSVAGR 272

Query: 306 YVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPS 365
           Y+   LG+PSL+RE+S         + +A+   I+       + P +A++    ++L PS
Sbjct: 273 YIEARLGKPSLVRETS------RITVLEALRHPIQVSRRL-LSKPQDALEG---VVLSPS 322

Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425
           L+ R++ +A AT NTK +++ +RN+L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP
Sbjct: 323 LEARVRDIAIATRNTKKNKSLYRNVLMYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAP 382

Query: 426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
           +G   VT +H++FDWA  S++GLLLF+DEADAFL
Sbjct: 383 MGRDGVTAMHKVFDWASTSRRGLLLFVDEADAFL 416

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 =  236 bits (601), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 155/394 (39%), Positives = 234/394 (59%), Gaps = 27/394 (6%)

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------EMLRVET--EARARAKAERENADIIREQIRL 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 YVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPS 365
           ++   LG+PSL+RE+S         + +A+   I+       + P + ++    ++L PS
Sbjct: 274 FIEARLGKPSLVRETS------RITVLEALRHPIQVSRRL-LSRPQDVLEG---VVLSPS 323

Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425
           L+ R++ +A AT NTK ++  +R++L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP
Sbjct: 324 LEARVRDIAIATRNTKKNRGLYRHILLYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAP 383

Query: 426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
           +G + VT +H++FDWA  S++GLLLF+DEADAFL
Sbjct: 384 MGREGVTAMHKLFDWANTSRRGLLLFMDEADAFL 417

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 =  233 bits (595), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 161/443 (36%), Positives = 239/443 (53%), Gaps = 44/443 (9%)

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 TANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHE 436
           T NTK +++ +RN+L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP+G + VT +H+
Sbjct: 334 TRNTKKNKSLYRNVLMYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGREGVTAMHK 393

Query: 437 IFDWAKKSKKGLLLFIDEADAFL 459
           +FDWA  S++GLLLF+DEADAFL
Sbjct: 394 VFDWASTSRRGLLLFVDEADAFL 416

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 =  233 bits (594), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 153/399 (38%), Positives = 230/399 (57%), Gaps = 33/399 (8%)

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 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG 420
           IL PSL+ R++ +A AT NTK +++ +RN+L YGPPGTGKT+ A+++A  SG+DYA+MTG
Sbjct: 318 ILSPSLEARVRDIAIATRNTKKNKSLYRNVLMYGPPGTGKTLFAKKLALHSGMDYAIMTG 377

Query: 421 GDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
           GDVAP+G + VT +H++FDWA  S++GLLLF+DEADAFL
Sbjct: 378 GDVAPMGREGVTAMHKVFDWASTSRRGLLLFVDEADAFL 416

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 =  210 bits (535), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 153/444 (34%), Positives = 233/444 (52%), Gaps = 75/444 (16%)

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 LIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAK 375
           L+RE+S         + +A+   I+       + P +A++    ++L PSL+ R++ +A 
Sbjct: 332 LVRETS------RITVLEALRHPIQVSRRL-LSRPQDALEG---VVLSPSLEARVRDIAI 381

Query: 376 ATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIH 435
           AT NTK +++ +RN+L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP+G + VT +H
Sbjct: 382 ATRNTKKNRSLYRNILMYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGREGVTAMH 441

Query: 436 EIFDWAKKSKKGLLLFIDEADAFL 459
           ++FDWA  S++GLLLF+DEADAFL
Sbjct: 442 KLFDWANTSRRGLLLFVDEADAFL 465

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 =  179 bits (455), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 88/215 (40%), Positives = 138/215 (64%), Gaps = 9/215 (4%)

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 SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA 424
           SL+ R++ +A  T N K ++  +R++L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVA
Sbjct: 148 SLEARVRDIAIMTRNIKKNRGLYRHILLYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVA 207

Query: 425 PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
           P+G + VT +H++FDWA  S++GLLLF+DEADAFL
Sbjct: 208 PMGREGVTAMHKLFDWANTSRRGLLLFVDEADAFL 242

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	466
225430736	627	PREDICTED: ATPase family AAA domain-cont	0.978	0.727	0.779	0.0
297735144	649	unnamed protein product [Vitis vinifera]	0.978	0.702	0.779	0.0
224097014	633	predicted protein [Populus trichocarpa]	0.987	0.726	0.762	0.0
356538198	631	PREDICTED: ATPase family AAA domain-cont	0.982	0.725	0.745	0.0
255561118	626	Protein MSP1, putative [Ricinus communis	0.976	0.726	0.764	0.0
356495406	626	PREDICTED: ATPase family AAA domain-cont	0.984	0.733	0.735	0.0
449451537	626	PREDICTED: ATPase family AAA domain-cont	0.976	0.726	0.749	0.0
18398708	636	AAA-type ATPase-like protein [Arabidopsi	0.969	0.710	0.732	0.0
334187222	632	AAA-type ATPase family protein [Arabidop	0.978	0.721	0.713	0.0
297832492	633	AAA-type ATPase family protein [Arabidop	0.978	0.720	0.731	0.0

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

 Score =  689 bits (1778), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 361/463 (77%), Positives = 402/463 (86%), Gaps = 7/463 (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 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
           +IILHPSLQRRI+HLA+AT+NTK HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM
Sbjct: 356 NIILHPSLQRRIEHLARATSNTKSHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 415

Query: 419 TGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           TGGDVAPLGAQAVTKIH+IFDWAKKS KGLLLFIDEADAFLC+
Sbjct: 416 TGGDVAPLGAQAVTKIHQIFDWAKKSNKGLLLFIDEADAFLCE 458

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  688 bits (1776), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 361/463 (77%), Positives = 402/463 (86%), Gaps = 7/463 (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 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
           +IILHPSLQRRI+HLA+AT+NTK HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM
Sbjct: 378 NIILHPSLQRRIEHLARATSNTKSHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 437

Query: 419 TGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           TGGDVAPLGAQAVTKIH+IFDWAKKS KGLLLFIDEADAFLC+
Sbjct: 438 TGGDVAPLGAQAVTKIHQIFDWAKKSNKGLLLFIDEADAFLCE 480

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 =  686 bits (1771), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 353/463 (76%), Positives = 400/463 (86%), Gaps = 3/463 (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 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
           +IILHPSL RRI+HLA+ATANTK HQAPFRNM+FYGPPGTGKTMVAREIARKSGLDYAMM
Sbjct: 360 NIILHPSLHRRIEHLARATANTKTHQAPFRNMMFYGPPGTGKTMVAREIARKSGLDYAMM 419

Query: 419 TGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           TGGDVAPLGA+AVTKIHEIFDWAKKSKKGLLLFIDEADAFL +
Sbjct: 420 TGGDVAPLGAEAVTKIHEIFDWAKKSKKGLLLFIDEADAFLSE 462

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 =  685 bits (1768), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 346/464 (74%), Positives = 404/464 (87%), Gaps = 6/464 (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  KSREPEEPRGSG-FDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHY 117
           +   P+EP  SG FDPE+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 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM 417
           G++ILHPSLQRRI+HLA+AT+NTK HQAPFRNMLFYGPPGTGKTMVA+E+AR+SGL YAM
Sbjct: 358 GNVILHPSLQRRIEHLARATSNTKSHQAPFRNMLFYGPPGTGKTMVAKELARRSGLHYAM 417

Query: 418 MTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           MTGGDVAPLGAQAVTKIH+IFDWAKKS+KGLLLFIDEADAFLC+
Sbjct: 418 MTGGDVAPLGAQAVTKIHDIFDWAKKSRKGLLLFIDEADAFLCE 461

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 =  674 bits (1740), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 354/463 (76%), Positives = 402/463 (86%), Gaps = 8/463 (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 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
           +IILHPSLQ+RI+HLA+ATANTK HQAPFRNM+FYGPPGTGKTMVAREIARKSGLDYAMM
Sbjct: 355 NIILHPSLQKRIEHLARATANTKTHQAPFRNMMFYGPPGTGKTMVAREIARKSGLDYAMM 414

Query: 419 TGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           TGGDVAPLGAQAVTKIH+IFDWAKKS+KGLLLFIDEADAFL +
Sbjct: 415 TGGDVAPLGAQAVTKIHQIFDWAKKSRKGLLLFIDEADAFLSE 457

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 =  672 bits (1733), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 340/462 (73%), Positives = 398/462 (86%), Gaps = 3/462 (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 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT 419
           +ILHPSLQRRI+HLA+AT+NTK HQAPFRNMLFYG PGTGKTMVAREIAR+SGLDYAMMT
Sbjct: 359 VILHPSLQRRIEHLARATSNTKSHQAPFRNMLFYGSPGTGKTMVAREIARRSGLDYAMMT 418

Query: 420 GGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           GGDVAPLGAQAVTKIH+IFDW+KKS+KGLLLFIDEADAFLC+
Sbjct: 419 GGDVAPLGAQAVTKIHDIFDWSKKSRKGLLLFIDEADAFLCE 460

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 =  667 bits (1721), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/463 (74%), Positives = 394/463 (85%), Gaps = 8/463 (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 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
           +I+LHPSL+RRI+ LA+ATANTK H+APFRNMLFYGPPGTGKTMVA+EIARKSGLDYAMM
Sbjct: 355 NIVLHPSLKRRIEQLARATANTKAHEAPFRNMLFYGPPGTGKTMVAKEIARKSGLDYAMM 414

Query: 419 TGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           TGGDVAPLG QAVTKIH+IFDWAK S+KGLLLFIDEADAFLC+
Sbjct: 415 TGGDVAPLGPQAVTKIHQIFDWAKNSRKGLLLFIDEADAFLCE 457

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 =  661 bits (1705), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 343/468 (73%), Positives = 396/468 (84%), Gaps = 16/468 (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 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL 413
           ++N   +ILH SL+ RI+ LA+ATANTK H+APFRNM+FYGPPGTGKTMVAREIARKSGL
Sbjct: 355 LEN---VILHRSLKTRIERLARATANTKSHKAPFRNMMFYGPPGTGKTMVAREIARKSGL 411

Query: 414 DYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           DYAMMTGGDVAPLGAQAVTKIHEIFDWAKKS KGLLLFIDEADAFLC+
Sbjct: 412 DYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSNKGLLLFIDEADAFLCE 459

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 =  650 bits (1676), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 329/461 (71%), Positives = 383/461 (83%), Gaps = 5/461 (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 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG 420
           ILH SL++RI+ LA+ATANTK HQAPFRNM+FYGPPGTGKTMVAREIARKSGLDYAMMTG
Sbjct: 356 ILHTSLKKRIERLARATANTKSHQAPFRNMMFYGPPGTGKTMVAREIARKSGLDYAMMTG 415

Query: 421 GDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           GDVAPLG+QAVTKIH+IFDWAKKS KGLLLFIDEADAFLC+
Sbjct: 416 GDVAPLGSQAVTKIHQIFDWAKKSNKGLLLFIDEADAFLCE 456

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 =  645 bits (1663), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/461 (73%), Positives = 396/461 (85%), Gaps = 5/461 (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 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG 420
           ILH SL+ RI+ LA+ATANTK H+APFRNM+FYGPPGTGKT+VAREIARKSGLDYAMMTG
Sbjct: 356 ILHRSLKTRIERLARATANTKSHKAPFRNMMFYGPPGTGKTLVAREIARKSGLDYAMMTG 415

Query: 421 GDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD 461
           GDVAPLGAQAVTKIHEIFDWAKKS KGLLLFIDEADAFLC+
Sbjct: 416 GDVAPLGAQAVTKIHEIFDWAKKSNKGLLLFIDEADAFLCE 456

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	466
TAIR|locus:2062170	636	AT2G18330 [Arabidopsis thalian	0.933	0.683	0.708	2.5e-161
TAIR|locus:2097690	628	AT3G03060 [Arabidopsis thalian	0.875	0.649	0.614	3.3e-134
TAIR|locus:2148206	644	AT5G16930 [Arabidopsis thalian	0.884	0.639	0.615	4.2e-134
WB|WBGene00010015	595	atad-3 [Caenorhabditis elegans	0.744	0.583	0.362	3.5e-52
UNIPROTKB|Q5T9A4	648	ATAD3B "ATPase family AAA doma	0.740	0.532	0.354	4.4e-52
MGI|MGI:1919214	591	Atad3a "ATPase family, AAA dom	0.740	0.583	0.359	5.6e-52
RGD|1305964	591	Atad3a "ATPase family, AAA dom	0.736	0.580	0.357	7.2e-52
UNIPROTKB|Q3KRE0	591	Atad3 "ATPase family AAA domai	0.736	0.580	0.357	7.2e-52
UNIPROTKB|F1RJE4	593	LOC100525876 "Uncharacterized	0.740	0.581	0.359	9.2e-52
ZFIN|ZDB-GENE-040426-1826	621	atad3b "ATPase family, AAA dom	0.738	0.553	0.347	1.9e-51

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

 Score = 1571 (558.1 bits), Expect = 2.5e-161, P = 2.5e-161
 Identities = 311/439 (70%), Positives = 359/439 (81%)

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 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAK 442
             H+APFRNM+FYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAK
Sbjct:   381 HKAPFRNMMFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAK 440

Query:   443 KSKKGLLLFIDEADAFLCD 461
             KS KGLLLFIDEADAFLC+
Sbjct:   441 KSNKGLLLFIDEADAFLCE 459

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:2097690 AT3G03060 [Arabidopsis thaliana (taxid:3702)]

 Score = 1315 (468.0 bits), Expect = 3.3e-134, P = 3.3e-134
 Identities = 257/418 (61%), Positives = 328/418 (78%)

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 KSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD-NQDFI 466
             KSGLDYA+MTGGDVAPLGAQAVTKIHE+FDW KKSK+GLLLFIDEADAFLC+ N+ ++
Sbjct:   409 KSGLDYALMTGGDVAPLGAQAVTKIHELFDWGKKSKRGLLLFIDEADAFLCERNKTYM 466

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

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

 Score = 1314 (467.6 bits), Expect = 4.2e-134, P = 4.2e-134
 Identities = 258/419 (61%), Positives = 327/419 (78%)

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 RKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD-NQDFI 466
             R+SGLDYA+MTGGDVAPLGAQAVTKIH++FDW+KKSK+GLLLFIDEADAFLC+ N+ ++
Sbjct:   420 RRSGLDYALMTGGDVAPLGAQAVTKIHQLFDWSKKSKRGLLLFIDEADAFLCERNKTYM 478

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

WB|WBGene00010015 atad-3 [Caenorhabditis elegans (taxid:6239)]

 Score = 541 (195.5 bits), Expect = 3.5e-52, P = 3.5e-52
 Identities = 135/372 (36%), Positives = 213/372 (57%)

Query:   103 EQTRLAELDVEKVHY--EAIQ-SQV-DVERQRKLAEEHRNLVQQKAQARAQGLRNEDELA 158
             E+   A  D+EK     EA++ S++ +V RQ+++  E + +  Q A  +++ +R  +E  
Sbjct:    53 ERAAKAARDLEKFPNAKEALELSRMQEVTRQKEVENETKKIEAQLANMKSEHIRVAEEER 112

Query:   159 RKRL--QTDHEAQR-RHNTELVKM--QEESSIR---KEQARRSTEEQIQAQQRL---TEK 207
             RK L  +T H   R  +  +L +   +EE +++   +E++ R  EE ++ Q++L   T +
Sbjct:   113 RKTLGEETKHAHSRAEYQDQLARKRAEEELAMKARMQEESLRKQEESVKKQEQLRKQTIE 172

Query:   208 ERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEE 267
                 ++ +    K  AE   RA  A+   D N   +       R+  +  I T+   I  
Sbjct:   173 HELALKHKYELEKIDAETRARAKAARDNRDVNLEQMKLHEEENRKTVIEKIKTSGELIGS 232

Query:   268 GVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPW 327
             G+   L D+ K+   VGG TALA G YT + G  VT  Y+   LG+PSL+RE+S  +   
Sbjct:   233 GLNQFLNDKTKIAAAVGGLTALAVGWYTAKRGTGVTARYIESRLGKPSLVRETS--RITP 290

Query:   328 SGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF 387
               +L   +  V     +     P+     NG ++L P+L+RR++ +A  T+NTK +   F
Sbjct:   291 LEVLKHPIKSV--QMMTRQKKDPL-----NG-VVLPPALERRLRDIAITTSNTKRNNGLF 342

Query:   388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKG 447
             RN++FYGPPGTGKT+ A+ +A+ SGLDYA++TGGD+APLG   V+ IH++FDWA KS+KG
Sbjct:   343 RNVMFYGPPGTGKTLFAKSLAQHSGLDYAVLTGGDIAPLGRDGVSAIHKVFDWASKSRKG 402

Query:   448 LLLFIDEADAFL 459
             L++FIDEADAFL
Sbjct:   403 LIVFIDEADAFL 414

GO:0000166 "nucleotide binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0051301 "cell division" evidence=IMP

GO:0000910 "cytokinesis" evidence=IMP

GO:0035046 "pronuclear migration" evidence=IMP

GO:0018996 "molting cycle, collagen and cuticulin-based cuticle" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

GO:0006915 "apoptotic process" evidence=IMP

GO:0007005 "mitochondrion organization" evidence=IMP

GO:0005739 "mitochondrion" evidence=IDA

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

 Score = 540 (195.1 bits), Expect = 4.4e-52, P = 4.4e-52
 Identities = 131/370 (35%), Positives = 212/370 (57%)

Query:   100 RKQEQTRLAELDVEKVHYEAIQSQ-VDVERQRKLAEEHRNLVQQKA-QARAQGLRNEDEL 157
             R+ E +R A+   E ++   +Q Q + +E+Q KL E    + Q K+ Q RAQ       L
Sbjct:    63 RELEHSRYAK---EALNLAQMQEQTLQLEQQSKLKEYEAAVEQLKSEQIRAQAEERRKTL 119

Query:   158 ARKRLQTDHEAQRRHNTELVKMQEESSIRKEQAR-----RSTEEQIQAQQ---RLTEKER 209
             + +  Q  H+A+ ++  +L + + E  ++++Q       R  EE +Q Q+   R T +  
Sbjct:   120 SEETRQ--HQARAQYQDKLARQRYEDQLKQQQLLNEENLRKQEESVQKQEAMRRATVERE 177

Query:   210 AEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGV 269
              E+  +   ++   EA  RA   +   D  R  +  + +  R+  L +I T  +   EG 
Sbjct:   178 MELRHKNEMLRVETEARARAKAERENADIIREQIRLKASEHRQTVLESIRTAGTLFGEGF 237

Query:   270 RSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSG 329
             R+ +TDR+K+  TV G T LA G+Y+ +    VT  ++   LG+PSL+RE+S  +     
Sbjct:   238 RAFVTDRDKVTATVAGLTLLAVGVYSAKNATAVTGRFIEARLGKPSLVRETS--RITVLE 295

Query:   330 LLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRN 389
              L   + +V R   S     P + ++    ++L PSL+ R++ +A AT NTK ++  +R+
Sbjct:   296 ALRHPI-QVSRRLLSR----PQDVLEG---VVLSPSLEARVRDIAIATRNTKKNRGLYRH 347

Query:   390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLL 449
             +L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP+G + VT +H++FDWA  S++GLL
Sbjct:   348 ILLYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGREGVTAMHKLFDWANTSRRGLL 407

Query:   450 LFIDEADAFL 459
             LF+DEADAFL
Sbjct:   408 LFMDEADAFL 417

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

GO:0005524 "ATP binding" evidence=IEA

GO:0005743 "mitochondrial inner membrane" evidence=IEA

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

 Score = 539 (194.8 bits), Expect = 5.6e-52, P = 5.6e-52
 Identities = 133/370 (35%), Positives = 210/370 (56%)

Query:   100 RKQEQTRLAELDVEKVHYEAIQSQ-VDVERQRKLAEEHRNLVQQKA-QARAQGLRNEDEL 157
             R+ E +R A+   E +    +Q Q + +E+Q KL E    + Q K+ Q R Q       L
Sbjct:    62 RELEHSRHAK---EALSLAQMQEQTLQLEQQSKLKEYEAAVEQLKSEQIRVQAEERRKTL 118

Query:   158 ARKRLQTDHEAQRRHNTELVKMQEESSIRKEQAR-----RSTEEQIQAQQ---RLTEKER 209
               +  Q  H+A+ ++  +L + + E  ++++Q       R  EE +Q Q+   R T +  
Sbjct:   119 TEETRQ--HQARAQYQDKLARQRYEDQLKQQQLLNEENLRKQEESVQKQEAIRRATVERE 176

Query:   210 AEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGV 269
              E+  +   ++  AEA  RA   +   D  R  +  +    R+  L +I T  + + EG 
Sbjct:   177 MELRHKNEMLRVEAEARARAKADRENADIIREQIRLKAAEHRQTILESIRTAGTLLGEGF 236

Query:   270 RSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSG 329
             R+ +TD +K+  TV G T LA G+Y+ +    V   Y+   LG+PSL+RE+S  +     
Sbjct:   237 RAFVTDWDKVTATVAGLTLLAVGVYSAKNATSVAGRYIEARLGKPSLVRETS--RISVLE 294

Query:   330 LLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRN 389
              L   + +V R   S     P +A++    +IL PSL+ R++ +A AT NTK +++ +RN
Sbjct:   295 ALRHPI-QVSRRLVSR----PQDALEG---VILSPSLEARVRDIAIATRNTKKNKSLYRN 346

Query:   390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLL 449
             +L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP+G + VT +H++FDWA  S++GLL
Sbjct:   347 VLMYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGREGVTAMHKVFDWASTSRRGLL 406

Query:   450 LFIDEADAFL 459
             LF+DEADAFL
Sbjct:   407 LFVDEADAFL 416

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

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

 Score = 538 (194.4 bits), Expect = 7.2e-52, P = 7.2e-52
 Identities = 133/372 (35%), Positives = 216/372 (58%)

Query:   100 RKQEQTRLAELDVEKVHYEAIQSQ-VDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELA 158
             R+ E +R A+   E ++   +Q Q + +E+Q KL +E+   V+Q    +++ +R + E  
Sbjct:    62 RELEHSRHAK---EALNLAQMQEQTLQLEQQSKL-KEYEAAVEQ---LKSEQIRVQAEER 114

Query:   159 RKRLQTD---HEAQRRHNTELVKMQEESSIRKEQAR-----RSTEEQIQAQQ---RLTEK 207
             RK L  +   H+A+ ++  +L + + E  ++++Q       R  EE +Q Q+   R T +
Sbjct:   115 RKTLNEETRQHQARAQYQDKLARQRYEDQLKQQQLLNEENLRKQEESVQKQEAIRRATVE 174

Query:   208 ERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEE 267
                E+  +   ++  AEA  RA   +   D  R  +  +    R+  L +I T  +   E
Sbjct:   175 REMELRHKNEMLRVEAEARARAKADRENADIIREQIRLKAAEHRQTILESIRTAGTLFGE 234

Query:   268 GVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPW 327
             G R+ +TD +K+  TV G T LA G+Y+ +    V   Y+   LG+PSL+RE+S  +   
Sbjct:   235 GFRAFVTDWDKVTATVAGLTLLAVGVYSAKNATSVAGRYIEARLGKPSLVRETS--RISV 292

Query:   328 SGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF 387
                L   + +V R   S     P +A++    +IL PSL+ R++ +A AT NTK +++ +
Sbjct:   293 LEALRHPI-QVSRRLVSR----PQDALEG---VILSPSLEARVRDIAIATRNTKKNKSLY 344

Query:   388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKG 447
             RN+L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP+G + VT +H++FDWA  S++G
Sbjct:   345 RNVLMYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGREGVTAMHKVFDWASTSRRG 404

Query:   448 LLLFIDEADAFL 459
             LLLF+DEADAFL
Sbjct:   405 LLLFVDEADAFL 416

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 = 538 (194.4 bits), Expect = 7.2e-52, P = 7.2e-52
 Identities = 133/372 (35%), Positives = 216/372 (58%)

Query:   100 RKQEQTRLAELDVEKVHYEAIQSQ-VDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELA 158
             R+ E +R A+   E ++   +Q Q + +E+Q KL +E+   V+Q    +++ +R + E  
Sbjct:    62 RELEHSRHAK---EALNLAQMQEQTLQLEQQSKL-KEYEAAVEQ---LKSEQIRVQAEER 114

Query:   159 RKRLQTD---HEAQRRHNTELVKMQEESSIRKEQAR-----RSTEEQIQAQQ---RLTEK 207
             RK L  +   H+A+ ++  +L + + E  ++++Q       R  EE +Q Q+   R T +
Sbjct:   115 RKTLNEETRQHQARAQYQDKLARQRYEDQLKQQQLLNEENLRKQEESVQKQEAIRRATVE 174

Query:   208 ERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEE 267
                E+  +   ++  AEA  RA   +   D  R  +  +    R+  L +I T  +   E
Sbjct:   175 REMELRHKNEMLRVEAEARARAKADRENADIIREQIRLKAAEHRQTILESIRTAGTLFGE 234

Query:   268 GVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPW 327
             G R+ +TD +K+  TV G T LA G+Y+ +    V   Y+   LG+PSL+RE+S  +   
Sbjct:   235 GFRAFVTDWDKVTATVAGLTLLAVGVYSAKNATSVAGRYIEARLGKPSLVRETS--RISV 292

Query:   328 SGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF 387
                L   + +V R   S     P +A++    +IL PSL+ R++ +A AT NTK +++ +
Sbjct:   293 LEALRHPI-QVSRRLVSR----PQDALEG---VILSPSLEARVRDIAIATRNTKKNKSLY 344

Query:   388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKG 447
             RN+L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP+G + VT +H++FDWA  S++G
Sbjct:   345 RNVLMYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGREGVTAMHKVFDWASTSRRG 404

Query:   448 LLLFIDEADAFL 459
             LLLF+DEADAFL
Sbjct:   405 LLLFVDEADAFL 416

GO:0005524 "ATP binding" evidence=IEA

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

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

 Score = 537 (194.1 bits), Expect = 9.2e-52, P = 9.2e-52
 Identities = 133/370 (35%), Positives = 209/370 (56%)

Query:   100 RKQEQTRLAELDVEKVHYEAIQSQ-VDVERQRKLAEEHRNLVQQKA-QARAQGLRNEDEL 157
             R+ E +R A+   E +    +Q Q + +E+Q KL E    + Q K+ Q R Q       L
Sbjct:    62 RELEHSRHAK---EALSLAQMQEQTLQLEQQAKLKEYEAAVEQLKSEQIRVQAEERRKTL 118

Query:   158 ARKRLQTDHEAQRRHNTELVKMQEESSIRKEQAR-----RSTEEQIQAQQ---RLTEKER 209
             + +  Q  H+A+ ++  +L + + E  ++++Q       R  EE +Q Q+   R T +  
Sbjct:   119 SEETRQ--HQARAQYQDKLARQRYEDQLKQQQLLNEENLRKQEESVQKQEALRRATVERE 176

Query:   210 AEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGV 269
              E+  +   ++  AEA  RA   +   D  R  +  +    R+  L +I T  +   EG 
Sbjct:   177 MELRHKNEMLRVEAEARARAKAERENADITREQIRLKAAEHRQTILESIRTAGTLFGEGF 236

Query:   270 RSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSG 329
             R+ +TD +K+  TV G T LA G+Y+ +    V   YV   LG+PSL+RE+S  +     
Sbjct:   237 RAFVTDWDKVTATVAGLTLLALGVYSAKNATSVAGRYVEARLGKPSLVRETS--RITALE 294

Query:   330 LLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRN 389
              L   + +V R   S     P +A++    ++L PSL+ R++ LA AT NT+ +++ +RN
Sbjct:   295 ALRHPV-QVGRRLLSK----PQDALEG---VVLSPSLEARVRDLAIATRNTRKNRSLYRN 346

Query:   390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLL 449
             +L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP+G   VT +H++FDWA  S++GLL
Sbjct:   347 VLMYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGRDGVTAVHKVFDWASTSRRGLL 406

Query:   450 LFIDEADAFL 459
             LF+DEADAFL
Sbjct:   407 LFVDEADAFL 416

GO:0005743 "mitochondrial inner membrane" evidence=IEA

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 = 534 (193.0 bits), Expect = 1.9e-51, P = 1.9e-51
 Identities = 129/371 (34%), Positives = 212/371 (57%)

Query:   100 RKQEQTRLAE--LDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKA-QARAQGLRNEDE 156
             R+ +Q+R A+  LD+ ++  + +Q    +E Q K+ E    + Q K  Q R Q       
Sbjct:    57 RELDQSRHAKEALDLARMQEQTVQ----MEHQGKIKEYEAAVEQLKGEQIRIQADERRKT 112

Query:   157 LARKRLQTDHEAQRRHNTELVKMQEESSIRK-----EQARRSTEEQIQAQQ---RLTEKE 208
             L  +  Q  H+A+ ++  +L + + +  +R+     E+  R  EE +Q Q+   R T + 
Sbjct:   113 LNEETRQ--HQARAQYQDKLARQRYDDQLRQQTLLNEENLRKQEESVQKQEAMRRATIEH 170

Query:   209 RAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEG 268
               ++  +   ++  AE++ RA   +   D  R  +  +    R+  L +I T  +   EG
Sbjct:   171 EMDLRHKNEMLRVEAESKARARVERENADIIREQIRLKAAEHRQTVLESIRTAGAVFGEG 230

Query:   269 VRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWS 328
              R+ ++D +K+  TV G T LAAG+Y+ R    V   Y+   LG+PSL+RE+S  +F  +
Sbjct:   231 FRAFISDWDKVTATVAGLTLLAAGVYSARNATAVAGRYIEARLGKPSLVRETS--RFTVA 288

Query:   329 GLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFR 388
               L   + KV++   S     P +A++    ++L P L+ R++ +A AT NT+ ++  +R
Sbjct:   289 EALKHPI-KVVKRLQSK----PQDALEG---VVLSPPLEERVRDIAIATRNTRQNRGLYR 340

Query:   389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGL 448
             N+L YGPPGTGKT+ A+++A  SG+DYA+MTGGDVAP+G   VT +H++FDWA  S++GL
Sbjct:   341 NILMYGPPGTGKTLFAKKLAVHSGMDYAIMTGGDVAPMGRDGVTAMHKVFDWAATSRRGL 400

Query:   449 LLFIDEADAFL 459
             LLF+DEADAFL
Sbjct:   401 LLFVDEADAFL 411

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

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	466
pfam12037	276	pfam12037, DUF3523, Domain of unknown function (DU	1e-111
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	2e-16
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	2e-11
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	5e-08
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	7e-08
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	9e-08
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	5e-07
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-06
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	2e-06
smart00382	148	smart00382, AAA, ATPases associated with a variety	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-06
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	6e-06
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	7e-06
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	8e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-05
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	1e-05
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	2e-05
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	4e-05
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	3e-04
pfam01078	207	pfam01078, Mg_chelatase, Magnesium chelatase, subu	7e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.001
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	0.001
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.001
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	0.001
pfam07227	446	pfam07227, DUF1423, Protein of unknown function (D	0.002
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.003
TIGR00635	305	TIGR00635, ruvB, Holliday junction DNA helicase, R	0.003

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

 Score =  328 bits (843), Expect = e-111
 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|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score = 74.9 bits (185), Expect = 2e-16
 Identities = 25/70 (35%), Positives = 44/70 (62%), Gaps = 2/70 (2%)

Query: 390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQAVTKIHEIFDWAKKSKKGL 448
           +L YGPPGTGKT +A+ +A++ G  +  ++G ++      ++  ++ E+F+ AKK     
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPC- 59

Query: 449 LLFIDEADAF 458
           ++FIDE DA 
Sbjct: 60  VIFIDEIDAL 69

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

>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 = 61.4 bits (149), Expect = 2e-11
 Identities = 28/96 (29%), Positives = 39/96 (40%), Gaps = 10/96 (10%)

Query: 371 QHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--------LDYAMMTGGD 422
           Q  A       +   P +N+L YGPPGTGKT +AR IA +          L+ + +  G 
Sbjct: 3   QEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGL 62

Query: 423 VAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAF 458
           V                   +  K  +LFIDE D+ 
Sbjct: 63  VVAELFGHFLVRLLFE--LAEKAKPGVLFIDEIDSL 96

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|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed

 Score = 54.7 bits (133), Expect = 5e-08
 Identities = 27/102 (26%), Positives = 46/102 (45%), Gaps = 30/102 (29%)

Query: 373 LAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY----AMMTGGDVAPLGA 428
           L +     ++      +M+ +GPPGTGKT +AR IA  +   +    A+ +G        
Sbjct: 27  LRRMIEAGRLS-----SMILWGPPGTGKTTLARIIAGATDAPFEALSAVTSG-------- 73

Query: 429 QAVTKIHEIFDWAKKSK---KGLLLFIDE--------ADAFL 459
             V  + E+ + A++ +   +  +LFIDE         DA L
Sbjct: 74  --VKDLREVIEEARQRRSAGRRTILFIDEIHRFNKAQQDALL 113

Length = 413

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

 Score = 54.0 bits (130), Expect = 7e-08
 Identities = 30/80 (37%), Positives = 51/80 (63%), Gaps = 7/80 (8%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLG---AQAVTKIHEIFDWA 441
           AP +N+LFYGPPGTGKTM+A+ +A ++ +   ++   ++  +G        +IHE+++ A
Sbjct: 150 AP-KNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATEL--IGEHVGDGARRIHELYERA 206

Query: 442 KKSKKGLLLFIDEADAFLCD 461
           +K+    ++FIDE DA   D
Sbjct: 207 RKAAP-CIVFIDELDAIALD 225

Length = 368

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

 Score = 53.8 bits (130), Expect = 9e-08
 Identities = 28/82 (34%), Positives = 38/82 (46%), Gaps = 13/82 (15%)

Query: 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGA--QAVTKIHEIFDWAKK--- 443
           +M+ +GPPGTGKT +AR IA          T      L A    V  + EI + A+K   
Sbjct: 50  SMILWGPPGTGKTTLARLIAG--------TTNAAFEALSAVTSGVKDLREIIEEARKNRL 101

Query: 444 SKKGLLLFIDEADAFLCDNQDF 465
             +  +LF+DE   F    QD 
Sbjct: 102 LGRRTILFLDEIHRFNKAQQDA 123

Length = 436

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

 Score = 51.4 bits (124), Expect = 5e-07
 Identities = 26/71 (36%), Positives = 43/71 (60%), Gaps = 8/71 (11%)

Query: 391 LFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL----GAQAVTKIHEIFDWAKKSKK 446
           L YGPPGTGKT++A+ +A ++   +  + G ++       GA+ V    E+F+ A++ K 
Sbjct: 169 LLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEGARLV---RELFELARE-KA 224

Query: 447 GLLLFIDEADA 457
             ++FIDE DA
Sbjct: 225 PSIIFIDEIDA 235

Length = 389

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

 Score = 50.2 bits (120), Expect = 1e-06
 Identities = 24/78 (30%), Positives = 38/78 (48%), Gaps = 16/78 (20%)

Query: 390 MLFYGPPGTGKTMVAREIARKSGL--------DYAMMTGGDVAPLGAQAVTKIHEIFDWA 441
           +L YGPPGTGKT++A+ +A +S          +      G+           I E+F+ A
Sbjct: 279 VLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEK-------NIRELFEKA 331

Query: 442 KKSKKGLLLFIDEADAFL 459
           +K     ++FIDE D+  
Sbjct: 332 RKL-APSIIFIDEIDSLA 348

Length = 494

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

 Score = 50.3 bits (120), Expect = 2e-06
 Identities = 26/78 (33%), Positives = 48/78 (61%), Gaps = 2/78 (2%)

Query: 381 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFD 439
           K+   P + +L +GPPGTGKT++A+ +A +SG ++  + G ++ +    ++   I EIF 
Sbjct: 481 KMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFR 540

Query: 440 WAKKSKKGLLLFIDEADA 457
            A+++    ++F DE DA
Sbjct: 541 KARQAAPA-IIFFDEIDA 557

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

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

 Score = 47.0 bits (111), Expect = 2e-06
 Identities = 23/92 (25%), Positives = 36/92 (39%), Gaps = 19/92 (20%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSG------------------LDYAMMTGGDVAPLG 427
           P   +L  GPPG+GKT +AR +AR+ G                  LD  ++         
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60

Query: 428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
                ++      A+K K   +L +DE  + L
Sbjct: 61  GSGELRLRLALALARKLKPD-VLILDEITSLL 91

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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.4 bits (117), Expect = 4e-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|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH

 Score = 48.1 bits (115), Expect = 6e-06
 Identities = 26/74 (35%), Positives = 48/74 (64%), Gaps = 8/74 (10%)

Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----LGAQAVTKIHEIFDWAKK 443
           + +L  GPPGTGKT++A+ +A ++G+ +  ++G D       +GA   +++ ++F+ AKK
Sbjct: 89  KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGA---SRVRDLFEQAKK 145

Query: 444 SKKGLLLFIDEADA 457
           +    ++FIDE DA
Sbjct: 146 NAPC-IIFIDEIDA 158

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

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

 Score = 47.5 bits (113), Expect = 7e-06
 Identities = 27/73 (36%), Positives = 44/73 (60%), Gaps = 2/73 (2%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKS 444
           P + +L YGPPGTGKT++A+ +A ++   +  + G + V     +    + EIF+ AK+ 
Sbjct: 155 PPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKE- 213

Query: 445 KKGLLLFIDEADA 457
           K   ++FIDE DA
Sbjct: 214 KAPSIIFIDEIDA 226

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

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

 Score = 47.6 bits (114), Expect = 8e-06
 Identities = 27/81 (33%), Positives = 45/81 (55%), Gaps = 16/81 (19%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG--------GDVAPLGAQAVTKIHEI 437
           P + +L YGPPGTGKT++A+ +A ++   +  + G        G+ A L       + E+
Sbjct: 184 PPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEGARL-------VREL 236

Query: 438 FDWAKKSKKGLLLFIDEADAF 458
           F+ A++ K   ++FIDE DA 
Sbjct: 237 FELARE-KAPSIIFIDEIDAI 256

Length = 406

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

 Score = 47.8 bits (113), Expect = 1e-05
 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|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score = 46.7 bits (111), Expect = 1e-05
 Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 2/73 (2%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKS 444
           P R +L YGPPGTGKTM+A+ +A  +   +  + G + V     +    + ++F  A+++
Sbjct: 178 PPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLAREN 237

Query: 445 KKGLLLFIDEADA 457
               ++FIDE D+
Sbjct: 238 APS-IIFIDEVDS 249

Length = 398

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

 Score = 46.6 bits (110), Expect = 2e-05
 Identities = 25/71 (35%), Positives = 45/71 (63%), Gaps = 2/71 (2%)

Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 446
           + +L  GPPGTGKT++A+ IA ++ + +  ++G D V        +++ ++F+ AKK+  
Sbjct: 186 KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAP 245

Query: 447 GLLLFIDEADA 457
             ++FIDE DA
Sbjct: 246 -CIIFIDEIDA 255

Length = 644

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

 Score = 45.7 bits (108), Expect = 4e-05
 Identities = 25/73 (34%), Positives = 47/73 (64%), Gaps = 2/73 (2%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 444
           P + +L YGPPGTGKT++A+ +A ++G  +  + G ++ +    ++  ++ EIF  A+++
Sbjct: 211 PPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEEN 270

Query: 445 KKGLLLFIDEADA 457
               ++FIDE DA
Sbjct: 271 APS-IIFIDEIDA 282

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

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

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 28/82 (34%), Positives = 36/82 (43%), Gaps = 14/82 (17%)

Query: 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGA--QAVTKIHEIFDWAKKSK- 445
           +++ YGPPG GKT +AR IA          T    + L A    V  +    D AK+   
Sbjct: 54  SLILYGPPGVGKTTLARIIANH--------TRAHFSSLNAVLAGVKDLRAEVDRAKERLE 105

Query: 446 ---KGLLLFIDEADAFLCDNQD 464
              K  +LFIDE   F    QD
Sbjct: 106 RHGKRTILFIDEVHRFNKAQQD 127

Length = 725

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

 Score = 40.6 bits (96), Expect = 7e-04
 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|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.9 bits (95), 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|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

 Score = 41.2 bits (97), Expect = 0.001
 Identities = 26/71 (36%), Positives = 46/71 (64%), Gaps = 8/71 (11%)

Query: 391 LFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV----APLGAQAVTKIHEIFDWAKKSKK 446
           L  GPPGTGKT++A+ +A ++G+ +  ++G D       +GA   +++ ++F+ AKK+  
Sbjct: 187 LLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGA---SRVRDLFEQAKKNAP 243

Query: 447 GLLLFIDEADA 457
             ++FIDE DA
Sbjct: 244 C-IIFIDEIDA 253

Length = 596

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

 Score = 41.6 bits (98), 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|214386 CHL00176, ftsH, cell division protein; Validated

 Score = 41.2 bits (97), Expect = 0.001
 Identities = 23/73 (31%), Positives = 41/73 (56%), Gaps = 2/73 (2%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKS 444
             + +L  GPPGTGKT++A+ IA ++ + +  ++G + V         ++ ++F  A K 
Sbjct: 215 IPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGAARVRDLFKKA-KE 273

Query: 445 KKGLLLFIDEADA 457
               ++FIDE DA
Sbjct: 274 NSPCIVFIDEIDA 286

Length = 638

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

 Score = 40.1 bits (94), Expect = 0.002
 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|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

 Score = 39.5 bits (93), Expect = 0.002
 Identities = 24/80 (30%), Positives = 40/80 (50%), Gaps = 20/80 (25%)

Query: 381 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG------GDVAPLGAQAVTKI 434
           K       ++L +GPPG GKT +A  IA + G++  + +G      GD+A +    +T +
Sbjct: 46  KKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEKPGDLAAI----LTNL 101

Query: 435 HEIFDWAKKSKKGLLLFIDE 454
                     ++G +LFIDE
Sbjct: 102 ----------EEGDVLFIDE 111

Length = 332

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

 Score = 39.7 bits (92), 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|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 28/98 (28%), Positives = 49/98 (50%), Gaps = 15/98 (15%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
           + I    ++ ++Q   +A    K+ Q    ++L YGPPG GKT +A  IA + G++  + 
Sbjct: 5   EFIGQEKVKEQLQLFIEAA---KMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKIT 61

Query: 419 TGGDVAPLG--AQAVTKIHEIFDWAKKSKKGLLLFIDE 454
           +G  +   G  A  +T +          ++G +LFIDE
Sbjct: 62  SGPALEKPGDLAAILTNL----------EEGDVLFIDE 89

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	466
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	99.81
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.77
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.76
COG2204	464	AtoC Response regulator containing CheY-like recei	99.75
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.71
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.71
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.7
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.68
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.68
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.65
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.65
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.65
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.64
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.61
PRK10865	857	protein disaggregation chaperone; Provisional	99.57
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.55
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.55
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.54
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.54
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.54
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.54
CHL00195	489	ycf46 Ycf46; Provisional	99.53
PF12037	276	DUF3523: Domain of unknown function (DUF3523); Int	99.52
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.51
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.51
CHL00176	638	ftsH cell division protein; Validated	99.51
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.5
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.5
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.5
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.49
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.47
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.47
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.45
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.44
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.44
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.42
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.41
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.39
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.39
PF00004	132	AAA: ATPase family associated with various cellula	99.38
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.38
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.37
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.33
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.28
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.26
CHL00181	287	cbbX CbbX; Provisional	99.26
KOG2028	554	consensus ATPase related to the helicase subunit o	99.25
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.25
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.24
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.24
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.24
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.24
CHL00206	2281	ycf2 Ycf2; Provisional	99.23
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.23
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.21
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.21
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.19
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.18
PRK13342	413	recombination factor protein RarA; Reviewed	99.18
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.17
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.17
PRK04195	482	replication factor C large subunit; Provisional	99.16
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	99.15
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.15
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.13
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.12
CHL00095	821	clpC Clp protease ATP binding subunit	99.1
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.1
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	99.1
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.1
PLN03025	319	replication factor C subunit; Provisional	99.08
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.08
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.08
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.06
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.06
PRK13341	725	recombination factor protein RarA/unknown domain f	99.06
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.04
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.04
PHA02544	316	44 clamp loader, small subunit; Provisional	99.03
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.03
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.03
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.03
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.01
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.01
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.01
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.01
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.0
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.0
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	98.99
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	98.98
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.97
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.97
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.97
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.96
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.96
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.95
PRK10865	857	protein disaggregation chaperone; Provisional	98.95
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.94
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.94
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.94
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.94
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.94
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.93
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.92
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.92
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.92
CHL00095	821	clpC Clp protease ATP binding subunit	98.92
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.91
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.9
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.89
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.88
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.88
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.88
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.88
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	98.87
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.87
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.86
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.86
smart00382	148	AAA ATPases associated with a variety of cellular	98.86
PRK12402	337	replication factor C small subunit 2; Reviewed	98.85
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.85
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.84
PRK06893	229	DNA replication initiation factor; Validated	98.84
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.83
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.83
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.82
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.82
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.82
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.81
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.81
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.79
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.79
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.78
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.78
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.77
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.77
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.76
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.76
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.76
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.76
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	98.76
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.76
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	98.76
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.75
PRK12422	445	chromosomal replication initiation protein; Provis	98.74
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.74
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.74
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.72
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.72
PRK12377	248	putative replication protein; Provisional	98.71
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.71
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.71
PRK15115	444	response regulator GlrR; Provisional	98.7
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	98.69
PRK06620	214	hypothetical protein; Validated	98.69
PRK08084	235	DNA replication initiation factor; Provisional	98.69
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	98.68
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.68
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.67
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.67
PHA02244	383	ATPase-like protein	98.66
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.65
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.64
PRK08116	268	hypothetical protein; Validated	98.64
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	98.64
PRK08727	233	hypothetical protein; Validated	98.64
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.64
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	98.64
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	98.64
PRK05642	234	DNA replication initiation factor; Validated	98.61
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.61
PRK08939	306	primosomal protein DnaI; Reviewed	98.59
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.59
PRK07952	244	DNA replication protein DnaC; Validated	98.58
KOG1969	877	consensus DNA replication checkpoint protein CHL12	98.57
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.56
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.53
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.53
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.52
COG0714	329	MoxR-like ATPases [General function prediction onl	98.52
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.51
PRK08181	269	transposase; Validated	98.51
PF07726	131	AAA_3: ATPase family associated with various cellu	98.51
PRK06526	254	transposase; Provisional	98.5
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	98.49
PRK10365	441	transcriptional regulatory protein ZraR; Provision	98.46
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.46
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	98.45
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	98.44
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.42
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.42
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.4
PRK13531	498	regulatory ATPase RavA; Provisional	98.4
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.39
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.37
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.34
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	98.34
PRK06835	329	DNA replication protein DnaC; Validated	98.33
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.33
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.33
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.31
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.28
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	98.27
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.24
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.24
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.24
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.23
PRK06921	266	hypothetical protein; Provisional	98.23
PRK09087	226	hypothetical protein; Validated	98.22
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.22
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	98.2
PRK09183	259	transposase/IS protein; Provisional	98.19
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.18
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.16
PF13173	128	AAA_14: AAA domain	98.16
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	98.15
PHA00729	226	NTP-binding motif containing protein	98.11
KOG0736	953	consensus Peroxisome assembly factor 2 containing	98.11
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.11
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	98.06
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.94
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	97.94
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.92
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.9
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.89
) 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	97.84
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	97.83
PRK09862	506	putative ATP-dependent protease; Provisional	97.78
smart00350	509	MCM minichromosome maintenance proteins.	97.78
PRK14974	336	cell division protein FtsY; Provisional	97.77
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.77
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.76
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.76
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.76
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	97.7
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.69
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.69
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.67
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.65
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	97.65
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.64
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	97.63
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.63
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.62
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.61
PRK15455	644	PrkA family serine protein kinase; Provisional	97.6
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.59
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.59
PRK00131	175	aroK shikimate kinase; Reviewed	97.57
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	97.57
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.57
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.57
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	97.56
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.54
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.54
PF13479	213	AAA_24: AAA domain	97.53
PRK08118	167	topology modulation protein; Reviewed	97.5
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.5
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.5
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.49
cd01128	249	rho_factor Transcription termination factor rho is	97.48
PRK13947	171	shikimate kinase; Provisional	97.4
PRK00625	173	shikimate kinase; Provisional	97.4
PF05729	166	NACHT: NACHT domain	97.39
PHA02624	647	large T antigen; Provisional	97.39
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.39
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.38
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.38
PRK03839	180	putative kinase; Provisional	97.38
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.37
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.37
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.36
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.34
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.34
PRK04132	846	replication factor C small subunit; Provisional	97.34
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.34
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.33
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.33
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.32
PRK14532	188	adenylate kinase; Provisional	97.3
PRK13949	169	shikimate kinase; Provisional	97.3
PRK04296	190	thymidine kinase; Provisional	97.29
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.29
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	97.29
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.28
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.27
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.27
PRK10416	318	signal recognition particle-docking protein FtsY;	97.26
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.25
PRK10867	433	signal recognition particle protein; Provisional	97.25
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.25
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.25
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.24
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	97.23
PRK13833	323	conjugal transfer protein TrbB; Provisional	97.22
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.21
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	97.21
PRK07261	171	topology modulation protein; Provisional	97.2
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.2
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.19
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.19
PRK14531	183	adenylate kinase; Provisional	97.18
PRK13948	182	shikimate kinase; Provisional	97.18
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.18
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	97.17
PRK06762	166	hypothetical protein; Provisional	97.17
PRK09376	416	rho transcription termination factor Rho; Provisio	97.17
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.16
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.15
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.14
PRK14530	215	adenylate kinase; Provisional	97.14
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.13
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.13
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.12
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.12
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.12
TIGR00767	415	rho transcription termination factor Rho. Members	97.11
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.11
PHA02774	613	E1; Provisional	97.11
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	97.11
PRK13765	637	ATP-dependent protease Lon; Provisional	97.11
PRK04040	188	adenylate kinase; Provisional	97.1
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.1
PRK06217	183	hypothetical protein; Validated	97.09
PRK14528	186	adenylate kinase; Provisional	97.07
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.07
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.06
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.04
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.04
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.04
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.03
PRK13946	184	shikimate kinase; Provisional	97.02
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	97.0
PRK13764	602	ATPase; Provisional	97.0
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.0
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.0
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	97.0
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.0
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.97
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.97
PRK08233	182	hypothetical protein; Provisional	96.97
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	96.97
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	96.96
PRK06696	223	uridine kinase; Validated	96.96
PF13245	76	AAA_19: Part of AAA domain	96.96
PRK05057	172	aroK shikimate kinase I; Reviewed	96.94
PRK11823	446	DNA repair protein RadA; Provisional	96.93
PRK03731	171	aroL shikimate kinase II; Reviewed	96.93
PRK06547	172	hypothetical protein; Provisional	96.93
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.92
PLN02674	244	adenylate kinase	96.92
PRK02496	184	adk adenylate kinase; Provisional	96.92
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.92
PLN02200	234	adenylate kinase family protein	96.91
PRK13851	344	type IV secretion system protein VirB11; Provision	96.91
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.9
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.89
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.89
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.89
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.88
PRK12608	380	transcription termination factor Rho; Provisional	96.88
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.88
PTZ00088	229	adenylate kinase 1; Provisional	96.87
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.86
TIGR00959	428	ffh signal recognition particle protein. This mode	96.85
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.85
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.83
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	96.83
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	96.83
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.83
PRK14527	191	adenylate kinase; Provisional	96.82
PRK00279	215	adk adenylate kinase; Reviewed	96.81
PRK05917	290	DNA polymerase III subunit delta'; Validated	96.79
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.78
PRK06067	234	flagellar accessory protein FlaH; Validated	96.78
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.76
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.75
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	96.75
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.71
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.7
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	96.7
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.67
PRK04182	180	cytidylate kinase; Provisional	96.67
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	96.66
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.65
PTZ00202	550	tuzin; Provisional	96.65
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.65
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	96.63
PHA02530	300	pseT polynucleotide kinase; Provisional	96.61
PRK01184	184	hypothetical protein; Provisional	96.6
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.59
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.59
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.58
PRK14526	211	adenylate kinase; Provisional	96.57
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.57
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.57
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.55
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	96.55
PRK03846	198	adenylylsulfate kinase; Provisional	96.54
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.54
PRK00889	175	adenylylsulfate kinase; Provisional	96.52
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.52
TIGR03819	340	heli_sec_ATPase helicase/secretion neighborhood AT	96.51
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.48
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.47
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.46
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.46
PRK14529	223	adenylate kinase; Provisional	96.44
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.43
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.43
PRK05818	261	DNA polymerase III subunit delta'; Validated	96.41
PRK09354	349	recA recombinase A; Provisional	96.41
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.39
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.37
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	96.37
PLN02459	261	probable adenylate kinase	96.37
TIGR02533	486	type_II_gspE general secretory pathway protein E.	96.37
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.36
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.35
PRK05541	176	adenylylsulfate kinase; Provisional	96.35
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.33
PRK05480	209	uridine/cytidine kinase; Provisional	96.32
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	96.32
PRK10436	462	hypothetical protein; Provisional	96.32
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.31
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.29
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.29
PLN02199	303	shikimate kinase	96.28
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.26
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	96.26
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.25
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.24
PRK13808	333	adenylate kinase; Provisional	96.24
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.23
PF14516	331	AAA_35: AAA-like domain	96.23
PRK07667	193	uridine kinase; Provisional	96.23
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.22
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.22
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	96.21
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.16
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.16
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.15
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.15
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.14
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.13
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.12
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	96.1
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.1
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.1
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	96.09
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.08
PRK00300	205	gmk guanylate kinase; Provisional	96.08
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	96.07
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.06
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	96.06
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.05
PRK12338	319	hypothetical protein; Provisional	96.04
PRK08356	195	hypothetical protein; Provisional	96.03
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.03
PTZ00121	2084	MAEBL; Provisional	96.01
PRK14737	186	gmk guanylate kinase; Provisional	96.01
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.0
COG1855	604	ATPase (PilT family) [General function prediction	95.99
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.96
PLN02165	334	adenylate isopentenyltransferase	95.95
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	95.91
PRK13889	988	conjugal transfer relaxase TraA; Provisional	95.9
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.89
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	95.89
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.88
PRK09825	176	idnK D-gluconate kinase; Provisional	95.85
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.84
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.83
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	95.82
PRK04328	249	hypothetical protein; Provisional	95.82
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	95.81
PRK13975	196	thymidylate kinase; Provisional	95.81
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	95.79
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	95.79
PRK04220	301	2-phosphoglycerate kinase; Provisional	95.74
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	95.73
PRK07276	290	DNA polymerase III subunit delta'; Validated	95.73
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.72
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	95.71
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	95.71
PRK11545	163	gntK gluconate kinase 1; Provisional	95.7
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.67
PRK10536	262	hypothetical protein; Provisional	95.66
PF00488	235	MutS_V: MutS domain V C-terminus.; InterPro: IPR00	95.62
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.61
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.6
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.59
PRK00023	225	cmk cytidylate kinase; Provisional	95.58
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	95.55
PRK14730	195	coaE dephospho-CoA kinase; Provisional	95.55
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	95.55
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.54
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	95.52

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

Probab=100.00  E-value=1.5e-102  Score=772.71  Aligned_cols=456  Identities=60%  Similarity=0.852  Sum_probs=411.1

Q ss_pred             CCccchhhHHHHHHHHHHhhhhcccccccCCCccccCCCCCCCCCCC--Cc-hhhhhhhhcCCCC-CCCCCCCCCChHHH
Q 012305            1 MPASKLSSCLAVAAAVASLSTASNRAFADAPSRFSFFSSSPQPTSSG--ND-EAEQTADAQKSRE-PEEPRGSGFDPEAL   76 (466)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~f~~f~~~~~~~~~~--~~-~~~~~~~~~~~~~-~~~~~~~~fd~~~l   76 (466)
                      |++++.+  .+.++++++...+-+.+|+|++|.|++||.+++++-||  |+ +++.+....+.|. ++...+++|||++|
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            5665333  33344444555555669999999999998876653222  11 1111111112122 22334779999999


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhHhhhhhhhhhhhHHHHHHHhhhhHHHHHHhHHHHHHHHHHHHHHHHhcccchhH
Q 012305           77 ERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDE  156 (466)
Q Consensus        77 er~a~a~~~l~~s~~a~~~~~~~~~~e~~~~~E~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~~~~q~~~~~~~a~~~d~  156 (466)
                      ||+|||+|+|+.|||||++|+++++||+|+|.|++++..+|++++++.+.+++++.+||+||++++|+++++|+++|+|+
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             HHHHhhcccHHHHhhcchhhhhhchhhhhhHHHHhhhhHHHHHHHHHhhHHHHhHhhhhhhhhhhhhhhhhcccccccch
Q 012305          157 LARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTE  236 (466)
Q Consensus       157 l~r~r~q~E~e~~~~~~e~~~~~qees~~r~E~~r~~~~e~~~~~r~~~e~e~~~~~~~~~~~~~~~e~e~~~~~~~~~~  236 (466)
                      |+||||++|++.|+..|++++++||+|+.|+|++|+.++|+++++++++|.++.++++++++.++++|+++++++++.|.
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             hhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhCCCcc
Q 012305          237 DHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSL  316 (466)
Q Consensus       237 d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~p~l  316 (466)
                      |+|+++|+.+++++|++|+..|+++|.+||+|+.++++|+++++++|+|+++++.|||++|+|+.|+|+||+++||+|+|
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             ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCC
Q 012305          317 IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPP  396 (466)
Q Consensus       317 vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~Gpp  396 (466)
                      |||+|+.+|||.+.++...+.+..     .........+.|++||+++.+.++|.++...++|++.+..||+||||||||
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            999999999999998877665521     112233556679999999999999999999999999999999999999999


Q ss_pred             CCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          397 GTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       397 GTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      |||||++|+.||.++|++|.+|+|+|+.|+|.+.++.+|++|+|++++++|.+|||||+|+|+|+|.
T Consensus       394 GTGKTm~ArelAr~SGlDYA~mTGGDVAPlG~qaVTkiH~lFDWakkS~rGLllFIDEADAFLceRn  460 (630)
T KOG0742|consen  394 GTGKTMFARELARHSGLDYAIMTGGDVAPLGAQAVTKIHKLFDWAKKSRRGLLLFIDEADAFLCERN  460 (630)
T ss_pred             CCCchHHHHHHHhhcCCceehhcCCCccccchHHHHHHHHHHHHHhhcccceEEEehhhHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999999999999999999999986

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

Probab=100.00  E-value=6.4e-66  Score=496.12  Aligned_cols=259  Identities=59%  Similarity=0.795  Sum_probs=254.3

Q ss_pred             CCCCCCCCCCCCChHHHHHHHHHHHHhcCChhhHHHHHHHHHhHhhhhhhhhhhhHHHHHHHhhhhHHHHHHhHHHHHHH
Q 012305           60 SREPEEPRGSGFDPEALERAAKALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNL  139 (466)
Q Consensus        60 ~~~~~~~~~~~fd~~~ler~a~a~~~l~~s~~a~~~~~~~~~~e~~~~~E~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~  139 (466)
                      .+.++...+++|||++|||||||||+|++||||+++|+++++||.|+|+|+++++++|+++.+|+++++.++++||+||+
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            34455567999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcccchhHHHHHhhcccHHHHhhcchhhhhhchhhhhhHHHHhhhhHHHHHHHHHhhHHHHhHhhhhhhhh
Q 012305          140 VQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRV  219 (466)
Q Consensus       140 ~~~q~~~~~~~a~~~d~l~r~r~q~E~e~~~~~~e~~~~~qees~~r~E~~r~~~~e~~~~~r~~~e~e~~~~~~~~~~~  219 (466)
                      +++|+++++++++|+|+|+|+||+++++.++.+|++++++||+|+.|||++|++++++|+++++++++++++|+++++++
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             hhhhhhhhcccccccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccC
Q 012305          220 KAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREG  299 (466)
Q Consensus       220 ~~~~e~e~~~~~~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g  299 (466)
                      ++++|++|+++.+|+|+|+++++|+.++.++|.+||.+|+++|++||+||..|++|+++++.+|+|++++++|||++|.|
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             ceehhhhhhhhhCCCcccc
Q 012305          300 ARVTWGYVNRILGQPSLIR  318 (466)
Q Consensus       300 ~~~~~~~v~~~lg~p~lvr  318 (466)
                      +.|+|+||+++||+|+|||
T Consensus       258 t~v~~~yie~rLGkPsLVR  276 (276)
T PF12037_consen  258 TRVAGRYIEARLGKPSLVR  276 (276)
T ss_pred             HHHHHHHHHHHcCCCccCC
Confidence            9999999999999999987

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=99.81  E-value=5.5e-19  Score=177.23  Aligned_cols=218  Identities=16%  Similarity=0.114  Sum_probs=171.6

Q ss_pred             hhhHHHHHHHHHHhhhhcccccccCCCcccc--CCCCCCCCCCCCchhhhhhhhc-CCCCCCCCC-CCCCChHHHHHHH-
Q 012305            6 LSSCLAVAAAVASLSTASNRAFADAPSRFSF--FSSSPQPTSSGNDEAEQTADAQ-KSREPEEPR-GSGFDPEALERAA-   80 (466)
Q Consensus         6 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~f~~--f~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~fd~~~ler~a-   80 (466)
                      |+..+++++.++++.+.+  ...+.+|++|+  |++|+++|+||-||..+..+.. .....+.|+ +|.-...+|++.+ 
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            445555555555555544  45555999997  7777777766544433322111 112222233 6666777999998 


Q ss_pred             -HHHHHhcCChhhHHHHHHHHHhHhhhhhhhhhhhHHHHHHHhhhhHHHHHHhHHHHHHHHHHHHHHHHhcccchhHHHH
Q 012305           81 -KALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRNLVQQKAQARAQGLRNEDELAR  159 (466)
Q Consensus        81 -~a~~~l~~s~~a~~~~~~~~~~e~~~~~E~~~~~~e~~~~~~~~~~~~~~~~~ee~r~~~~~q~~~~~~~a~~~d~l~r  159 (466)
                       +|++.|+.++|++++   +++++..+.+| +++++|+++...++++.+.+.+.|..|+.+++|.+..++.+|.+.+.. 
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 999999999999999999999999999999999999999999988887 


Q ss_pred             HhhcccHHHHhhcchhhhhh--chhhhhhHHHHhhhhHHHHHHHHHhhHHHHhHhhhhhhhhhhhhh---hhhccccccc
Q 012305          160 KRLQTDHEAQRRHNTELVKM--QEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAE---AEGRAHEAKL  234 (466)
Q Consensus       160 ~r~q~E~e~~~~~~e~~~~~--qees~~r~E~~r~~~~e~~~~~r~~~e~e~~~~~~~~~~~~~~~e---~e~~~~~~~~  234 (466)
                       +||+++.+++.+.+...++  ++|++.+||+.-+..+.    +|++|+++++.+++++++.++++|   .+.++..+++
T Consensus       154 -rYqD~larkr~~~e~e~qr~~n~ElvrmQEeS~irqE~----aRraTeE~iqaqrr~tE~erae~EretiRvkA~Aeae  228 (630)
T KOG0742|consen  154 -RYQDKLARKRYEDELEAQRRLNEELVRMQEESVIRQEQ----ARRATEEQIQAQRRKTEMERAEAERETIRVKAKAEAE  228 (630)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHHHHH----HHHhHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhh
Confidence             9999999999986654443  34888888888777766    999999999999999999999999   4455555555


Q ss_pred             c
Q 012305          235 T  235 (466)
Q Consensus       235 ~  235 (466)
                      .
T Consensus       229 g  229 (630)
T KOG0742|consen  229 G  229 (630)
T ss_pred             c
Confidence            3

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

Probab=99.77  E-value=4.7e-19  Score=175.95  Aligned_cols=117  Identities=24%  Similarity=0.398  Sum_probs=98.7

Q ss_pred             cCccccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305          348 AGPVEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD  422 (466)
Q Consensus       348 ~~~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~  422 (466)
                      .....+..++++|-|.++.++.|++.+.. +.++.    -+..||++||||||||||||++|+++|++.+..|+.+.|+.
T Consensus       141 ~v~e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSE  220 (406)
T COG1222         141 EVEEKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSE  220 (406)
T ss_pred             eeccCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHH
Confidence            34456677889998888888888876553 33332    23478899999999999999999999999999999999999


Q ss_pred             ccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305          423 VAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       423 l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                      +.. +.+++...++.+|..|+... ++||||||||++..+|.+.
T Consensus       221 lVqKYiGEGaRlVRelF~lAreka-PsIIFiDEIDAIg~kR~d~  263 (406)
T COG1222         221 LVQKYIGEGARLVRELFELAREKA-PSIIFIDEIDAIGAKRFDS  263 (406)
T ss_pred             HHHHHhccchHHHHHHHHHHhhcC-CeEEEEechhhhhcccccC
Confidence            875 77888999999999999766 8999999999999998764

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

Probab=99.76  E-value=3.2e-19  Score=170.17  Aligned_cols=110  Identities=28%  Similarity=0.479  Sum_probs=98.4

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhcccccc-ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc-ccchhH
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIH-QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQ  429 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~-~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l-~~~~~e  429 (466)
                      .+..+|+||||+++++...+-+..++.++... .|.++|||||||||||||++|++||++.+.|++.|....+ +...++
T Consensus       115 ~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVGd  194 (368)
T COG1223         115 ISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGD  194 (368)
T ss_pred             hccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhhh
Confidence            34568999999999999999999999998644 4778999999999999999999999999999999998775 457788


Q ss_pred             HHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          430 AVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       430 ~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ....++.+++.|+... +||+||||+|++.-+|
T Consensus       195 gar~Ihely~rA~~~a-PcivFiDE~DAiaLdR  226 (368)
T COG1223         195 GARRIHELYERARKAA-PCIVFIDELDAIALDR  226 (368)
T ss_pred             HHHHHHHHHHHHHhcC-CeEEEehhhhhhhhhh
Confidence            8999999999999887 8999999999998665

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.75  E-value=4.8e-19  Score=184.45  Aligned_cols=195  Identities=16%  Similarity=0.210  Sum_probs=149.6

Q ss_pred             ccccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhh
Q 012305          231 EAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRI  310 (466)
Q Consensus       231 ~~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~  310 (466)
                      ..+...|+.+.+++++ ..+...++..|+..             +++.+++++||++++..+|.++|.|   +++|+.|+
T Consensus        44 i~~~~~~lvl~Di~mp-~~~Gl~ll~~i~~~-------------~~~~pVI~~Tg~g~i~~AV~A~k~G---A~Dfl~KP  106 (464)
T COG2204          44 LSESPFDLVLLDIRMP-GMDGLELLKEIKSR-------------DPDLPVIVMTGHGDIDTAVEALRLG---AFDFLEKP  106 (464)
T ss_pred             HhcCCCCEEEEecCCC-CCchHHHHHHHHhh-------------CCCCCEEEEeCCCCHHHHHHHHhcC---cceeeeCC
Confidence            3344789999999998 56888899888887             8999999999999999999999999   89999999


Q ss_pred             hCCCccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccc
Q 012305          311 LGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNM  390 (466)
Q Consensus       311 lg~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~v  390 (466)
                      +....|           ...+.+++.......++..  ..........++||.+..+..|...+..++.++.+      |
T Consensus       107 ~~~~~L-----------~~~v~ral~~~~~~~e~~~--~~~~~~~~~~~liG~S~am~~l~~~i~kvA~s~a~------V  167 (464)
T COG2204         107 FDLDRL-----------LAIVERALELRELQRENRR--SLKRAKSLGGELVGESPAMQQLRRLIAKVAPSDAS------V  167 (464)
T ss_pred             CCHHHH-----------HHHHHHHHHHhhhhhhhhh--hhhccccccCCceecCHHHHHHHHHHHHHhCCCCC------E
Confidence            996655           2344455443322111111  11122345678999999999999999999998887      9


Q ss_pred             cccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch--hHHHHHHHHHHhhhhhcc-------CceEEEecccccc
Q 012305          391 LFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG--AQAVTKIHEIFDWAKKSK-------KGLLLFIDEADAF  458 (466)
Q Consensus       391 Ll~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~--~e~~~~l~~lf~~A~~~~-------~~~iLflDEid~l  458 (466)
                      ||+|++||||.++|++|+..+   +.||+.+||+.+++..  .+.++.-.+.|..|...+       .|++||||||+.|
T Consensus       168 LI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l~ESELFGhekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~m  247 (464)
T COG2204         168 LITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENLLESELFGHEKGAFTGAITRRIGRFEQANGGTLFLDEIGEM  247 (464)
T ss_pred             EEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHHHHHHHhhcccccCcCCcccccCcceeEcCCceEEeeccccC
Confidence            999999999999999999999   6799999999998733  333444444444443321       2699999999998


Q ss_pred             ccc
Q 012305          459 LCD  461 (466)
Q Consensus       459 ~~~  461 (466)
                      ...
T Consensus       248 pl~  250 (464)
T COG2204         248 PLE  250 (464)
T ss_pred             CHH
Confidence            654

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

Probab=99.71  E-value=5.6e-18  Score=177.05  Aligned_cols=110  Identities=27%  Similarity=0.406  Sum_probs=98.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~  428 (466)
                      ...|.++-|.+.....|+.++..+.++..    +..|+++||||||||||||+||++||+++|.||+.|++..+.. +.+
T Consensus       186 nv~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSG  265 (802)
T KOG0733|consen  186 NVSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSG  265 (802)
T ss_pred             CcchhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCc
Confidence            45789999999999999998888776542    3478899999999999999999999999999999999998764 778


Q ss_pred             HHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      ++...++.+|+.|.... +|||||||||++.++|..
T Consensus       266 ESEkkiRelF~~A~~~a-PcivFiDeIDAI~pkRe~  300 (802)
T KOG0733|consen  266 ESEKKIRELFDQAKSNA-PCIVFIDEIDAITPKREE  300 (802)
T ss_pred             ccHHHHHHHHHHHhccC-CeEEEeecccccccchhh
Confidence            99999999999999877 899999999999999864

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

Probab=99.71  E-value=9e-18  Score=173.17  Aligned_cols=110  Identities=22%  Similarity=0.369  Sum_probs=99.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~  428 (466)
                      ...|+||-|-++++..|.+++.++.++..    ++.-|++|||+||||||||+||+++|.+.|.||+...|+.+-. +.+
T Consensus       300 nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VG  379 (752)
T KOG0734|consen  300 NVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVG  379 (752)
T ss_pred             ccccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhc
Confidence            45699999999999999999999988643    3566799999999999999999999999999999999999876 566


Q ss_pred             HHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      ....+++.+|..|+++. +|||||||||++.++|..
T Consensus       380 vGArRVRdLF~aAk~~A-PcIIFIDEiDavG~kR~~  414 (752)
T KOG0734|consen  380 VGARRVRDLFAAAKARA-PCIIFIDEIDAVGGKRNP  414 (752)
T ss_pred             ccHHHHHHHHHHHHhcC-CeEEEEechhhhcccCCc
Confidence            77899999999999877 899999999999998864

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

Probab=99.70  E-value=7.9e-18  Score=168.31  Aligned_cols=112  Identities=21%  Similarity=0.339  Sum_probs=96.6

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHH-hhccc---cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAK-ATANT---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~-~~~~~---~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      ++...|+||.|..++++-|.+.+- .+.-+   +.-..|+++|||+||||||||+||++||.++|..|+.|+.+++.. +
T Consensus       206 np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltSKw  285 (491)
T KOG0738|consen  206 NPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKW  285 (491)
T ss_pred             CCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhhhh
Confidence            456789999999999999987432 22222   233578999999999999999999999999999999999998875 8


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+++...++-||+.|+.+. +++|||||||+|..+|+.
T Consensus       286 RGeSEKlvRlLFemARfyA-PStIFiDEIDslcs~RG~  322 (491)
T KOG0738|consen  286 RGESEKLVRLLFEMARFYA-PSTIFIDEIDSLCSQRGG  322 (491)
T ss_pred             ccchHHHHHHHHHHHHHhC-CceeehhhHHHHHhcCCC
Confidence            8899999999999999888 899999999999998875

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

Probab=99.68  E-value=1.8e-17  Score=173.28  Aligned_cols=113  Identities=20%  Similarity=0.343  Sum_probs=96.7

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHH-hhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAK-ATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-  425 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~-~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-  425 (466)
                      -++.+|+||-+..++...|...+. .+.++..    +..++.+||||||||||||++|+++|++.|.+|+.|.|+.+.. 
T Consensus       505 VPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNk  584 (802)
T KOG0733|consen  505 VPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNK  584 (802)
T ss_pred             cCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHH
Confidence            367789999999999999987443 3444322    2345689999999999999999999999999999999999865 


Q ss_pred             chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305          426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                      |.+++...++.+|..|+.+. +||||+||||+|.+.|++.
T Consensus       585 YVGESErAVR~vFqRAR~sa-PCVIFFDEiDaL~p~R~~~  623 (802)
T KOG0733|consen  585 YVGESERAVRQVFQRARASA-PCVIFFDEIDALVPRRSDE  623 (802)
T ss_pred             HhhhHHHHHHHHHHHhhcCC-CeEEEecchhhcCcccCCC
Confidence            88999999999999999877 8999999999999999863

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

Probab=99.68  E-value=2.1e-17  Score=174.74  Aligned_cols=112  Identities=25%  Similarity=0.446  Sum_probs=96.5

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhh-ccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKAT-ANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-  425 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~-~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-  425 (466)
                      -+..+|+||-|.++++..|.+.+.+- ..+    +-...|+++||||||||||||++|++||++++.+|+.|.|+++.. 
T Consensus       428 ~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk  507 (693)
T KOG0730|consen  428 MPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSK  507 (693)
T ss_pred             CCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHH
Confidence            45668899999999999998866542 221    222478899999999999999999999999999999999998764 


Q ss_pred             chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      |.+++...++.+|+.|+... ++||||||||++.+.|++
T Consensus       508 ~vGeSEr~ir~iF~kAR~~a-P~IiFfDEiDsi~~~R~g  545 (693)
T KOG0730|consen  508 YVGESERAIREVFRKARQVA-PCIIFFDEIDALAGSRGG  545 (693)
T ss_pred             hcCchHHHHHHHHHHHhhcC-CeEEehhhHHhHhhccCC
Confidence            88899999999999999888 599999999999999953

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

Probab=99.65  E-value=2.3e-16  Score=150.19  Aligned_cols=117  Identities=26%  Similarity=0.403  Sum_probs=95.6

Q ss_pred             cCccccccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305          348 AGPVEAIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD  422 (466)
Q Consensus       348 ~~~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~  422 (466)
                      ....++..++.|+-|.+-.+..++..+.. +...    ..+.-|+++||||||||||||+|++++|++....|+.+.|+.
T Consensus       145 ~~~ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgse  224 (408)
T KOG0727|consen  145 GPDEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSE  224 (408)
T ss_pred             CCCCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHH
Confidence            44456677888888888777778775542 1111    123468899999999999999999999999999999999998


Q ss_pred             ccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305          423 VAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       423 l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                      +.. +.++....++.+|+.|+.+. ++||||||||++..+|++.
T Consensus       225 fvqkylgegprmvrdvfrlakena-psiifideidaiatkrfda  267 (408)
T KOG0727|consen  225 FVQKYLGEGPRMVRDVFRLAKENA-PSIIFIDEIDAIATKRFDA  267 (408)
T ss_pred             HHHHHhccCcHHHHHHHHHHhccC-CcEEEeehhhhHhhhhccc
Confidence            764 66777888999999999877 8999999999999988763

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

Probab=99.65  E-value=8.4e-17  Score=171.99  Aligned_cols=117  Identities=21%  Similarity=0.370  Sum_probs=97.4

Q ss_pred             ccCccccccCCCCeeeCcchHHHHHHHHHh-hcccc---ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305          347 TAGPVEAIKNNGDIILHPSLQRRIQHLAKA-TANTK---IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD  422 (466)
Q Consensus       347 ~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~---~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~  422 (466)
                      ...+.-+...|+||-|.++++..|.+.+.. +..+.   .+-.+-.+||||||||||||++|+++|.++...|+.|.|+.
T Consensus       661 iGAPKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPE  740 (953)
T KOG0736|consen  661 IGAPKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPE  740 (953)
T ss_pred             cCCCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHH
Confidence            455556777899999999999999875543 22221   11223358999999999999999999999999999999999


Q ss_pred             ccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          423 VAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       423 l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      +.. +.+++..+++.+|+.|+... +||||+||+|++.++|++
T Consensus       741 LLNMYVGqSE~NVR~VFerAR~A~-PCVIFFDELDSlAP~RG~  782 (953)
T KOG0736|consen  741 LLNMYVGQSEENVREVFERARSAA-PCVIFFDELDSLAPNRGR  782 (953)
T ss_pred             HHHHHhcchHHHHHHHHHHhhccC-CeEEEeccccccCccCCC
Confidence            765 78899999999999999766 899999999999999975

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

Probab=99.65  E-value=7.8e-17  Score=174.91  Aligned_cols=113  Identities=23%  Similarity=0.371  Sum_probs=100.8

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhcccccc----ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIH----QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP  425 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~----~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~  425 (466)
                      ..+.+..|.||.|.++++..|.+++.++.|+..+    -.+|+++||+||||||||+||+++|.+.|.||+.++|+++..
T Consensus       303 ~~~t~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE  382 (774)
T KOG0731|consen  303 EGNTGVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVE  382 (774)
T ss_pred             CCCCCCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHH
Confidence            3455678999999999999999999999998654    366799999999999999999999999999999999999876


Q ss_pred             -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       +++...++++.+|..++.+. |+||||||||++.+.|+
T Consensus       383 ~~~g~~asrvr~lf~~ar~~a-P~iifideida~~~~r~  420 (774)
T KOG0731|consen  383 MFVGVGASRVRDLFPLARKNA-PSIIFIDEIDAVGRKRG  420 (774)
T ss_pred             HhcccchHHHHHHHHHhhccC-CeEEEeccccccccccc
Confidence             44445889999999999877 89999999999999884

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

Probab=99.64  E-value=9.4e-17  Score=155.85  Aligned_cols=112  Identities=21%  Similarity=0.414  Sum_probs=95.2

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHh-hccc---cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKA-TANT---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~---~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      .+...|+||-|.+.+++.|.+.+.. +.-+   .....|++++||||||||||+.||+++|.+.+..|+.|+.+|+.. +
T Consensus       127 KPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKW  206 (439)
T KOG0739|consen  127 KPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKW  206 (439)
T ss_pred             CCCCchhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHH
Confidence            4566789999999999999884432 2211   233578899999999999999999999999999999999999875 7


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      -+++...+..+|+.|+.++ ++||||||||.+++.|++
T Consensus       207 mGESEkLVknLFemARe~k-PSIIFiDEiDslcg~r~e  243 (439)
T KOG0739|consen  207 MGESEKLVKNLFEMARENK-PSIIFIDEIDSLCGSRSE  243 (439)
T ss_pred             hccHHHHHHHHHHHHHhcC-CcEEEeehhhhhccCCCC
Confidence            7899999999999999877 899999999999888763

>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=99.61  E-value=2.8e-16  Score=149.11  Aligned_cols=101  Identities=31%  Similarity=0.525  Sum_probs=66.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +.+|+++|||++++..+.-++.....   .+.++.|+|||||||||||+||+.||++++.+|..++++.+..     ...
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~---r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k-----~~d   91 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKK---RGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEK-----AGD   91 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHC---TTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--S-----CHH
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHh---cCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhh-----HHH
Confidence            56899999999999998876655422   2234458999999999999999999999999999888865432     223


Q ss_pred             HHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305          434 IHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       434 l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                      +..++...   ..+.|||||||+.|....+++
T Consensus        92 l~~il~~l---~~~~ILFIDEIHRlnk~~qe~  120 (233)
T PF05496_consen   92 LAAILTNL---KEGDILFIDEIHRLNKAQQEI  120 (233)
T ss_dssp             HHHHHHT-----TT-EEEECTCCC--HHHHHH
T ss_pred             HHHHHHhc---CCCcEEEEechhhccHHHHHH
Confidence            34444433   347899999999998766543

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.57  E-value=7.4e-15  Score=166.10  Aligned_cols=254  Identities=16%  Similarity=0.152  Sum_probs=141.9

Q ss_pred             hHHHHHhhcccHHHHhhcchhhhhhchhhhhhHHHHhhhhHH---HHHHHHHhhHHHHhHhhhhhhhhhhhhhhhhcccc
Q 012305          155 DELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEE---QIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHE  231 (466)
Q Consensus       155 d~l~r~r~q~E~e~~~~~~e~~~~~qees~~r~E~~r~~~~e---~~~~~r~~~e~e~~~~~~~~~~~~~~~e~e~~~~~  231 (466)
                      +.++++..+++.+.+.+..+.    +..+..|+++++.++++   ++..++.+|..++.++....+....+++.+.+++.
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            455555555555555554442    22234455555555443   66668889998887776666666555555555555


Q ss_pred             cccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhh
Q 012305          232 AKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRIL  311 (466)
Q Consensus       232 ~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~l  311 (466)
                      ...+.|....      .+..+..+..+...+......-.   .+...+...|+               ...+..+|.+|+
T Consensus       489 a~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~v~---------------~~~i~~vv~~~t  544 (857)
T PRK10865        489 ARRVGDLARM------SELQYGKIPELEKQLAAATQLEG---KTMRLLRNKVT---------------DAEIAEVLARWT  544 (857)
T ss_pred             HHhhhhhhhH------HHhhhhhhHHHHHHHHHHHhhhc---cccccccCccC---------------HHHHHHHHHHHH
Confidence            5555555431      12223333333222111110000   00111112232               445788999999


Q ss_pred             CCCcc-ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccc-ccccccccc
Q 012305          312 GQPSL-IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANT-KIHQAPFRN  389 (466)
Q Consensus       312 g~p~l-vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~-~~~~~p~~~  389 (466)
                      |.|.- +.+....++      .+...                  .-...|||++.++..|...+...... ..+..|..+
T Consensus       545 gip~~~~~~~~~~~l------~~l~~------------------~l~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~  600 (857)
T PRK10865        545 GIPVSRMLESEREKL------LRMEQ------------------ELHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGS  600 (857)
T ss_pred             CCCchhhhhhHHHHH------HHHHH------------------HhCCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCce
Confidence            99973 222111111      11111                  12356999999999998877655432 233455567


Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--------------chhHHHHHHHHHHhhhhhccCceEEEe
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--------------LGAQAVTKIHEIFDWAKKSKKGLLLFI  452 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--------------~~~e~~~~l~~lf~~A~~~~~~~iLfl  452 (466)
                      +||+||||||||++|++|+..+   +.+|+.++|+.+..              .|.+.    .+.+..+-+..+++||||
T Consensus       601 ~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~~~~LiG~~pgy~g~~~----~g~l~~~v~~~p~~vLll  676 (857)
T PRK10865        601 FLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEE----GGYLTEAVRRRPYSVILL  676 (857)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhhHHHHhCCCCcccccch----hHHHHHHHHhCCCCeEEE
Confidence            9999999999999999999887   45677777765422              11111    122222223455899999


Q ss_pred             ccccccccccCC
Q 012305          453 DEADAFLCDNQD  464 (466)
Q Consensus       453 DEid~l~~~r~~  464 (466)
                      |||+.+.+..++
T Consensus       677 DEieka~~~v~~  688 (857)
T PRK10865        677 DEVEKAHPDVFN  688 (857)
T ss_pred             eehhhCCHHHHH
Confidence            999988765443

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

Probab=99.55  E-value=2.8e-15  Score=143.70  Aligned_cols=114  Identities=23%  Similarity=0.412  Sum_probs=95.7

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA  424 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~  424 (466)
                      ...++.++.||-|-.+.++.++.++.. +-++    ....-|+++||+|||||||||++|+++|+..+..|+.+.|+.+.
T Consensus       169 eekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigselv  248 (435)
T KOG0729|consen  169 EEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELV  248 (435)
T ss_pred             ecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHH
Confidence            345677889998999999999887653 1111    22346889999999999999999999999999999999999876


Q ss_pred             c-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      . +.++....++.+|+.|+..+ -||||+||||++.+-|++
T Consensus       249 qkyvgegarmvrelf~martkk-aciiffdeidaiggarfd  288 (435)
T KOG0729|consen  249 QKYVGEGARMVRELFEMARTKK-ACIIFFDEIDAIGGARFD  288 (435)
T ss_pred             HHHhhhhHHHHHHHHHHhcccc-eEEEEeeccccccCcccc
Confidence            4 77888999999999999644 899999999999988764

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.55  E-value=2.7e-15  Score=160.69  Aligned_cols=112  Identities=23%  Similarity=0.398  Sum_probs=93.4

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      .+..+|++|+|.+.++..+..++..+.++..    +..+++++|||||||||||+++++||..++.+|+.++++++.. +
T Consensus        49 ~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~  128 (495)
T TIGR01241        49 KPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF  128 (495)
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHH
Confidence            4567899999999999999998887665432    3456689999999999999999999999999999999887644 3


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+.+...++.+|..++... ++||||||||.+++++++
T Consensus       129 ~g~~~~~l~~~f~~a~~~~-p~Il~iDEid~l~~~r~~  165 (495)
T TIGR01241       129 VGVGASRVRDLFEQAKKNA-PCIIFIDEIDAVGRQRGA  165 (495)
T ss_pred             hcccHHHHHHHHHHHHhcC-CCEEEEechhhhhhcccc
Confidence            3455678899999998655 799999999999887754

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.

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

Probab=99.54  E-value=5.9e-15  Score=143.05  Aligned_cols=116  Identities=22%  Similarity=0.346  Sum_probs=92.7

Q ss_pred             CccccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305          349 GPVEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV  423 (466)
Q Consensus       349 ~~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l  423 (466)
                      ....+..++.|+-|.++.+..|...+.. +.++.    -...|+++|+|||+||||||+||+++|+.....|+.+.|+++
T Consensus       176 ~eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseL  255 (440)
T KOG0726|consen  176 VEKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSEL  255 (440)
T ss_pred             cccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHH
Confidence            3345667788887777777666654332 22221    124788999999999999999999999999999999999987


Q ss_pred             cc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305          424 AP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       424 ~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                      .. +.++....++++|..|.... ++|+||||||++..+|.+.
T Consensus       256 iQkylGdGpklvRqlF~vA~e~a-pSIvFiDEIdAiGtKRyds  297 (440)
T KOG0726|consen  256 IQKYLGDGPKLVRELFRVAEEHA-PSIVFIDEIDAIGTKRYDS  297 (440)
T ss_pred             HHHHhccchHHHHHHHHHHHhcC-CceEEeehhhhhccccccC
Confidence            64 66777888999999999877 8999999999999988753

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

Probab=99.54  E-value=3.8e-15  Score=159.22  Aligned_cols=111  Identities=25%  Similarity=0.423  Sum_probs=99.3

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhcccccc----ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIH----QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~----~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      .....|.|+.|.+++++.+.+++..+.++...    ...++++||+||||||||+||+++|.+.+.||..++|+++.. +
T Consensus       144 ~~~v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemf  223 (596)
T COG0465         144 QVKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF  223 (596)
T ss_pred             ccCcChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhh
Confidence            34568999999999999999999999987644    355699999999999999999999999999999999999876 5


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .+-..+.++.+|..|++.. +|||||||||+..+.|+
T Consensus       224 VGvGAsRVRdLF~qAkk~a-P~IIFIDEiDAvGr~Rg  259 (596)
T COG0465         224 VGVGASRVRDLFEQAKKNA-PCIIFIDEIDAVGRQRG  259 (596)
T ss_pred             cCCCcHHHHHHHHHhhccC-CCeEEEehhhhcccccC
Confidence            5566789999999999888 69999999999998885

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

Probab=99.54  E-value=7.9e-15  Score=160.47  Aligned_cols=138  Identities=19%  Similarity=0.218  Sum_probs=97.6

Q ss_pred             ceehhhhhhhhhCCCcc-ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhc
Q 012305          300 ARVTWGYVNRILGQPSL-IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATA  378 (466)
Q Consensus       300 ~~~~~~~v~~~lg~p~l-vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~  378 (466)
                      ...+..+|.+|+|+|.- +.+..+.++   ..+...+                     -..||||++++..|...+...+
T Consensus       456 ~~~Ia~vv~~~TgIPv~~l~~~e~~kl---l~le~~L---------------------~~rViGQd~AV~avs~aIrraR  511 (786)
T COG0542         456 EDDIAEVVARWTGIPVAKLLEDEKEKL---LNLERRL---------------------KKRVIGQDEAVEAVSDAIRRAR  511 (786)
T ss_pred             HHHHHHHHHHHHCCChhhhchhhHHHH---HHHHHHH---------------------hcceeChHHHHHHHHHHHHHHh
Confidence            45688899999999974 333332221   1111111                     1459999999999988665544


Q ss_pred             c-ccccccccccccccCCCCCCchHHHHHHHHhhC---Cc--------------chhhcCCCcccchhHHHHHHHHHHhh
Q 012305          379 N-TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---LD--------------YAMMTGGDVAPLGAQAVTKIHEIFDW  440 (466)
Q Consensus       379 ~-~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---~~--------------~~~v~~~~l~~~~~e~~~~l~~lf~~  440 (466)
                      . ...+..|..++||.||+|+|||.+|++||..+.   ..              +..+.|+..+|.|++..+.+...++ 
T Consensus       512 aGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyeeGG~LTEaVR-  590 (786)
T COG0542         512 AGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVR-  590 (786)
T ss_pred             cCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHhCCCCCCceeccccchhHhhh-
Confidence            4 466678889999999999999999999999993   22              3444566666777766555444433 


Q ss_pred             hhhccCceEEEeccccccccccCCC
Q 012305          441 AKKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       441 A~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                         .+|++||+||||+..+++-.|+
T Consensus       591 ---r~PySViLlDEIEKAHpdV~ni  612 (786)
T COG0542         591 ---RKPYSVILLDEIEKAHPDVFNL  612 (786)
T ss_pred             ---cCCCeEEEechhhhcCHHHHHH
Confidence               5679999999999999876654

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

Probab=99.54  E-value=6e-15  Score=158.01  Aligned_cols=113  Identities=24%  Similarity=0.384  Sum_probs=96.4

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhccccc-----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKI-----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP  425 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~-----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~  425 (466)
                      ..+...|.++.|....+..+.+.+...-....     +..+++++|||||||||||++|+++|..++.+|+.+.++++.+
T Consensus       235 ~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~s  314 (494)
T COG0464         235 EDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLS  314 (494)
T ss_pred             CCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhc
Confidence            45667889999988888888887665333221     3466789999999999999999999999999999999998765


Q ss_pred             -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                       +.+++...++.+|..|+... ++||||||||++.+.|++
T Consensus       315 k~vGesek~ir~~F~~A~~~~-p~iiFiDEiDs~~~~r~~  353 (494)
T COG0464         315 KWVGESEKNIRELFEKARKLA-PSIIFIDEIDSLASGRGP  353 (494)
T ss_pred             cccchHHHHHHHHHHHHHcCC-CcEEEEEchhhhhccCCC
Confidence             88899999999999999766 899999999999998864

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.53  E-value=6.7e-15  Score=156.27  Aligned_cols=110  Identities=19%  Similarity=0.274  Sum_probs=88.9

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhcc--ccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chh
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATAN--TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGA  428 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~--~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~  428 (466)
                      .+..+|++|.|.+.++..+......+..  ...+..++++||||||||||||++|++||+.++.+|+.++++.+.. +.+
T Consensus       222 ~~~~~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vG  301 (489)
T CHL00195        222 SVNEKISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVG  301 (489)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccC
Confidence            3455789999999999888765443321  1223356689999999999999999999999999999999987653 666


Q ss_pred             HHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ++...++.+|..++... ++||||||||.++.++
T Consensus       302 ese~~l~~~f~~A~~~~-P~IL~IDEID~~~~~~  334 (489)
T CHL00195        302 ESESRMRQMIRIAEALS-PCILWIDEIDKAFSNS  334 (489)
T ss_pred             hHHHHHHHHHHHHHhcC-CcEEEehhhhhhhccc
Confidence            78889999999998766 8999999999987653

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

Probab=99.52  E-value=6.7e-14  Score=135.93  Aligned_cols=157  Identities=13%  Similarity=0.145  Sum_probs=138.5

Q ss_pred             CCCCCCCCCCCChHHHHHHH--HHHHHhcCChhhHHHHHHHHHhHhhhhhhhhhhhHHHHHHHhhhhHHHHHHhHHHHHH
Q 012305           61 REPEEPRGSGFDPEALERAA--KALREFNSSRHAREAFDIMRKQEQTRLAELDVEKVHYEAIQSQVDVERQRKLAEEHRN  138 (466)
Q Consensus        61 ~~~~~~~~~~fd~~~ler~a--~a~~~l~~s~~a~~~~~~~~~~e~~~~~E~~~~~~e~~~~~~~~~~~~~~~~~ee~r~  138 (466)
                      ++.+.+++++....+|+|.+  +|++.|+....++++   +++++.++.+| .++++|+.+..+++++...+.+.+..|+
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            34677889999999999998  999999999999999   99999999999 9999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcccchhHHHHHhhcccHHHHhhcchhhhhhch--hhhhhHHHHhhhhHHHHHHHHHhhHHHHhHhhhhh
Q 012305          139 LVQQKAQARAQGLRNEDELARKRLQTDHEAQRRHNTELVKMQE--ESSIRKEQARRSTEEQIQAQQRLTEKERAEIERET  216 (466)
Q Consensus       139 ~~~~q~~~~~~~a~~~d~l~r~r~q~E~e~~~~~~e~~~~~qe--es~~r~E~~r~~~~e~~~~~r~~~e~e~~~~~~~~  216 (466)
                      ..+++.+..++.++.+.+.+  +|++++++++.+.+...+++.  +.+++||+.-...++    +|++++++...+++.+
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            99999999999888888888  999999999998776555443  666777766666555    9999999999999988


Q ss_pred             hhhhhhhhhhh
Q 012305          217 IRVKAMAEAEG  227 (466)
Q Consensus       217 ~~~~~~~e~e~  227 (466)
                      +..++.-+.+.
T Consensus       164 ~~~eaeL~~e~  174 (276)
T PF12037_consen  164 EEEEAELRRET  174 (276)
T ss_pred             HHHHHHHHHHH
Confidence            88887776664

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.

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

Probab=99.51  E-value=1.2e-14  Score=145.53  Aligned_cols=112  Identities=29%  Similarity=0.448  Sum_probs=93.9

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHh-hcccc-----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKA-TANTK-----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA  424 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~-----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~  424 (466)
                      .....+|+|+-|.+.++..+..++.. +..+.     .-..|.++||||||||||||++|+++|+..|.+|+-|.++.+.
T Consensus        85 ~~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt  164 (386)
T KOG0737|consen   85 SEIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLT  164 (386)
T ss_pred             hhceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccc
Confidence            34466889999999999999885542 22221     1135779999999999999999999999999999999999887


Q ss_pred             c-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      . +.+++...+..+|..|.+.. |+||||||||.|++.|+
T Consensus       165 ~KWfgE~eKlv~AvFslAsKl~-P~iIFIDEvds~L~~R~  203 (386)
T KOG0737|consen  165 SKWFGEAQKLVKAVFSLASKLQ-PSIIFIDEVDSFLGQRR  203 (386)
T ss_pred             hhhHHHHHHHHHHHHhhhhhcC-cceeehhhHHHHHhhcc
Confidence            6 66788899999999999888 89999999999998873

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

Probab=99.51  E-value=1.4e-14  Score=146.39  Aligned_cols=81  Identities=20%  Similarity=0.228  Sum_probs=72.4

Q ss_pred             cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhHHHHHHHHHHhhhhh----ccCceEEEeccccc
Q 012305          383 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQAVTKIHEIFDWAKK----SKKGLLLFIDEADA  457 (466)
Q Consensus       383 ~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e~~~~l~~lf~~A~~----~~~~~iLflDEid~  457 (466)
                      +..++++++||||||||||++|+++|+.+|.+|+.++++++.. +.+++...++.+|..|..    ...+|||||||||+
T Consensus       144 ~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA  223 (413)
T PLN00020        144 NIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDA  223 (413)
T ss_pred             CCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhh
Confidence            3467799999999999999999999999999999999998864 888999999999998874    23589999999999


Q ss_pred             cccccC
Q 012305          458 FLCDNQ  463 (466)
Q Consensus       458 l~~~r~  463 (466)
                      +++.|+
T Consensus       224 ~~g~r~  229 (413)
T PLN00020        224 GAGRFG  229 (413)
T ss_pred             cCCCCC
Confidence            998875

>CHL00176 ftsH cell division protein; Validated

Probab=99.51  E-value=1.3e-14  Score=158.70  Aligned_cols=111  Identities=22%  Similarity=0.351  Sum_probs=93.0

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      ....+|+||+|.++.++.+..++..+.++..    ...+++++|||||||||||++|++||..++.+|+.++|+++.. +
T Consensus       177 ~~~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~  256 (638)
T CHL00176        177 DTGITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMF  256 (638)
T ss_pred             CCCCCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHh
Confidence            4456899999999999999999888777654    3455689999999999999999999999999999999988754 3


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .+.....++.+|..+.... ++||||||||.+.++|+
T Consensus       257 ~g~~~~~vr~lF~~A~~~~-P~ILfIDEID~l~~~r~  292 (638)
T CHL00176        257 VGVGAARVRDLFKKAKENS-PCIVFIDEIDAVGRQRG  292 (638)
T ss_pred             hhhhHHHHHHHHHHHhcCC-CcEEEEecchhhhhccc
Confidence            3344567889999998655 79999999999987654

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

Probab=99.50  E-value=3.1e-14  Score=136.24  Aligned_cols=116  Identities=23%  Similarity=0.355  Sum_probs=90.5

Q ss_pred             CccccccCCCCeeeCcchHHHHHHHH-Hhhccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305          349 GPVEAIKNNGDIILHPSLQRRIQHLA-KATANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV  423 (466)
Q Consensus       349 ~~~~~~~~l~~vVg~~~~~~~l~~~~-~~~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l  423 (466)
                      ....+...+.||-|.+..++.|...+ ..+...    +-+..|++++|+|||||||||++|++.|...+..|+.+.|+.+
T Consensus       162 vDekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQL  241 (424)
T KOG0652|consen  162 VDEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQL  241 (424)
T ss_pred             eccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHH
Confidence            34456667788877666655554422 222221    2235788999999999999999999999999999999999987


Q ss_pred             cc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305          424 AP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       424 ~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                      .. +.++....++..|..|+... ++||||||+|++..+|+++
T Consensus       242 VQMfIGdGAkLVRDAFaLAKEka-P~IIFIDElDAIGtKRfDS  283 (424)
T KOG0652|consen  242 VQMFIGDGAKLVRDAFALAKEKA-PTIIFIDELDAIGTKRFDS  283 (424)
T ss_pred             HhhhhcchHHHHHHHHHHhhccC-CeEEEEechhhhccccccc
Confidence            65 56677888999999998655 8999999999999999864

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.50  E-value=1.4e-14  Score=150.68  Aligned_cols=111  Identities=23%  Similarity=0.446  Sum_probs=89.5

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-  425 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-  425 (466)
                      .+...|++|+|.+..++.|...+.. +.++    ..+..|+++||||||||||||++|+++|+.++.+|+.++++++.. 
T Consensus       125 ~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~  204 (389)
T PRK03992        125 SPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQK  204 (389)
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHh
Confidence            4566788999999999999886643 3322    122356789999999999999999999999999999999988753 


Q ss_pred             chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.+++...++.+|..+.... ++||||||||.++++|.
T Consensus       205 ~~g~~~~~i~~~f~~a~~~~-p~IlfiDEiD~l~~~r~  241 (389)
T PRK03992        205 FIGEGARLVRELFELAREKA-PSIIFIDEIDAIAAKRT  241 (389)
T ss_pred             hccchHHHHHHHHHHHHhcC-CeEEEEechhhhhcccc
Confidence            44556678889999988655 79999999999987664

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

Probab=99.50  E-value=1.3e-14  Score=150.88  Aligned_cols=112  Identities=24%  Similarity=0.408  Sum_probs=90.9

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHH-hhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAK-ATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP  425 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~-~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~  425 (466)
                      ..+..+|+||.|.+..++.|...+. .+.++.    .+..|++++|||||||||||++++++|+.++.+|+.+.++++..
T Consensus       138 ~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~  217 (398)
T PTZ00454        138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQ  217 (398)
T ss_pred             CCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHH
Confidence            4567789999999999999988765 333322    22356799999999999999999999999999999998876543


Q ss_pred             -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       +.+++...++.+|..++... ++||||||||.++++|.
T Consensus       218 k~~ge~~~~lr~lf~~A~~~~-P~ILfIDEID~i~~~r~  255 (398)
T PTZ00454        218 KYLGEGPRMVRDVFRLARENA-PSIIFIDEVDSIATKRF  255 (398)
T ss_pred             HhcchhHHHHHHHHHHHHhcC-CeEEEEECHhhhccccc
Confidence             45566778899999998765 79999999999987763

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

Probab=99.49  E-value=1e-14  Score=147.36  Aligned_cols=102  Identities=28%  Similarity=0.472  Sum_probs=80.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +.+|+++|||.++...-.-+.+.+....-     .+++||||||||||++|+.|+...+..|..++...      .++..
T Consensus        20 P~~lde~vGQ~HLlg~~~~lrr~v~~~~l-----~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~------~gvkd   88 (436)
T COG2256          20 PKSLDEVVGQEHLLGEGKPLRRAVEAGHL-----HSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT------SGVKD   88 (436)
T ss_pred             CCCHHHhcChHhhhCCCchHHHHHhcCCC-----ceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc------ccHHH
Confidence            56789999999988554444334433333     37999999999999999999999999999988754      34678


Q ss_pred             HHHHHhhhhhc---cCceEEEeccccccccccCCCC
Q 012305          434 IHEIFDWAKKS---KKGLLLFIDEADAFLCDNQDFI  466 (466)
Q Consensus       434 l~~lf~~A~~~---~~~~iLflDEid~l~~~r~~~l  466 (466)
                      ++.+++.++..   ++..|||||||+.|....|++|
T Consensus        89 lr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l  124 (436)
T COG2256          89 LREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDAL  124 (436)
T ss_pred             HHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhh
Confidence            88999888653   3469999999999998888765

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.47  E-value=3.6e-14  Score=158.85  Aligned_cols=110  Identities=25%  Similarity=0.428  Sum_probs=91.9

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      +...|++++|.+.++..|...+.. +....    .+..+++++|||||||||||++|++||..++.+|+.++++++.. +
T Consensus       448 ~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~  527 (733)
T TIGR01243       448 PNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKW  527 (733)
T ss_pred             cccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcc
Confidence            456789999999999999886653 22211    23456789999999999999999999999999999999988753 6


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .+++...++.+|..|+... ++||||||||.|+++|+
T Consensus       528 vGese~~i~~~f~~A~~~~-p~iifiDEid~l~~~r~  563 (733)
T TIGR01243       528 VGESEKAIREIFRKARQAA-PAIIFFDEIDAIAPARG  563 (733)
T ss_pred             cCcHHHHHHHHHHHHHhcC-CEEEEEEChhhhhccCC
Confidence            6778889999999999766 89999999999998775

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.

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

Probab=99.47  E-value=2.1e-14  Score=152.65  Aligned_cols=111  Identities=23%  Similarity=0.337  Sum_probs=92.2

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccc-----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANT-----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~-----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      .+..|+|+-|..++++.|.+++.+-...     ..+.+-..+||||||||||||++|.+++..++..|+.+.|+.+.. +
T Consensus       662 tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~Ky  741 (952)
T KOG0735|consen  662 TGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKY  741 (952)
T ss_pred             CCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHH
Confidence            3467899999999999999887653221     111122358999999999999999999999999999999998754 6


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+.+...++.+|..|...+ +||||+||.|++.++|+.
T Consensus       742 IGaSEq~vR~lF~rA~~a~-PCiLFFDEfdSiAPkRGh  778 (952)
T KOG0735|consen  742 IGASEQNVRDLFERAQSAK-PCILFFDEFDSIAPKRGH  778 (952)
T ss_pred             hcccHHHHHHHHHHhhccC-CeEEEeccccccCcccCC
Confidence            6788899999999999766 899999999999999974

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

Probab=99.45  E-value=1.8e-13  Score=130.35  Aligned_cols=106  Identities=23%  Similarity=0.442  Sum_probs=82.8

Q ss_pred             CCee-eCcchHHHHHHHHHhh-cccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhHH
Q 012305          358 GDII-LHPSLQRRIQHLAKAT-ANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQA  430 (466)
Q Consensus       358 ~~vV-g~~~~~~~l~~~~~~~-~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e~  430 (466)
                      .++| |.+..++.+..++..- ..+.    -+...++++|||||||||||++|++++.+.++.|+.++|+.+.. +.++.
T Consensus       146 YeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvqk~igeg  225 (404)
T KOG0728|consen  146 YEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQKYIGEG  225 (404)
T ss_pred             HHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHHHHhhhh
Confidence            3444 4566666666665431 1111    11345689999999999999999999999999999999998764 66777


Q ss_pred             HHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          431 VTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       431 ~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      ...++.+|-.|+... ++|||+||||++...|.+
T Consensus       226 srmvrelfvmareha-psiifmdeidsigs~r~e  258 (404)
T KOG0728|consen  226 SRMVRELFVMAREHA-PSIIFMDEIDSIGSSRVE  258 (404)
T ss_pred             HHHHHHHHHHHHhcC-CceEeeeccccccccccc
Confidence            888999999999766 899999999999887753

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

Probab=99.44  E-value=6.3e-14  Score=146.91  Aligned_cols=112  Identities=23%  Similarity=0.407  Sum_probs=90.2

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP  425 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~  425 (466)
                      ..+..+|+||.|.+..++.+..++.. +.++.    .+..|++++|||||||||||++|++||+.++.+|+.+.++++..
T Consensus       176 ~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~  255 (438)
T PTZ00361        176 KAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQ  255 (438)
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhh
Confidence            34567889999999999999887653 33321    22356789999999999999999999999999999999888753


Q ss_pred             -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       +.++....++.+|..+.... ++||||||||.++.+|.
T Consensus       256 k~~Ge~~~~vr~lF~~A~~~~-P~ILfIDEID~l~~kR~  293 (438)
T PTZ00361        256 KYLGDGPKLVRELFRVAEENA-PSIVFIDEIDAIGTKRY  293 (438)
T ss_pred             hhcchHHHHHHHHHHHHHhCC-CcEEeHHHHHHHhccCC
Confidence             45566777899999998655 79999999999987764

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.44  E-value=4.3e-13  Score=152.15  Aligned_cols=137  Identities=18%  Similarity=0.191  Sum_probs=88.8

Q ss_pred             ceehhhhhhhhhCCCccc-cccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhc
Q 012305          300 ARVTWGYVNRILGQPSLI-RESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATA  378 (466)
Q Consensus       300 ~~~~~~~v~~~lg~p~lv-re~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~  378 (466)
                      ...+..+|.+|+|.|.-. ......+      +......+                  -..|+|++.+++.|...+....
T Consensus       530 ~~~i~~v~~~~tgip~~~~~~~e~~~------l~~l~~~l------------------~~~v~GQ~~av~~v~~~i~~~~  585 (852)
T TIGR03346       530 AEEIAEVVSRWTGIPVSKMLEGEREK------LLHMEEVL------------------HERVVGQDEAVEAVSDAIRRSR  585 (852)
T ss_pred             HHHHHHHHHHhcCCCcccccHHHHHH------HHHHHHHh------------------hcccCCChHHHHHHHHHHHHHh
Confidence            456788899999999742 2111111      11111111                  1458999999999988776654


Q ss_pred             cc-cccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--------------chhHHHHHHHHHHhh
Q 012305          379 NT-KIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--------------LGAQAVTKIHEIFDW  440 (466)
Q Consensus       379 ~~-~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--------------~~~e~~~~l~~lf~~  440 (466)
                      .. ..+..|..++||+||||||||++|++||..+   +.+++.++++.+..              .|.+..+   .+...
T Consensus       586 ~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~~~l~g~~~g~~g~~~~g---~l~~~  662 (852)
T TIGR03346       586 AGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSVARLIGAPPGYVGYEEGG---QLTEA  662 (852)
T ss_pred             ccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchHHHhcCCCCCccCccccc---HHHHH
Confidence            32 3344566789999999999999999999987   45677777765422              1111112   23333


Q ss_pred             hhhccCceEEEeccccccccccCC
Q 012305          441 AKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       441 A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+ ..+++|||||||+.+.++-++
T Consensus       663 v~-~~p~~vlllDeieka~~~v~~  685 (852)
T TIGR03346       663 VR-RKPYSVVLFDEVEKAHPDVFN  685 (852)
T ss_pred             HH-cCCCcEEEEeccccCCHHHHH
Confidence            33 345899999999999876544

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.

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

Probab=99.42  E-value=9.6e-14  Score=134.65  Aligned_cols=99  Identities=25%  Similarity=0.416  Sum_probs=77.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +..|+++||++.+++.+.-++....   ..+-.+-|+|||||||.|||+||..+|+++|.++-..+|+.+..     .+.
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk---~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK-----~gD   93 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAK---KRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEK-----PGD   93 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHH---hcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccC-----hhh
Confidence            5678999999999999987766543   33445678999999999999999999999999977777765532     234


Q ss_pred             HHHHHhhhhhccCceEEEeccccccccccC
Q 012305          434 IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       434 l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +..++...   .+++|||||||+.+.+...
T Consensus        94 laaiLt~L---e~~DVLFIDEIHrl~~~vE  120 (332)
T COG2255          94 LAAILTNL---EEGDVLFIDEIHRLSPAVE  120 (332)
T ss_pred             HHHHHhcC---CcCCeEEEehhhhcChhHH
Confidence            44555544   4489999999999987543

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.41  E-value=1.8e-13  Score=145.43  Aligned_cols=112  Identities=22%  Similarity=0.374  Sum_probs=84.2

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCc----------ch
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD----------YA  416 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~----------~~  416 (466)
                      .+..+|++|.|.+..++.+...+.. +.+.    ..+..|++++|||||||||||++++++++.++.+          |+
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            3566899999999999999886543 2222    1223567899999999999999999999998654          33


Q ss_pred             hhcCCCcc-cchhHHHHHHHHHHhhhhhc---cCceEEEeccccccccccC
Q 012305          417 MMTGGDVA-PLGAQAVTKIHEIFDWAKKS---KKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       417 ~v~~~~l~-~~~~e~~~~l~~lf~~A~~~---~~~~iLflDEid~l~~~r~  463 (466)
                      .+.++++. .+.+++...++.+|+.++..   ..++||||||||.++++|+
T Consensus       256 ~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~  306 (512)
T TIGR03689       256 NIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRG  306 (512)
T ss_pred             eccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccC
Confidence            44454443 35567778889999888753   2479999999999998765

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.39  E-value=2e-13  Score=140.90  Aligned_cols=112  Identities=26%  Similarity=0.439  Sum_probs=87.1

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP  425 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~  425 (466)
                      ..+...|++++|.+..++.+...+.. +.+..    .+..|++++|||||||||||++|+++++.++.+|+.+.++++..
T Consensus       115 ~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~  194 (364)
T TIGR01242       115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVR  194 (364)
T ss_pred             cCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHH
Confidence            34566788999999999999886653 22221    22356789999999999999999999999999999888776543


Q ss_pred             -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       +.++....++.+|..++... ++||||||+|.++.++.
T Consensus       195 ~~~g~~~~~i~~~f~~a~~~~-p~il~iDEiD~l~~~~~  232 (364)
T TIGR01242       195 KYIGEGARLVREIFELAKEKA-PSIIFIDEIDAIAAKRT  232 (364)
T ss_pred             HhhhHHHHHHHHHHHHHHhcC-CcEEEhhhhhhhccccc
Confidence             34455667888999887655 78999999999986654

Many proteins may score above the trusted cutoff because an internal

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

Probab=99.39  E-value=1.7e-13  Score=134.12  Aligned_cols=110  Identities=23%  Similarity=0.396  Sum_probs=89.7

Q ss_pred             cccCCCCeeeCcchHHHHHHHHH-hhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAK-ATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~-~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      ...+|+++-|.-.....+++.+. .+.++.    -+..||.+++||||||||||++|++++..+|.+|+.+..+.+.. +
T Consensus       127 ~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~ky  206 (388)
T KOG0651|consen  127 RNISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKY  206 (388)
T ss_pred             cccCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhh
Confidence            34578888777777777766443 233322    24568899999999999999999999999999999999888765 7


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .+++...+++.|..|+..- +||||+||||+..+.+.
T Consensus       207 iGEsaRlIRemf~yA~~~~-pciifmdeiDAigGRr~  242 (388)
T KOG0651|consen  207 IGESARLIRDMFRYAREVI-PCIIFMDEIDAIGGRRF  242 (388)
T ss_pred             cccHHHHHHHHHHHHhhhC-ceEEeehhhhhhccEEe
Confidence            7789999999999999766 79999999999988764

>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=99.38  E-value=3.4e-13  Score=117.39  Aligned_cols=73  Identities=38%  Similarity=0.650  Sum_probs=65.1

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ||||||||||||++++.+++.++.+|+.++++.+. .+..+....+..+|..+.....++||||||+|.+..+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~   74 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKS   74 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHC
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccc
Confidence            68999999999999999999999999999999886 46677888999999998766546999999999998765

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 ....

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.38  E-value=2.8e-13  Score=133.42  Aligned_cols=100  Identities=24%  Similarity=0.265  Sum_probs=72.7

Q ss_pred             CCCeeeCcchHHHHHHHHHhhcccc-------ccccccccccccCCCCCCchHHHHHHHHhh-------CCcchhhcCCC
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTK-------IHQAPFRNMLFYGPPGTGKTMVAREIARKS-------GLDYAMMTGGD  422 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~-------~~~~p~~~vLl~GppGTGKT~lA~alA~~l-------~~~~~~v~~~~  422 (466)
                      ++++||.+.++..|..+........       .......|+|||||||||||++|+.+++.+       ..+|+.+++++
T Consensus         5 l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~   84 (261)
T TIGR02881         5 LSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERAD   84 (261)
T ss_pred             HHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHH
Confidence            4779999999999998776643321       111223589999999999999999999875       23456666665


Q ss_pred             ccc-chhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          423 VAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       423 l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      +.. +.++....+.++|..+.    ++||||||||.|..
T Consensus        85 l~~~~~g~~~~~~~~~~~~a~----~~VL~IDE~~~L~~  119 (261)
T TIGR02881        85 LVGEYIGHTAQKTREVIKKAL----GGVLFIDEAYSLAR  119 (261)
T ss_pred             hhhhhccchHHHHHHHHHhcc----CCEEEEechhhhcc
Confidence            532 34455667778887764    68999999999864

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.37  E-value=2.8e-12  Score=144.93  Aligned_cols=136  Identities=16%  Similarity=0.172  Sum_probs=86.7

Q ss_pred             ceehhhhhhhhhCCCcc-ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhc
Q 012305          300 ARVTWGYVNRILGQPSL-IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATA  378 (466)
Q Consensus       300 ~~~~~~~v~~~lg~p~l-vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~  378 (466)
                      ...+..+|.+|+|.|.- +......+      +......+                  -..|+|+++++..|...+....
T Consensus       531 ~~~i~~vv~~~tgip~~~~~~~e~~~------l~~l~~~L------------------~~~v~GQ~~Av~~v~~~i~~~~  586 (852)
T TIGR03345       531 AQAVAEVVADWTGIPVGRMVRDEIEA------VLSLPDRL------------------AERVIGQDHALEAIAERIRTAR  586 (852)
T ss_pred             HHHHHHHHHHHHCCCchhhchhHHHH------HHHHHHHh------------------cCeEcChHHHHHHHHHHHHHHh
Confidence            45688899999999983 22111111      11111111                  1459999999999988665543


Q ss_pred             c-ccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc--------------ccchhHHHHHHHHHHhh
Q 012305          379 N-TKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV--------------APLGAQAVTKIHEIFDW  440 (466)
Q Consensus       379 ~-~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l--------------~~~~~e~~~~l~~lf~~  440 (466)
                      . ...+..|...+||+||||||||.+|++||..+   +..|+.++++++              ++.|....+.+   .+.
T Consensus       587 ~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~~~l~g~~~gyvg~~~~g~L---~~~  663 (852)
T TIGR03345       587 AGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRLKGSPPGYVGYGEGGVL---TEA  663 (852)
T ss_pred             cCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhhccccCCCCCcccccccchH---HHH
Confidence            3 23344565679999999999999999999988   335566665443              22232222222   333


Q ss_pred             hhhccCceEEEeccccccccccC
Q 012305          441 AKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       441 A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .++ .|++||||||||.+.+...
T Consensus       664 v~~-~p~svvllDEieka~~~v~  685 (852)
T TIGR03345       664 VRR-KPYSVVLLDEVEKAHPDVL  685 (852)
T ss_pred             HHh-CCCcEEEEechhhcCHHHH
Confidence            333 5689999999999887644

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.33  E-value=1.1e-12  Score=146.92  Aligned_cols=111  Identities=25%  Similarity=0.472  Sum_probs=89.5

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      +..+|++|+|.+..++.+..++.. +.++.    ....|++++|||||||||||+++++||+.++.+|+.++++++.. +
T Consensus       173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~  252 (733)
T TIGR01243       173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKY  252 (733)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhccc
Confidence            456889999999999999887654 22221    22356689999999999999999999999999999999887643 4


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+++...++.+|+.+.... ++||||||||.+.++++.
T Consensus       253 ~g~~~~~l~~lf~~a~~~~-p~il~iDEid~l~~~r~~  289 (733)
T TIGR01243       253 YGESEERLREIFKEAEENA-PSIIFIDEIDAIAPKREE  289 (733)
T ss_pred             ccHHHHHHHHHHHHHHhcC-CcEEEeehhhhhcccccC
Confidence            4566778999999988655 789999999999887653

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.

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

Probab=99.28  E-value=3.1e-12  Score=131.98  Aligned_cols=111  Identities=25%  Similarity=0.416  Sum_probs=91.9

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhcc-c---cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATAN-T---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~-~---~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      ....|+|+-|...++..+...+.+... +   ..-..|.+++||.||||||||+++++||.+++..|+.++.+.+.. +.
T Consensus       148 ~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK~~  227 (428)
T KOG0740|consen  148 RNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSKYV  227 (428)
T ss_pred             CcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhhcc
Confidence            345688999988998888775544221 1   122456789999999999999999999999999999999998875 77


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      +++...++.+|..|+... ++|+||||||.++.+|.+
T Consensus       228 Ge~eK~vralf~vAr~~q-PsvifidEidslls~Rs~  263 (428)
T KOG0740|consen  228 GESEKLVRALFKVARSLQ-PSVIFIDEIDSLLSKRSD  263 (428)
T ss_pred             ChHHHHHHHHHHHHHhcC-CeEEEechhHHHHhhcCC
Confidence            788899999999999655 899999999999998854

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

Probab=99.26  E-value=2.5e-12  Score=143.12  Aligned_cols=136  Identities=18%  Similarity=0.194  Sum_probs=90.7

Q ss_pred             eehhhhhhhhhCCCccc-cccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhcc
Q 012305          301 RVTWGYVNRILGQPSLI-RESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATAN  379 (466)
Q Consensus       301 ~~~~~~v~~~lg~p~lv-re~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~  379 (466)
                      ..+..++.+|+|.|... ......      .+......+                  -..|||++++++.|...+.....
T Consensus       424 ~~i~~v~~~~tgip~~~~~~~~~~------~l~~l~~~L------------------~~~ViGQ~~ai~~l~~~i~~~~~  479 (758)
T PRK11034        424 ADIESVVARIARIPEKSVSQSDRD------TLKNLGDRL------------------KMLVFGQDKAIEALTEAIKMSRA  479 (758)
T ss_pred             hhHHHHHHHHhCCChhhhhhhHHH------HHHHHHHHh------------------cceEeCcHHHHHHHHHHHHHHhc
Confidence            56788899999999842 221110      111111111                  13589999999999887765433


Q ss_pred             c-cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc--------------chhHHHHHHHHHHhhhhhc
Q 012305          380 T-KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP--------------LGAQAVTKIHEIFDWAKKS  444 (466)
Q Consensus       380 ~-~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~--------------~~~e~~~~l~~lf~~A~~~  444 (466)
                      . ..+..|..++||+||||||||++|+.||..++.+|+.++|+++..              .|.+..+   .+.+..+ .
T Consensus       480 gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~~gyvg~~~~g---~L~~~v~-~  555 (758)
T PRK11034        480 GLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGG---LLTDAVI-K  555 (758)
T ss_pred             cccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCCCCcccccccc---hHHHHHH-h
Confidence            2 233556678999999999999999999999999999998877532              1111111   2223333 3


Q ss_pred             cCceEEEeccccccccccCC
Q 012305          445 KKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       445 ~~~~iLflDEid~l~~~r~~  464 (466)
                      .+++||||||||.+.++.++
T Consensus       556 ~p~sVlllDEieka~~~v~~  575 (758)
T PRK11034        556 HPHAVLLLDEIEKAHPDVFN  575 (758)
T ss_pred             CCCcEEEeccHhhhhHHHHH
Confidence            45899999999999876543

>CHL00181 cbbX CbbX; Provisional

Probab=99.26  E-value=2.6e-12  Score=128.32  Aligned_cols=99  Identities=29%  Similarity=0.359  Sum_probs=68.6

Q ss_pred             CCeeeCcchHHHHHHHHHhhcccc-------ccccccccccccCCCCCCchHHHHHHHHhh---C----CcchhhcCCCc
Q 012305          358 GDIILHPSLQRRIQHLAKATANTK-------IHQAPFRNMLFYGPPGTGKTMVAREIARKS---G----LDYAMMTGGDV  423 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~-------~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~----~~~~~v~~~~l  423 (466)
                      .+++|.+.+++.|..++..+....       ....+..|+||+||||||||++|++++..+   |    .+|+.++++++
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l  102 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDL  102 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHH
Confidence            369999999999988765432211       111233479999999999999999998876   2    24666666554


Q ss_pred             cc-chhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          424 AP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       424 ~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      .. +.+++.....++|+.+.    ++||||||+|.|..
T Consensus       103 ~~~~~g~~~~~~~~~l~~a~----ggVLfIDE~~~l~~  136 (287)
T CHL00181        103 VGQYIGHTAPKTKEVLKKAM----GGVLFIDEAYYLYK  136 (287)
T ss_pred             HHHHhccchHHHHHHHHHcc----CCEEEEEccchhcc
Confidence            32 33334445566777653    68999999999854

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

Probab=99.25  E-value=3.1e-12  Score=127.58  Aligned_cols=104  Identities=30%  Similarity=0.494  Sum_probs=73.8

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc---chhhcCCCcccchh
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD---YAMMTGGDVAPLGA  428 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~---~~~v~~~~l~~~~~  428 (466)
                      -.+++|+|+||++++... ..++..+-.  .+..|  +++|+||||||||++|+.|+..+..+   |+.++...      
T Consensus       132 mRPktL~dyvGQ~hlv~q-~gllrs~ie--q~~ip--SmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~------  200 (554)
T KOG2028|consen  132 MRPKTLDDYVGQSHLVGQ-DGLLRSLIE--QNRIP--SMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATN------  200 (554)
T ss_pred             cCcchHHHhcchhhhcCc-chHHHHHHH--cCCCC--ceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccc------
Confidence            346688999999988766 333333222  12223  89999999999999999999988554   55554432      


Q ss_pred             HHHHHHHHHHhhhhh----ccCceEEEeccccccccccCCCC
Q 012305          429 QAVTKIHEIFDWAKK----SKKGLLLFIDEADAFLCDNQDFI  466 (466)
Q Consensus       429 e~~~~l~~lf~~A~~----~~~~~iLflDEid~l~~~r~~~l  466 (466)
                      .....++++|+.+.+    .++..|||||||+.|...+|+.|
T Consensus       201 a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNksQQD~f  242 (554)
T KOG2028|consen  201 AKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQDTF  242 (554)
T ss_pred             cchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhhhhhhcc
Confidence            124567788877765    34568999999999988877754

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.25  E-value=4.8e-12  Score=131.05  Aligned_cols=104  Identities=24%  Similarity=0.340  Sum_probs=87.1

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--c
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--L  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--~  426 (466)
                      .....+.+|||.+..+..+.+.+..++.++.+      |||+|++||||..+|++|+..+   +.||+.+||+.++.  .
T Consensus       217 ~~~~~~~~iIG~S~am~~ll~~i~~VA~Sd~t------VLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPesLl  290 (550)
T COG3604         217 EVVLEVGGIIGRSPAMRQLLKEIEVVAKSDST------VLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPESLL  290 (550)
T ss_pred             chhcccccceecCHHHHHHHHHHHHHhcCCCe------EEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccchHHH
Confidence            33567789999999999999999999998887      9999999999999999999999   68999999999987  3


Q ss_pred             hhHHHHHHHHHHhhhhhccC-------ceEEEeccccccccc
Q 012305          427 GAQAVTKIHEIFDWAKKSKK-------GLLLFIDEADAFLCD  461 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~-------~~iLflDEid~l~~~  461 (466)
                      .++.++..++.|..|-..++       |++||||||+.|...
T Consensus       291 ESELFGHeKGAFTGA~~~r~GrFElAdGGTLFLDEIGelPL~  332 (550)
T COG3604         291 ESELFGHEKGAFTGAINTRRGRFELADGGTLFLDEIGELPLA  332 (550)
T ss_pred             HHHHhcccccccccchhccCcceeecCCCeEechhhccCCHH
Confidence            44456666777766654333       599999999998653

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

Probab=99.24  E-value=6e-12  Score=130.50  Aligned_cols=113  Identities=19%  Similarity=0.348  Sum_probs=79.9

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhcccc--------cccccc-ccccccCCCCCCchHHHHHHHHhhCC-cchhhcCC
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTK--------IHQAPF-RNMLFYGPPGTGKTMVAREIARKSGL-DYAMMTGG  421 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~--------~~~~p~-~~vLl~GppGTGKT~lA~alA~~l~~-~~~~v~~~  421 (466)
                      ++...|+++ |-..+.+....+-+..-..+        .-+.++ +++|||||||||||++||.|...++. +--+|||+
T Consensus       213 ~Pdf~Fe~m-GIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGP  291 (744)
T KOG0741|consen  213 NPDFNFESM-GIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGP  291 (744)
T ss_pred             CCCCChhhc-ccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcH
Confidence            445556655 44555555554333211111        112333 78999999999999999999999963 45678998


Q ss_pred             Cccc-chhHHHHHHHHHHhhhhh-------ccCceEEEeccccccccccCCC
Q 012305          422 DVAP-LGAQAVTKIHEIFDWAKK-------SKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       422 ~l~~-~~~e~~~~l~~lf~~A~~-------~~~~~iLflDEid~l~~~r~~~  465 (466)
                      .+.. +.+++..+++++|..|..       ...-.||++||||+++..|++.
T Consensus       292 eIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~  343 (744)
T KOG0741|consen  292 EILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSM  343 (744)
T ss_pred             HHHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCC
Confidence            8765 888999999999988764       1113899999999999888753

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.24  E-value=3.7e-12  Score=133.39  Aligned_cols=104  Identities=28%  Similarity=0.313  Sum_probs=84.9

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc-
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL-  426 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~-  426 (466)
                      ....++|++|||.+..+..+...+...+.++++      |||+|++||||.+||++|++.+   +.||+.+||+.+++. 
T Consensus       238 ~~a~y~f~~Iig~S~~m~~~~~~akr~A~tdst------VLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe~L  311 (560)
T COG3829         238 LKAKYTFDDIIGESPAMLRVLELAKRIAKTDST------VLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPETL  311 (560)
T ss_pred             cccccchhhhccCCHHHHHHHHHHHhhcCCCCc------EEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCCHHH
Confidence            566789999999999999999988888887776      9999999999999999999999   689999999999873 


Q ss_pred             -hhHHHHHHHHHHhhhhhc-c-------CceEEEecccccccc
Q 012305          427 -GAQAVTKIHEIFDWAKKS-K-------KGLLLFIDEADAFLC  460 (466)
Q Consensus       427 -~~e~~~~l~~lf~~A~~~-~-------~~~iLflDEid~l~~  460 (466)
                       .++.++...+.|..|.+. +       .+++||||||+.|..
T Consensus       312 lESELFGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl  354 (560)
T COG3829         312 LESELFGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPL  354 (560)
T ss_pred             HHHHHhCcCCccccccccCCCCcceeeccCCeEEehhhccCCH
Confidence             333345555555555542 1       159999999999864

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.24  E-value=3.7e-12  Score=129.58  Aligned_cols=98  Identities=24%  Similarity=0.407  Sum_probs=72.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +..|+++||++...+.+..++......   +.++.++|||||||||||++|+.+|+.++.++..++++.+..     ...
T Consensus        21 P~~~~~~vG~~~~~~~l~~~l~~~~~~---~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~-----~~~   92 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAAKKR---GEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEK-----PGD   92 (328)
T ss_pred             cCCHHHhcCcHHHHHHHHHHHHHHHhc---CCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccC-----hHH
Confidence            447899999999999988776554322   345678999999999999999999999998877766654322     223


Q ss_pred             HHHHHhhhhhccCceEEEecccccccccc
Q 012305          434 IHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       434 l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      +..++...   ..+++|||||||.+....
T Consensus        93 l~~~l~~l---~~~~vl~IDEi~~l~~~~  118 (328)
T PRK00080         93 LAAILTNL---EEGDVLFIDEIHRLSPVV  118 (328)
T ss_pred             HHHHHHhc---ccCCEEEEecHhhcchHH
Confidence            44444433   347899999999986543

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.24  E-value=5.8e-12  Score=125.72  Aligned_cols=98  Identities=32%  Similarity=0.369  Sum_probs=71.5

Q ss_pred             CeeeCcchHHHHHHHHHhhcccc-------ccccccccccccCCCCCCchHHHHHHHHhhC-------CcchhhcCCCcc
Q 012305          359 DIILHPSLQRRIQHLAKATANTK-------IHQAPFRNMLFYGPPGTGKTMVAREIARKSG-------LDYAMMTGGDVA  424 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~-------~~~~p~~~vLl~GppGTGKT~lA~alA~~l~-------~~~~~v~~~~l~  424 (466)
                      ++||..++++.|..++..+....       ....|..|+||+||||||||++|++++..+.       .+|+.++++++.
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~  102 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV  102 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh
Confidence            68999999999988776543321       1122445899999999999999999987762       257777776653


Q ss_pred             c-chhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      . +.+++...+.++|+.+.    ++|||||||+.|.+
T Consensus       103 ~~~~g~~~~~~~~~~~~a~----~gvL~iDEi~~L~~  135 (284)
T TIGR02880       103 GQYIGHTAPKTKEILKRAM----GGVLFIDEAYYLYR  135 (284)
T ss_pred             HhhcccchHHHHHHHHHcc----CcEEEEechhhhcc
Confidence            2 33344556677888764    68999999998853

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.

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.23  E-value=5.1e-12  Score=146.95  Aligned_cols=77  Identities=18%  Similarity=0.273  Sum_probs=63.8

Q ss_pred             cccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccc--------------------------------------
Q 012305          385 APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL--------------------------------------  426 (466)
Q Consensus       385 ~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~--------------------------------------  426 (466)
                      .|++||||+||||||||++|++||.+++.||+.|+++++...                                      
T Consensus      1628 ~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e~~n~ 1707 (2281)
T CHL00206       1628 SPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMNA 1707 (2281)
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhhhcch
Confidence            567899999999999999999999999999999988776421                                      


Q ss_pred             ----hhHHHH--HHHHHHhhhhhccCceEEEecccccccccc
Q 012305          427 ----GAQAVT--KIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       427 ----~~e~~~--~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                          .+.+++  .++.+|+.|+... ||||||||||++..+.
T Consensus      1708 ~~~~m~~~e~~~rIr~lFelARk~S-PCIIFIDEIDaL~~~d 1748 (2281)
T CHL00206       1708 LTMDMMPKIDRFYITLQFELAKAMS-PCIIWIPNIHDLNVNE 1748 (2281)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHHHCC-CeEEEEEchhhcCCCc
Confidence                111222  3889999999877 8999999999998653

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.23  E-value=4.9e-12  Score=139.38  Aligned_cols=110  Identities=24%  Similarity=0.391  Sum_probs=88.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~  428 (466)
                      ...|+++.|.+...+++.+++.....+..    ....++++||+||||||||+++++++..++.+|+.++++++.. +.+
T Consensus       148 ~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g  227 (644)
T PRK10733        148 KTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVG  227 (644)
T ss_pred             hCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhc
Confidence            45678899999999999988877654322    2244578999999999999999999999999999999987654 334


Q ss_pred             HHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .....++.+|..+.... ++||||||||.+..+|+.
T Consensus       228 ~~~~~~~~~f~~a~~~~-P~IifIDEiD~l~~~r~~  262 (644)
T PRK10733        228 VGASRVRDMFEQAKKAA-PCIIFIDEIDAVGRQRGA  262 (644)
T ss_pred             ccHHHHHHHHHHHHhcC-CcEEEehhHhhhhhccCC
Confidence            45667889999987655 799999999999877653

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.21  E-value=6.3e-12  Score=126.22  Aligned_cols=96  Identities=26%  Similarity=0.427  Sum_probs=69.0

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHH
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIH  435 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~  435 (466)
                      +|+++||+++.+..|..++......   ..++.++|||||||||||++|+.+|+.++.++..+.++.+..     ...+.
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~~---~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~-----~~~l~   73 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKMR---QEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEK-----PGDLA   73 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHhc---CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcC-----chhHH
Confidence            5789999999999988776543322   233467999999999999999999999988766655543322     12233


Q ss_pred             HHHhhhhhccCceEEEecccccccccc
Q 012305          436 EIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       436 ~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ..+..   ...+++||||||+.+..+.
T Consensus        74 ~~l~~---~~~~~vl~iDEi~~l~~~~   97 (305)
T TIGR00635        74 AILTN---LEEGDVLFIDEIHRLSPAV   97 (305)
T ss_pred             HHHHh---cccCCEEEEehHhhhCHHH
Confidence            33333   2347899999999987654

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.

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

Probab=99.21  E-value=4.7e-12  Score=124.17  Aligned_cols=103  Identities=21%  Similarity=0.297  Sum_probs=67.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC------cchhhcCCCccc--
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL------DYAMMTGGDVAP--  425 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~------~~~~v~~~~l~~--  425 (466)
                      +++|++++|++.++..|...+..      ...|  |+|||||||||||++|+++++.+..      .++..+.++--.  
T Consensus        32 Pkt~de~~gQe~vV~~L~~a~~~------~~lp--~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis  103 (346)
T KOG0989|consen   32 PKTFDELAGQEHVVQVLKNALLR------RILP--HYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS  103 (346)
T ss_pred             CCcHHhhcchHHHHHHHHHHHhh------cCCc--eEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc
Confidence            56789999999999998765333      1233  7999999999999999999999844      345555544321  


Q ss_pred             chhHHHHHHHHHHhhh-----hhccCceEEEeccccccccccCC
Q 012305          426 LGAQAVTKIHEIFDWA-----KKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A-----~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      ++.+......++...-     ..++++.|+||||+|.|..+.+.
T Consensus       104 vvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~  147 (346)
T KOG0989|consen  104 VVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQA  147 (346)
T ss_pred             chhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHH
Confidence            1222111111111111     12455689999999999876543

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

Probab=99.19  E-value=2.9e-11  Score=126.27  Aligned_cols=102  Identities=19%  Similarity=0.318  Sum_probs=71.1

Q ss_pred             eeeCcchHHHHHHHHH----hhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---chh
Q 012305          360 IILHPSLQRRIQHLAK----ATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP---LGA  428 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~----~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~---~~~  428 (466)
                      |||++.+++.|...+.    .+....    ....+..||||+||||||||++|++||..++.+|+.+++..+..   .|.
T Consensus        73 ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~gyvG~  152 (412)
T PRK05342         73 VIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGE  152 (412)
T ss_pred             eeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcccc
Confidence            8999999998865431    121111    11124478999999999999999999999999999999987653   232


Q ss_pred             HHHHHHHHHHhhhh---hccCceEEEeccccccccc
Q 012305          429 QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       429 e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~  461 (466)
                      +....+..++..+.   ....++||||||||.+.++
T Consensus       153 d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~  188 (412)
T PRK05342        153 DVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARK  188 (412)
T ss_pred             hHHHHHHHHHHhccccHHHcCCcEEEEechhhhccc
Confidence            23333444443211   1124799999999999875

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=99.18  E-value=5.9e-12  Score=116.11  Aligned_cols=94  Identities=23%  Similarity=0.342  Sum_probs=68.1

Q ss_pred             eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--HH---
Q 012305          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--AV---  431 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~~---  431 (466)
                      +||.+..+..+.+.+..+.....+      |||+|++||||+++|++|+..+   +.||+.|+|+.+.+...+  -+   
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~p------VlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~   74 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLP------VLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESELFGHE   74 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-------EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBC
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCC------EEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhccc
Confidence            578888888888888777766544      9999999999999999999988   579999999988542111  01   


Q ss_pred             --------HHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          432 --------TKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       432 --------~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                              ....++|+.|.    +++||||||+.|...-|
T Consensus        75 ~~~~~~~~~~~~G~l~~A~----~GtL~Ld~I~~L~~~~Q  110 (168)
T PF00158_consen   75 KGAFTGARSDKKGLLEQAN----GGTLFLDEIEDLPPELQ  110 (168)
T ss_dssp             SSSSTTTSSEBEHHHHHTT----TSEEEEETGGGS-HHHH
T ss_pred             cccccccccccCCceeecc----ceEEeecchhhhHHHHH
Confidence                    11236777665    79999999999986543

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 ....

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.18  E-value=8.8e-12  Score=130.79  Aligned_cols=96  Identities=26%  Similarity=0.475  Sum_probs=70.3

Q ss_pred             ccCCCCeeeCcchHHH---HHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHH
Q 012305          354 IKNNGDIILHPSLQRR---IQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA  430 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~---l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~  430 (466)
                      +.+|+++||+++++..   +..++   ....     ..++||+||||||||++|+.|++.++.+|+.+++...      .
T Consensus         8 P~~l~d~vGq~~~v~~~~~L~~~i---~~~~-----~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~------~   73 (413)
T PRK13342          8 PKTLDEVVGQEHLLGPGKPLRRMI---EAGR-----LSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS------G   73 (413)
T ss_pred             CCCHHHhcCcHHHhCcchHHHHHH---HcCC-----CceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc------c
Confidence            4578999999998766   55443   2221     2379999999999999999999999999998887643      1


Q ss_pred             HHHHHHHHhhhhh---ccCceEEEeccccccccccC
Q 012305          431 VTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       431 ~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~  463 (466)
                      ...++.+++.+..   .+.+.||||||||.|....+
T Consensus        74 ~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~~~q  109 (413)
T PRK13342         74 VKDLREVIEEARQRRSAGRRTILFIDEIHRFNKAQQ  109 (413)
T ss_pred             HHHHHHHHHHHHHhhhcCCceEEEEechhhhCHHHH
Confidence            3345555555532   22478999999999876544

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

Probab=99.17  E-value=1.7e-11  Score=137.26  Aligned_cols=103  Identities=18%  Similarity=0.253  Sum_probs=74.0

Q ss_pred             CCeeeCcchHHHHHHHHHhhccc-cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-----------
Q 012305          358 GDIILHPSLQRRIQHLAKATANT-KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-----------  425 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~-~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-----------  425 (466)
                      ..|+|++.+++.|...+...... ..+..|..++||+||||||||++|++||..++.+++.++++++..           
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~  533 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAP  533 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCC
Confidence            45899999999988766654332 233456667999999999999999999999998888888766421           


Q ss_pred             ---chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          426 ---LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       426 ---~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                         .|.+..+.   +.+..+ ..+++||||||||.+.++-.+
T Consensus       534 ~gyvg~~~~~~---l~~~~~-~~p~~VvllDEieka~~~~~~  571 (731)
T TIGR02639       534 PGYVGFEQGGL---LTEAVR-KHPHCVLLLDEIEKAHPDIYN  571 (731)
T ss_pred             CCCcccchhhH---HHHHHH-hCCCeEEEEechhhcCHHHHH
Confidence               22222222   333333 355899999999999876543

>TIGR00763 lon ATP-dependent protease La

Probab=99.17  E-value=3.5e-10  Score=127.49  Aligned_cols=101  Identities=21%  Similarity=0.214  Sum_probs=71.6

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------ch
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LG  427 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~  427 (466)
                      .+++|++.+++++...+.........  ...++||+||||||||++|++||+.++.+|+.++++.+..          +.
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~--~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~~~~~  397 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKM--KGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYV  397 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCC--CCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCCCcee
Confidence            35889999999988755433221111  1137999999999999999999999999999888765421          12


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      +...+.+...|..+...+  .||||||||.+.++.
T Consensus       398 g~~~g~i~~~l~~~~~~~--~villDEidk~~~~~  430 (775)
T TIGR00763       398 GAMPGRIIQGLKKAKTKN--PLFLLDEIDKIGSSF  430 (775)
T ss_pred             CCCCchHHHHHHHhCcCC--CEEEEechhhcCCcc
Confidence            223445566777665433  499999999998653

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=99.16  E-value=3.3e-11  Score=128.83  Aligned_cols=98  Identities=22%  Similarity=0.377  Sum_probs=73.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +..|+++||++..+..|..++....    .+.|++++|||||||||||++|++||+.++.+++.+++++....     ..
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~----~g~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~-----~~   80 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWL----KGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTA-----DV   80 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHh----cCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccH-----HH
Confidence            4468899999999999988776544    23456789999999999999999999999999999998875321     12


Q ss_pred             HHHHHhhhhh----c-cCceEEEecccccccc
Q 012305          434 IHEIFDWAKK----S-KKGLLLFIDEADAFLC  460 (466)
Q Consensus       434 l~~lf~~A~~----~-~~~~iLflDEid~l~~  460 (466)
                      +..+...+..    . .++.||||||+|.|..
T Consensus        81 i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~  112 (482)
T PRK04195         81 IERVAGEAATSGSLFGARRKLILLDEVDGIHG  112 (482)
T ss_pred             HHHHHHHhhccCcccCCCCeEEEEecCccccc
Confidence            2222222221    1 2468999999999976

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

Probab=99.15  E-value=1.8e-11  Score=135.96  Aligned_cols=203  Identities=18%  Similarity=0.186  Sum_probs=132.5

Q ss_pred             HHHHHHHhhHHHHhHhhhhhhhhhhhhhhhhcccccccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccc
Q 012305          197 QIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHEAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDR  276 (466)
Q Consensus       197 ~~~~~r~~~e~e~~~~~~~~~~~~~~~e~e~~~~~~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~  276 (466)
                      ..+++...|..++..+++..-.+...++... +...++.+|+..      +.++++..++        ++....+  .|.
T Consensus       461 ~~~~l~~~~~~~~s~~~~l~~~~~~~~~~~~-~~k~~r~~d~~~------~~~l~~~~~p--------~~~~~~~--~~~  523 (898)
T KOG1051|consen  461 TQQPLSASVDSERSVIEELKLKKNSLDRNSL-LAKAHRPNDYTR------ETDLRYGRIP--------DELSEKS--NDN  523 (898)
T ss_pred             ccccchhhhccchhHHhhhccccCCcccchh-hhcccCCCCcch------hhhccccccc--------hhhhhhc--ccc
Confidence            3456778888888888888888888888877 777777888877      3356666554        1111111  111


Q ss_pred             cceeeeechhhhhhhheeecccCceehhhhhhhhhCCCcccc-ccccCCCchhhhhHHHHHHhhhccccccccCcccccc
Q 012305          277 NKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIR-ESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIK  355 (466)
Q Consensus       277 ~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~p~lvr-e~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  355 (466)
                      ..                    +...+...+.+|+|+|.... +..+.++   ..+...+.                   
T Consensus       524 ~~--------------------~~~~i~~~~s~~tgip~~~~~~~e~~~l---~~L~~~L~-------------------  561 (898)
T KOG1051|consen  524 QG--------------------GESDISEVVSRWTGIPVDRLAEAEAERL---KKLEERLH-------------------  561 (898)
T ss_pred             cC--------------------CccchhhhhhhhcCCchhhhhhhHHHHH---HHHHHHHH-------------------
Confidence            11                    35567888999999998433 2222222   12222222                   


Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC----------
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD----------  422 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~----------  422 (466)
                        ..|+||.+++..|...+...........|...+||.||+|+|||-+|++||..+   ...|+.++.+.          
T Consensus       562 --~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evskligs  639 (898)
T KOG1051|consen  562 --ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVSKLIGS  639 (898)
T ss_pred             --hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhhhccCC
Confidence              349999999999998877766543332567889999999999999999999998   23344444442          


Q ss_pred             -cccchhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          423 -VAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       423 -l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                       .++.|.+..+.   +.+..+ .+|++||||||||...+.-++
T Consensus       640 p~gyvG~e~gg~---Lteavr-rrP~sVVLfdeIEkAh~~v~n  678 (898)
T KOG1051|consen  640 PPGYVGKEEGGQ---LTEAVK-RRPYSVVLFEEIEKAHPDVLN  678 (898)
T ss_pred             CcccccchhHHH---HHHHHh-cCCceEEEEechhhcCHHHHH
Confidence             23345444443   444444 566999999999987765443

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

Probab=99.15  E-value=6.2e-11  Score=121.90  Aligned_cols=101  Identities=21%  Similarity=0.310  Sum_probs=79.1

Q ss_pred             ccccCCCCeeeCcchHHHHHH-HHHhhcccc---cccccc-ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccc
Q 012305          352 EAIKNNGDIILHPSLQRRIQH-LAKATANTK---IHQAPF-RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~-~~~~~~~~~---~~~~p~-~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~  426 (466)
                      ..+.+|+.++..+++++.|.+ +..++....   .-+.|+ |++|||||||||||+++-++|++++++++.+....+...
T Consensus       195 ~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n  274 (457)
T KOG0743|consen  195 PHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLD  274 (457)
T ss_pred             CCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCc
Confidence            445789999999999998855 555554433   336777 899999999999999999999999999999887766432


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                           ..++.++-...   ..+||+|.+||+-+.
T Consensus       275 -----~dLr~LL~~t~---~kSIivIEDIDcs~~  300 (457)
T KOG0743|consen  275 -----SDLRHLLLATP---NKSILLIEDIDCSFD  300 (457)
T ss_pred             -----HHHHHHHHhCC---CCcEEEEeecccccc
Confidence                 23777776554   368999999999654

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

Probab=99.13  E-value=4.1e-11  Score=127.55  Aligned_cols=107  Identities=28%  Similarity=0.417  Sum_probs=85.6

Q ss_pred             CCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-cchhHHH
Q 012305          358 GDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-PLGAQAV  431 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-~~~~e~~  431 (466)
                      +++.|.......++.++.. +...    .....|++++|+|||||||||+++++++++.+..++.++|+.+. .+.+++.
T Consensus       184 ~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~~gEte  263 (693)
T KOG0730|consen  184 DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETE  263 (693)
T ss_pred             cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhcccchH
Confidence            4555556566666554432 1111    13346779999999999999999999999999999999999765 4788999


Q ss_pred             HHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          432 TKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       432 ~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      +.++..|..+.+...+++|||||+|.+.++|..
T Consensus       264 ~~LR~~f~~a~k~~~psii~IdEld~l~p~r~~  296 (693)
T KOG0730|consen  264 SNLRKAFAEALKFQVPSIIFIDELDALCPKREG  296 (693)
T ss_pred             HHHHHHHHHHhccCCCeeEeHHhHhhhCCcccc
Confidence            999999999998877899999999999998764

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.12  E-value=3.8e-11  Score=127.54  Aligned_cols=96  Identities=24%  Similarity=0.310  Sum_probs=63.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-------------------  414 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------------  414 (466)
                      +.+|+++||++.++..|...+..       +..+.++|||||||||||++|+.+++.++..                   
T Consensus        10 P~~~~divGq~~i~~~L~~~i~~-------~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~   82 (472)
T PRK14962         10 PKTFSEVVGQDHVKKLIINALKK-------NSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDE   82 (472)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhc
Confidence            55789999999998887765332       2233468999999999999999999988541                   


Q ss_pred             -----chhhcCCCcccchhHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          415 -----YAMMTGGDVAPLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       415 -----~~~v~~~~l~~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                           ++.++++.  ..+   ...++.+.+.+..   .+.+.||||||+|.|...
T Consensus        83 g~~~dv~el~aa~--~~g---id~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~  132 (472)
T PRK14962         83 GTFMDVIELDAAS--NRG---IDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKE  132 (472)
T ss_pred             CCCCccEEEeCcc--cCC---HHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHH
Confidence                 22222210  111   2334444444332   234689999999998654

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.10  E-value=3.5e-11  Score=136.25  Aligned_cols=137  Identities=18%  Similarity=0.179  Sum_probs=87.9

Q ss_pred             ceehhhhhhhhhCCCcc-ccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhc
Q 012305          300 ARVTWGYVNRILGQPSL-IRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATA  378 (466)
Q Consensus       300 ~~~~~~~v~~~lg~p~l-vre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~  378 (466)
                      ...+..+|.+|+|.|.. +......+      +......+                  -..|+||+.++..|...+....
T Consensus       474 ~~~i~~~~~~~tgip~~~~~~~~~~~------l~~l~~~L------------------~~~v~GQ~~ai~~l~~~i~~~~  529 (821)
T CHL00095        474 EEDIAEIVSAWTGIPVNKLTKSESEK------LLHMEETL------------------HKRIIGQDEAVVAVSKAIRRAR  529 (821)
T ss_pred             HHHHHHHHHHHHCCCchhhchhHHHH------HHHHHHHh------------------cCcCcChHHHHHHHHHHHHHHh
Confidence            35678889999999983 22221111      11111111                  1458999999999987665433


Q ss_pred             c-ccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcc--------------cchhHHHHHHHHHHhh
Q 012305          379 N-TKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVA--------------PLGAQAVTKIHEIFDW  440 (466)
Q Consensus       379 ~-~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~--------------~~~~e~~~~l~~lf~~  440 (466)
                      . ...+..|..++||+||||||||++|++||..+   +.+++.++++.+.              +.|.+..   ..+.+.
T Consensus       530 ~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~g~~~gyvg~~~~---~~l~~~  606 (821)
T CHL00095        530 VGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIGSPPGYVGYNEG---GQLTEA  606 (821)
T ss_pred             hcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccHHHhcCCCCcccCcCcc---chHHHH
Confidence            2 23345566789999999999999999999987   3456666555432              1222211   234444


Q ss_pred             hhhccCceEEEeccccccccccCC
Q 012305          441 AKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       441 A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+. .|++||||||||.+.++..+
T Consensus       607 ~~~-~p~~VvllDeieka~~~v~~  629 (821)
T CHL00095        607 VRK-KPYTVVLFDEIEKAHPDIFN  629 (821)
T ss_pred             HHh-CCCeEEEECChhhCCHHHHH
Confidence            443 45899999999999876544

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.10  E-value=4.5e-11  Score=125.87  Aligned_cols=104  Identities=25%  Similarity=0.318  Sum_probs=66.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhc-
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMT-  419 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~-  419 (466)
                      +..|++|||++.++..|...+..       +..+..+|||||||||||++|+.||+.++...             ..+. 
T Consensus        14 P~~f~dvVGQe~iv~~L~~~i~~-------~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~   86 (484)
T PRK14956         14 PQFFRDVIHQDLAIGALQNALKS-------GKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITK   86 (484)
T ss_pred             CCCHHHHhChHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHc
Confidence            55799999999999988766432       12223589999999999999999999985421             0000 


Q ss_pred             --CCCcccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          420 --GGDVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       420 --~~~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                        ..++..+..   .++..++.+.+.+.   ..+++.|+||||||.|....++
T Consensus        87 g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~N  139 (484)
T PRK14956         87 GISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFN  139 (484)
T ss_pred             cCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHH
Confidence              112211111   11334455444433   2334679999999999765443

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

Probab=99.10  E-value=4.4e-11  Score=113.24  Aligned_cols=98  Identities=29%  Similarity=0.394  Sum_probs=75.0

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-CC----cchhhcCCCcccchhHH
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-GL----DYAMMTGGDVAPLGAQA  430 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-~~----~~~~v~~~~l~~~~~e~  430 (466)
                      .+.|+||+++.+.+|..++      +.++.|  |++|.||||||||+.+.+||+.+ |-    -++.+|.+|  ..|.+.
T Consensus        25 ~l~dIVGNe~tv~rl~via------~~gnmP--~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASd--eRGIDv   94 (333)
T KOG0991|consen   25 VLQDIVGNEDTVERLSVIA------KEGNMP--NLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASD--ERGIDV   94 (333)
T ss_pred             HHHHhhCCHHHHHHHHHHH------HcCCCC--ceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCcc--ccccHH
Confidence            4688999999999998773      344555  89999999999999999999988 42    356677765  456677


Q ss_pred             HHHHHHHHhhhhh-c--cCceEEEeccccccccccC
Q 012305          431 VTKIHEIFDWAKK-S--KKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       431 ~~~l~~lf~~A~~-~--~~~~iLflDEid~l~~~r~  463 (466)
                      +.+-.+.|..-+- .  ++..||+|||+|+|....+
T Consensus        95 VRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQ  130 (333)
T KOG0991|consen   95 VRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQ  130 (333)
T ss_pred             HHHHHHHHHHhhccCCCCceeEEEeeccchhhhHHH
Confidence            7777777765443 2  3458999999999975443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.10  E-value=5.2e-11  Score=127.68  Aligned_cols=104  Identities=18%  Similarity=0.241  Sum_probs=67.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~  420 (466)
                      +.+|++|||++.+++.|...+..       +..+..+|||||||||||++|+.||+.+++.-             ..+..
T Consensus        12 P~~f~divGq~~v~~~L~~~~~~-------~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~   84 (509)
T PRK14958         12 PRCFQEVIGQAPVVRALSNALDQ-------QYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDE   84 (509)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHh-------CCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhc
Confidence            56799999999999988876532       22233589999999999999999999885421             11111


Q ss_pred             CC---cccch---hHHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          421 GD---VAPLG---AQAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       421 ~~---l~~~~---~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                      +.   +..+.   ...+..++.+.+.+.   ..+++.|+||||+|.|...-+|
T Consensus        85 g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~n  137 (509)
T PRK14958         85 GRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFN  137 (509)
T ss_pred             CCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHH
Confidence            11   11111   112334455554433   3345789999999999875443

>PLN03025 replication factor C subunit; Provisional

Probab=99.08  E-value=5.3e-11  Score=120.71  Aligned_cols=101  Identities=27%  Similarity=0.411  Sum_probs=65.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-C----CcchhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-G----LDYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-~----~~~~~v~~~~l~~~~~  428 (466)
                      +.+|+++||++++...|..++..      ...|  |+|||||||||||++|+++|+.+ |    ..++.++.++..  +.
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~------~~~~--~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~--~~   78 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARD------GNMP--NLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDR--GI   78 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhc------CCCc--eEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccc--cH
Confidence            45789999999999888766331      1222  79999999999999999999997 2    235555555431  22


Q ss_pred             HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          429 QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       429 e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                      +....+...|....   ....+.||||||+|.|....++
T Consensus        79 ~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~~aq~  117 (319)
T PLN03025         79 DVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQ  117 (319)
T ss_pred             HHHHHHHHHHHhccccCCCCCeEEEEEechhhcCHHHHH
Confidence            22222222221111   0123689999999999876554

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.08  E-value=6.7e-11  Score=127.73  Aligned_cols=104  Identities=20%  Similarity=0.299  Sum_probs=68.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc------------------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY------------------  415 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~------------------  415 (466)
                      +.+|++|||++.+++.|...+..       +..+..+||+||+|||||++|+.|++.+++.-                  
T Consensus        12 PqtFddVIGQe~vv~~L~~al~~-------gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC   84 (700)
T PRK12323         12 PRDFTTLVGQEHVVRALTHALEQ-------QRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRAC   84 (700)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHHh-------CCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHH
Confidence            55789999999999988876442       22234579999999999999999999886410                  


Q ss_pred             hhhcCC---Ccccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          416 AMMTGG---DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       416 ~~v~~~---~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                      ..|..+   ++..+..   .++..++.+.+.+.   ..+++.|+||||+|.|....+|
T Consensus        85 ~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaN  142 (700)
T PRK12323         85 TEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFN  142 (700)
T ss_pred             HHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHH
Confidence            011111   1111111   12344555555443   2345789999999999865544

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

Probab=99.08  E-value=1.5e-10  Score=129.53  Aligned_cols=110  Identities=24%  Similarity=0.381  Sum_probs=88.1

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHh-hccc----cccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCC
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKA-TANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGD  422 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~-~~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~  422 (466)
                      ...+|++|-|.+..+..+...+.. +-.+    +.+..|+++||||||||||||++|+++|..+     ...|.+-.|.|
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            345789998888888888775432 2222    2335688999999999999999999999988     34566667766


Q ss_pred             c-ccchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          423 V-APLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       423 l-~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      . ..+.++...+++-+|+.|++.. ++|||+||||.|.+-|+
T Consensus       340 ~lskwvgEaERqlrllFeeA~k~q-PSIIffdeIdGlapvrS  380 (1080)
T KOG0732|consen  340 CLSKWVGEAERQLRLLFEEAQKTQ-PSIIFFDEIDGLAPVRS  380 (1080)
T ss_pred             hhccccCcHHHHHHHHHHHHhccC-ceEEecccccccccccc
Confidence            4 4588999999999999999766 89999999999988774

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

Probab=99.06  E-value=2e-10  Score=119.56  Aligned_cols=104  Identities=19%  Similarity=0.318  Sum_probs=70.1

Q ss_pred             CeeeCcchHHHHHHHHH----hhcc--ccc--cc--cccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---
Q 012305          359 DIILHPSLQRRIQHLAK----ATAN--TKI--HQ--APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP---  425 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~----~~~~--~~~--~~--~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~---  425 (466)
                      .|||++.+++.+...+.    .+..  ...  ++  .+..+|||+||||||||++|++||..++.+|+.+++..+.+   
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~~gy  157 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGY  157 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhcccccc
Confidence            37999999998876441    1111  000  00  12368999999999999999999999999999998877643   


Q ss_pred             chhHHHHHHHHHHhhhh---hccCceEEEecccccccccc
Q 012305          426 LGAQAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r  462 (466)
                      .|.+....+..++..+.   ....++||||||||.+.+++
T Consensus       158 vG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~  197 (413)
T TIGR00382       158 VGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKS  197 (413)
T ss_pred             ccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhh
Confidence            23323344444443221   01236799999999998743

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.06  E-value=1e-10  Score=126.58  Aligned_cols=103  Identities=20%  Similarity=0.294  Sum_probs=66.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~  420 (466)
                      +..|++|||++.+++.|...+..       +..+..+||+||||||||++|+++|+.+++..             -.+..
T Consensus        11 PktFddVIGQe~vv~~L~~aI~~-------grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~   83 (702)
T PRK14960         11 PRNFNELVGQNHVSRALSSALER-------GRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNE   83 (702)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhc
Confidence            46789999999999888776542       23335689999999999999999999985421             01111


Q ss_pred             C---Ccccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccC
Q 012305          421 G---DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       421 ~---~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~  463 (466)
                      +   ++..+..   ..+..++.+.+.+.   ..+++.|+||||+|.|.....
T Consensus        84 g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~  135 (702)
T PRK14960         84 GRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSF  135 (702)
T ss_pred             CCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHH
Confidence            1   1111110   12344555554432   234578999999999876543

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

Probab=99.06  E-value=8.8e-11  Score=130.28  Aligned_cols=99  Identities=25%  Similarity=0.405  Sum_probs=67.1

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +.+|+++||++.+......+...+....     ..++|||||||||||++|++|++.++.+|+.+++....      ...
T Consensus        24 P~tldd~vGQe~ii~~~~~L~~~i~~~~-----~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~~------i~d   92 (725)
T PRK13341         24 PRTLEEFVGQDHILGEGRLLRRAIKADR-----VGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAG------VKD   92 (725)
T ss_pred             CCcHHHhcCcHHHhhhhHHHHHHHhcCC-----CceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhhh------hHH
Confidence            4678999999998864333333333221     23799999999999999999999999888888875321      112


Q ss_pred             HHHHHhhh----hhccCceEEEeccccccccccC
Q 012305          434 IHEIFDWA----KKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       434 l~~lf~~A----~~~~~~~iLflDEid~l~~~r~  463 (466)
                      ++..+..+    ...+.+.+|||||||.|....+
T Consensus        93 ir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQ  126 (725)
T PRK13341         93 LRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQ  126 (725)
T ss_pred             HHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHH
Confidence            22222222    2223467999999999876544

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.04  E-value=1.2e-10  Score=127.02  Aligned_cols=105  Identities=18%  Similarity=0.249  Sum_probs=67.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc--hhhcCC----------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY--AMMTGG----------  421 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~--~~v~~~----------  421 (466)
                      +.+|++|||++.+++.|...+..       +..+..+||+||+|||||++|+.||+.+++..  ....|+          
T Consensus        12 P~~f~divGQe~vv~~L~~~l~~-------~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~   84 (647)
T PRK07994         12 PQTFAEVVGQEHVLTALANALDL-------GRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQ   84 (647)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHc
Confidence            46899999999999988765432       22223479999999999999999999985421  011111          


Q ss_pred             ----Ccccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCCC
Q 012305          422 ----DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       422 ----~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~~  465 (466)
                          |+..+..   ..+..++.+.+.+.   ..+++.|+||||+|.|....+|.
T Consensus        85 g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NA  138 (647)
T PRK07994         85 GRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNA  138 (647)
T ss_pred             CCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHH
Confidence                1111111   12334444444433   23457899999999998765543

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.04  E-value=1.5e-10  Score=128.71  Aligned_cols=104  Identities=18%  Similarity=0.216  Sum_probs=65.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch-h-hcC-----------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA-M-MTG-----------  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~-~-v~~-----------  420 (466)
                      +.+|++|||++.++..|..++..       +..+..+|||||||||||++|+.||+.+++... . ..|           
T Consensus        12 P~tFddIIGQe~Iv~~LknaI~~-------~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~   84 (944)
T PRK14949         12 PATFEQMVGQSHVLHALTNALTQ-------QRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQ   84 (944)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHh-------CCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhc
Confidence            46799999999999988765432       122234699999999999999999999865310 0 001           


Q ss_pred             ---CCcccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          421 ---GDVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       421 ---~~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                         .++..+..   ..+..++.+.+.+.   ..+++.|+||||+|.|....++
T Consensus        85 g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqN  137 (944)
T PRK14949         85 GRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFN  137 (944)
T ss_pred             CCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHH
Confidence               11111111   11233444444333   2345689999999999865544

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.03  E-value=3.5e-10  Score=114.11  Aligned_cols=95  Identities=22%  Similarity=0.327  Sum_probs=66.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHH-H
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAV-T  432 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~-~  432 (466)
                      +.+|+++||++.....+..++..       +..+..+|||||||||||++++++++.++.++..+++++ ..  .+.. .
T Consensus        17 P~~~~~~~~~~~~~~~l~~~~~~-------~~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-~~--~~~i~~   86 (316)
T PHA02544         17 PSTIDECILPAADKETFKSIVKK-------GRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-CR--IDFVRN   86 (316)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhc-------CCCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-cc--HHHHHH
Confidence            45789999999999988876541       222234666999999999999999999999999999877 22  1111 1


Q ss_pred             HHHHHHhhhhhccCceEEEecccccc
Q 012305          433 KIHEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       433 ~l~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                      .+..+.........+.+|||||+|.+
T Consensus        87 ~l~~~~~~~~~~~~~~vliiDe~d~l  112 (316)
T PHA02544         87 RLTRFASTVSLTGGGKVIIIDEFDRL  112 (316)
T ss_pred             HHHHHHHhhcccCCCeEEEEECcccc
Confidence            12222221111234789999999988

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.03  E-value=1.3e-10  Score=127.13  Aligned_cols=104  Identities=18%  Similarity=0.277  Sum_probs=66.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~  420 (466)
                      +.+|++|||++.+++.|...+..       +..+..+|||||+|||||++++.|++.+++..             ..+..
T Consensus        12 PqtFdEVIGQe~Vv~~L~~aL~~-------gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~   84 (830)
T PRK07003         12 PKDFASLVGQEHVVRALTHALDG-------GRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDE   84 (830)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHhc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhc
Confidence            55789999999999988776431       22234579999999999999999999885421             01111


Q ss_pred             C---Ccccch---hHHHHHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305          421 G---DVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       421 ~---~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~  464 (466)
                      +   ++..+.   ..++..++.+++.+..   ..++.||||||+|.|....+|
T Consensus        85 G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~N  137 (830)
T PRK07003         85 GRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFN  137 (830)
T ss_pred             CCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHH
Confidence            1   111111   1123345555555432   234789999999999765444

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.03  E-value=1e-10  Score=125.84  Aligned_cols=100  Identities=22%  Similarity=0.280  Sum_probs=76.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHh--------h---CCcchhhcCCC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK--------S---GLDYAMMTGGD  422 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~--------l---~~~~~~v~~~~  422 (466)
                      .+.|+++||.+..+..+...+..+..+..+      |||+|+|||||+++|++|+..        +   +.||+.++|+.
T Consensus       215 ~~~f~~iiG~S~~m~~~~~~i~~~A~s~~p------VLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaa  288 (538)
T PRK15424        215 RYVLGDLLGQSPQMEQVRQTILLYARSSAA------VLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGA  288 (538)
T ss_pred             ccchhheeeCCHHHHHHHHHHHHHhCCCCc------EEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeeccc
Confidence            357899999999999999888777766554      999999999999999999988        4   67999999998


Q ss_pred             cccchhH--HHHH------------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305          423 VAPLGAQ--AVTK------------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       423 l~~~~~e--~~~~------------l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +++...+  .++.            ..++|+.+.    +++||||||+.|....+
T Consensus       289 l~e~lleseLFG~~~gaftga~~~~~~Gl~e~A~----gGTLfLdeI~~Lp~~~Q  339 (538)
T PRK15424        289 IAESLLEAELFGYEEGAFTGSRRGGRAGLFEIAH----GGTLFLDEIGEMPLPLQ  339 (538)
T ss_pred             CChhhHHHHhcCCccccccCccccccCCchhccC----CCEEEEcChHhCCHHHH
Confidence            8652211  1111            123555443    78999999999876543

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

Probab=99.03  E-value=1.6e-09  Score=116.19  Aligned_cols=98  Identities=26%  Similarity=0.329  Sum_probs=70.5

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------chh
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LGA  428 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~~  428 (466)
                      |-.|-.+++++|.+++....-....+.  .-++|+||||+|||+++++||+.+|..|+.++.+.+.+          +.+
T Consensus       412 DHYgm~dVKeRILEfiAV~kLrgs~qG--kIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHRRTYVG  489 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKLRGSVQG--KILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVG  489 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhhcccCCC--cEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhcccceeeec
Confidence            455778889998876554322211111  24889999999999999999999999999988766532          223


Q ss_pred             HHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      ...+.+.+.+......+  -+++|||||.+.+
T Consensus       490 AMPGkiIq~LK~v~t~N--PliLiDEvDKlG~  519 (906)
T KOG2004|consen  490 AMPGKIIQCLKKVKTEN--PLILIDEVDKLGS  519 (906)
T ss_pred             cCChHHHHHHHhhCCCC--ceEEeehhhhhCC
Confidence            33456666666666555  3899999999974

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

Probab=99.01  E-value=3.4e-10  Score=111.58  Aligned_cols=105  Identities=17%  Similarity=0.324  Sum_probs=71.5

Q ss_pred             eeeCcchHHHHHHH-----HHhhccccccc--cccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc--chhHH
Q 012305          360 IILHPSLQRRIQHL-----AKATANTKIHQ--APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP--LGAQA  430 (466)
Q Consensus       360 vVg~~~~~~~l~~~-----~~~~~~~~~~~--~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~--~~~e~  430 (466)
                      |||++..++.|.-.     .+.........  ..-.|+||.||+|||||+||+.||+.++.||.+.++..+..  +.++.
T Consensus        63 VIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVGED  142 (408)
T COG1219          63 VIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGED  142 (408)
T ss_pred             eecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccchh
Confidence            78998888765321     11111111111  22258999999999999999999999999999999888864  34444


Q ss_pred             H-HHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305          431 V-TKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       431 ~-~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~  464 (466)
                      + ..+-.++..+.-   ....+||+|||||.+.++..|
T Consensus       143 VENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN  180 (408)
T COG1219         143 VENILLKLLQAADYDVERAERGIIYIDEIDKIARKSEN  180 (408)
T ss_pred             HHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCC
Confidence            4 345556554431   122589999999999987654

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

Probab=99.01  E-value=2.9e-10  Score=127.38  Aligned_cols=99  Identities=19%  Similarity=0.234  Sum_probs=75.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l  423 (466)
                      +..++++||++.....+..++..-        ...|+|||||||||||++++.||..+          +..++.++++.+
T Consensus       178 ~~~l~~~igr~~ei~~~~~~L~~~--------~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l  249 (731)
T TIGR02639       178 NGKIDPLIGREDELERTIQVLCRR--------KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSL  249 (731)
T ss_pred             cCCCCcccCcHHHHHHHHHHHhcC--------CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHH
Confidence            446789999998888766543221        12379999999999999999999987          556666666555


Q ss_pred             c---cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .   .+.++....++.+|+.+.... +.||||||||.|.+.
T Consensus       250 ~a~~~~~g~~e~~l~~i~~~~~~~~-~~ILfiDEih~l~~~  289 (731)
T TIGR02639       250 LAGTKYRGDFEERLKAVVSEIEKEP-NAILFIDEIHTIVGA  289 (731)
T ss_pred             hhhccccchHHHHHHHHHHHHhccC-CeEEEEecHHHHhcc
Confidence            3   244566788999999887554 789999999999864

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.01  E-value=2.2e-10  Score=121.70  Aligned_cols=98  Identities=20%  Similarity=0.180  Sum_probs=66.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-------------------  414 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------------  414 (466)
                      +.+|+++||++.+++.|...+..       +..+.++||+||||||||++|+.+|+.+++.                   
T Consensus         9 P~~f~dliGQe~vv~~L~~a~~~-------~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~   81 (491)
T PRK14964          9 PSSFKDLVGQDVLVRILRNAFTL-------NKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKN   81 (491)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhc
Confidence            46799999999999888754322       3334579999999999999999999876321                   


Q ss_pred             -----chhhcCCCcccchhHHHHHHHHHHhhhhh---ccCceEEEeccccccccccC
Q 012305          415 -----YAMMTGGDVAPLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       415 -----~~~v~~~~l~~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~  463 (466)
                           |+.+++++  ..   ++..++.+.+.+..   ..++.|+||||+|.|...-+
T Consensus        82 ~~~~Dv~eidaas--~~---~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~  133 (491)
T PRK14964         82 SNHPDVIEIDAAS--NT---SVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAF  133 (491)
T ss_pred             cCCCCEEEEeccc--CC---CHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHH
Confidence                 12222211  11   23445555555432   34568999999999876443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.01  E-value=2.3e-10  Score=124.53  Aligned_cols=104  Identities=19%  Similarity=0.287  Sum_probs=66.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc------------------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY------------------  415 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~------------------  415 (466)
                      +.+|++|||++.++..|..++..       +..+..+|||||+|||||++|+.||+.+++.-                  
T Consensus        12 P~~f~dviGQe~vv~~L~~~l~~-------~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C   84 (618)
T PRK14951         12 PRSFSEMVGQEHVVQALTNALTQ-------QRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQAC   84 (618)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHH
Confidence            46799999999999988876442       12223579999999999999999999885310                  


Q ss_pred             hhhcCC---Ccccchh---HHHHHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305          416 AMMTGG---DVAPLGA---QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       416 ~~v~~~---~l~~~~~---e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~  464 (466)
                      ..+..+   |+..+..   ..+..++.+.+.+..   .+++.|+||||+|.|...-+|
T Consensus        85 ~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~N  142 (618)
T PRK14951         85 RDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFN  142 (618)
T ss_pred             HHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHH
Confidence            011111   1111111   123345555554332   334789999999999875544

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.00  E-value=5.2e-10  Score=115.61  Aligned_cols=64  Identities=20%  Similarity=0.353  Sum_probs=49.7

Q ss_pred             eeeCcchHHHHHHHHHh-hccc-----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305          360 IILHPSLQRRIQHLAKA-TANT-----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV  423 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~-~~~~-----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l  423 (466)
                      |||++++++.+...+.. +...     .....+++|+||+||||||||++|++|+..++.+|+.+++..+
T Consensus        14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~   83 (441)
T TIGR00390        14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKF   83 (441)
T ss_pred             ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeeccee
Confidence            89999999998654332 1111     1123455899999999999999999999999999999987755

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.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.00  E-value=1.4e-10  Score=124.67  Aligned_cols=102  Identities=22%  Similarity=0.271  Sum_probs=78.1

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch-
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG-  427 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~-  427 (466)
                      .....|+++||.+..+..+...+..+..+..+      |||+|+|||||+++|++|+..+   +.||+.++|+.+++.. 
T Consensus       206 ~~~~~f~~iiG~S~~m~~~~~~i~~~A~~~~p------VLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e~ll  279 (526)
T TIGR02329       206 RTRYRLDDLLGASAPMEQVRALVRLYARSDAT------VLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAESLL  279 (526)
T ss_pred             ccccchhheeeCCHHHHHHHHHHHHHhCCCCc------EEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCChhHH
Confidence            34467899999999999998888877766554      9999999999999999999876   5799999999886521 


Q ss_pred             -hHHHHH------------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 -AQAVTK------------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 -~e~~~~------------l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       .+.++.            ..++|+.+.    +++||||||+.|....+
T Consensus       280 eseLFG~~~gaftga~~~~~~Gl~e~A~----gGTLfLdeI~~Lp~~~Q  324 (526)
T TIGR02329       280 EAELFGYEEGAFTGARRGGRTGLIEAAH----RGTLFLDEIGEMPLPLQ  324 (526)
T ss_pred             HHHhcCCcccccccccccccccchhhcC----CceEEecChHhCCHHHH
Confidence             111111            123444443    78999999999976543

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.

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

Probab=98.99  E-value=6e-10  Score=115.20  Aligned_cols=83  Identities=20%  Similarity=0.332  Sum_probs=57.2

Q ss_pred             CeeeCcchHHHHHHHHHh-hcc-----ccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---chhH
Q 012305          359 DIILHPSLQRRIQHLAKA-TAN-----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP---LGAQ  429 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~-~~~-----~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~---~~~e  429 (466)
                      .|||++.+++.+...+.. +..     ......++.|+||+||||||||++|+.|+..++.+|+.+++..+..   .|.+
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~d   95 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   95 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccCC
Confidence            389999999999775532 111     1111223589999999999999999999999999999998876542   2323


Q ss_pred             HHHHHHHHHhhh
Q 012305          430 AVTKIHEIFDWA  441 (466)
Q Consensus       430 ~~~~l~~lf~~A  441 (466)
                      ....++.+|+.|
T Consensus        96 ~e~~ir~L~~~A  107 (443)
T PRK05201         96 VESIIRDLVEIA  107 (443)
T ss_pred             HHHHHHHHHHHH
Confidence            334444444443

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

Probab=98.98  E-value=2e-10  Score=113.30  Aligned_cols=108  Identities=19%  Similarity=0.274  Sum_probs=73.4

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhcc-ccc----ccc-ccccccccCCCCCCchHHHHHHHHhhC---------CcchhhcC
Q 012305          356 NNGDIILHPSLQRRIQHLAKATAN-TKI----HQA-PFRNMLFYGPPGTGKTMVAREIARKSG---------LDYAMMTG  420 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~-~~~----~~~-p~~~vLl~GppGTGKT~lA~alA~~l~---------~~~~~v~~  420 (466)
                      -|+.+|....+++++...+..... ...    +.. -.|-+|++||||||||+|+++||.++.         ...+.+|+
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            356678888888888764433211 111    111 125699999999999999999999982         23456777


Q ss_pred             CCccc-chhHHHHHHHHHHhhhhh----ccCceEEEeccccccccccC
Q 012305          421 GDVAP-LGAQAVTKIHEIFDWAKK----SKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       421 ~~l~~-~~~e~~~~l~~lf~~A~~----~~~~~iLflDEid~l~~~r~  463 (466)
                      ..+.. |-+++...+.++|+....    .+--..|+|||++++...|.
T Consensus       220 hsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~  267 (423)
T KOG0744|consen  220 HSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAART  267 (423)
T ss_pred             hHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHH
Confidence            76654 777887777777765432    23246778999999986653

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.97  E-value=9.6e-11  Score=123.77  Aligned_cols=164  Identities=15%  Similarity=0.189  Sum_probs=102.0

Q ss_pred             cccceeeeechhhhhhhheeecccCceehhhhhhhhhCCCccccccccCCCchhhhhHHHHHHhhhccccccccCccccc
Q 012305          275 DRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAI  354 (466)
Q Consensus       275 d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  354 (466)
                      +++.+++++++.......+.+++.|   +.+|+.+++....+.....+           ................. ...
T Consensus        71 ~~~~piI~lt~~~~~~~~~~a~~~G---a~dyl~KP~~~~~L~~~i~~-----------~~~~~~l~~~~~~l~~~-~~~  135 (445)
T TIGR02915        71 APDTKVIVITGNDDRENAVKAIGLG---AYDFYQKPIDPDVLKLIVDR-----------AFHLYTLETENRRLQSA-LGG  135 (445)
T ss_pred             CCCCCEEEEecCCCHHHHHHHHHCC---ccEEEeCCCCHHHHHHHHhh-----------hhhhhhhHHHHHHhhhh-hhc
Confidence            4667888888888888888888888   56777777765554321111           11000000000000000 111


Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH-
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA-  430 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~-  430 (466)
                      ..+.+++|.......+...+..+.....      +++|+|++||||+++|+.++..+   +.+|+.++|..+.+...++ 
T Consensus       136 ~~~~~lig~s~~~~~l~~~i~~~a~~~~------~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~~~~~  209 (445)
T TIGR02915       136 TALRGLITSSPGMQKICRTIEKIAPSDI------TVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLLESE  209 (445)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCCCC------CEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHHHHHH
Confidence            2456789998888888776665544333      49999999999999999999887   4689999999875421110 


Q ss_pred             -HHH-----------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305          431 -VTK-----------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       431 -~~~-----------l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       .+.           ..+++..+    .+++||||||+.|....+
T Consensus       210 lfg~~~~~~~~~~~~~~g~~~~a----~~gtl~l~~i~~l~~~~q  250 (445)
T TIGR02915       210 LFGYEKGAFTGAVKQTLGKIEYA----HGGTLFLDEIGDLPLNLQ  250 (445)
T ss_pred             hcCCCCCCcCCCccCCCCceeEC----CCCEEEEechhhCCHHHH
Confidence             111           11223323    278999999999986543

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.97  E-value=4.2e-10  Score=116.21  Aligned_cols=101  Identities=22%  Similarity=0.199  Sum_probs=64.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch--hhcC-----------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA--MMTG-----------  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~--~v~~-----------  420 (466)
                      +..|++|||++.+++.+...+..       +..+..+||+||||||||++|+.+++.++....  .-.|           
T Consensus        12 P~~~~~iiGq~~~~~~l~~~~~~-------~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~   84 (363)
T PRK14961         12 PQYFRDIIGQKHIVTAISNGLSL-------GRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEK   84 (363)
T ss_pred             CCchhhccChHHHHHHHHHHHHc-------CCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence            46789999999999988765432       222335799999999999999999998853211  0001           


Q ss_pred             ---CCcccchh---HHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          421 ---GDVAPLGA---QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       421 ---~~l~~~~~---e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                         .++.....   .....++.+.+.+..   .+++.|+||||+|.|...
T Consensus        85 ~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~  134 (363)
T PRK14961         85 GLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRH  134 (363)
T ss_pred             CCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHH
Confidence               11111110   123445555554432   233579999999998754

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.97  E-value=4e-10  Score=121.21  Aligned_cols=104  Identities=18%  Similarity=0.247  Sum_probs=65.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------chhhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-------------YAMMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------~~~v~~  420 (466)
                      +..|+++||++.++..|...+..       +..+..+|||||||||||++|+.||+.+.+.             +..+..
T Consensus        12 P~~f~diiGq~~~v~~L~~~i~~-------~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~   84 (546)
T PRK14957         12 PQSFAEVAGQQHALNSLVHALET-------QKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINN   84 (546)
T ss_pred             cCcHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhc
Confidence            45789999999999887765432       2223458999999999999999999987431             111111


Q ss_pred             CCccc---chh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          421 GDVAP---LGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       421 ~~l~~---~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                      +...+   +..   -.+..++.+.+.+.   ..+++.||||||+|.|....++
T Consensus        85 ~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~n  137 (546)
T PRK14957         85 NSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFN  137 (546)
T ss_pred             CCCCceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHH
Confidence            11111   100   11223344444333   2345689999999998765443

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.96  E-value=4.7e-10  Score=119.92  Aligned_cols=102  Identities=21%  Similarity=0.205  Sum_probs=67.7

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch----------------
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA----------------  416 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~----------------  416 (466)
                      .+..|+++||++.++..|...+..       +..+.++||+||||||||++|+.+|+.+++..-                
T Consensus        16 RP~~f~dliGq~~vv~~L~~ai~~-------~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C   88 (507)
T PRK06645         16 RPSNFAELQGQEVLVKVLSYTILN-------DRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNC   88 (507)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHH
Confidence            356799999999999988764322       233357999999999999999999999854210                


Q ss_pred             -hhcC---CCcccch---hHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          417 -MMTG---GDVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       417 -~v~~---~~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                       .+..   .++..+.   ..++..++.+++.+..   .+++.|+||||+|.|...
T Consensus        89 ~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~  143 (507)
T PRK06645         89 ISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKG  143 (507)
T ss_pred             HHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHH
Confidence             0000   1111111   1234566667666653   234689999999998654

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.96  E-value=4.4e-10  Score=121.16  Aligned_cols=103  Identities=20%  Similarity=0.277  Sum_probs=66.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch-------------hhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA-------------MMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~-------------~v~~  420 (466)
                      +.+|++|||++.+++.|...+..       +..+..+|||||||||||++|+.|++.+++...             .+..
T Consensus        12 P~~f~divGq~~v~~~L~~~i~~-------~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~   84 (527)
T PRK14969         12 PKSFSELVGQEHVVRALTNALEQ-------QRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDS   84 (527)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHc-------CCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence            45789999999999988766442       222345799999999999999999999854210             1111


Q ss_pred             CCccc---ch---hHHHHHHHHHHhhhhh---ccCceEEEeccccccccccC
Q 012305          421 GDVAP---LG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       421 ~~l~~---~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~  463 (466)
                      +.+.+   ..   ...+..++.+.+.+..   .+++.|+||||+|.|...-+
T Consensus        85 ~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~  136 (527)
T PRK14969         85 GRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAF  136 (527)
T ss_pred             CCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHH
Confidence            11111   11   1123455666655543   23468999999999976443

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

Probab=98.95  E-value=1.4e-09  Score=117.14  Aligned_cols=99  Identities=24%  Similarity=0.303  Sum_probs=71.7

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------chh
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LGA  428 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~~  428 (466)
                      |-.|.+.+++++-+.+......+.-..|  -+||+||||+|||+++++||+.+|..|+.++.|.+-+          +.+
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~~kGp--ILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIG  401 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKKLKGP--ILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIG  401 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhccCCCc--EEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccccccccc
Confidence            3457788899987765544333332223  4789999999999999999999999999999877632          222


Q ss_pred             HHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      ...+.+.+-+..+...+  -+++|||||.|..+
T Consensus       402 amPGrIiQ~mkka~~~N--Pv~LLDEIDKm~ss  432 (782)
T COG0466         402 AMPGKIIQGMKKAGVKN--PVFLLDEIDKMGSS  432 (782)
T ss_pred             cCChHHHHHHHHhCCcC--CeEEeechhhccCC
Confidence            33455555666666554  38999999999865

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.95  E-value=9.3e-10  Score=124.94  Aligned_cols=101  Identities=19%  Similarity=0.301  Sum_probs=74.1

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l  423 (466)
                      +..++.+||++....++.+++..   ...     .|+||+||||||||++++.|+..+          +++++.++.+.+
T Consensus       174 ~~~l~~vigr~~ei~~~i~iL~r---~~~-----~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l  245 (857)
T PRK10865        174 QGKLDPVIGRDEEIRRTIQVLQR---RTK-----NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL  245 (857)
T ss_pred             cCCCCcCCCCHHHHHHHHHHHhc---CCc-----CceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhh
Confidence            34678899999876666554322   111     369999999999999999999987          556666655554


Q ss_pred             c---cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      .   .+.++....++.+|+.+.....+.|||||||+.|.+.+
T Consensus       246 ~ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~  287 (857)
T PRK10865        246 VAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAG  287 (857)
T ss_pred             hhccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCC
Confidence            2   24456667889999876555557899999999998653

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.94  E-value=3.8e-10  Score=121.77  Aligned_cols=102  Identities=18%  Similarity=0.192  Sum_probs=76.3

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchh
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGA  428 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~  428 (466)
                      ....+|+++||.+..+..+...+..++....+      |||+|++||||+++|++++..+   +.+|+.++|..+++...
T Consensus       198 ~~~~~f~~~ig~s~~~~~~~~~~~~~A~~~~p------vlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~~~~  271 (520)
T PRK10820        198 NDDSAFSQIVAVSPKMRQVVEQARKLAMLDAP------LLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVV  271 (520)
T ss_pred             cccccccceeECCHHHHHHHHHHHHHhCCCCC------EEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCHHHH
Confidence            35678999999999888888777766665444      9999999999999999998877   46899999998865211


Q ss_pred             HH--HH-----------HHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          429 QA--VT-----------KIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       429 e~--~~-----------~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      ++  ++           ...++|+.+.    +++|||||||.|....+
T Consensus       272 e~elFG~~~~~~~~~~~~~~g~~e~a~----~GtL~LdeI~~L~~~~Q  315 (520)
T PRK10820        272 ESELFGHAPGAYPNALEGKKGFFEQAN----GGSVLLDEIGEMSPRMQ  315 (520)
T ss_pred             HHHhcCCCCCCcCCcccCCCChhhhcC----CCEEEEeChhhCCHHHH
Confidence            11  00           1123455443    78999999999976543

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.94  E-value=5.4e-10  Score=121.93  Aligned_cols=101  Identities=20%  Similarity=0.294  Sum_probs=66.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~  420 (466)
                      +..|++|||++.+++.|...+..       +..+..+|||||+|||||++|+.|++.+++.-             ..+..
T Consensus        12 P~tFddIIGQe~vv~~L~~ai~~-------~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~   84 (709)
T PRK08691         12 PKTFADLVGQEHVVKALQNALDE-------GRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDA   84 (709)
T ss_pred             CCCHHHHcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhc
Confidence            55789999999999988876442       23345699999999999999999999875421             01111


Q ss_pred             CCccc---c---hhHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          421 GDVAP---L---GAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       421 ~~l~~---~---~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                      +.+.+   +   ....+..++.+++.+..   ..++.||||||+|.|...
T Consensus        85 g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~  134 (709)
T PRK08691         85 GRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKS  134 (709)
T ss_pred             cCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHH
Confidence            11111   1   01123455666654432   344689999999998654

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.94  E-value=5.6e-10  Score=121.04  Aligned_cols=100  Identities=19%  Similarity=0.294  Sum_probs=66.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-------------------  414 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------------  414 (466)
                      +.+|++|||++.++..|...+..       +....++||+||||||||++|+.||+.+.+.                   
T Consensus        12 P~sf~dIiGQe~v~~~L~~ai~~-------~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~   84 (624)
T PRK14959         12 PQTFAEVAGQETVKAILSRAAQE-------NRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQ   84 (624)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhc
Confidence            55789999999998888876432       1112379999999999999999999998542                   


Q ss_pred             -----chhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          415 -----YAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       415 -----~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                           ++.+++..  ..+.+....+...+........+.||||||+|.|....
T Consensus        85 g~hpDv~eId~a~--~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a  135 (624)
T PRK14959         85 GMHVDVVEIDGAS--NRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREA  135 (624)
T ss_pred             CCCCceEEEeccc--ccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHH
Confidence                 11111110  12223334444444443334457899999999997543

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.94  E-value=5e-10  Score=119.97  Aligned_cols=96  Identities=17%  Similarity=0.184  Sum_probs=63.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-------------------  414 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------------  414 (466)
                      +..|++|||++.+++.|..++..       +..+..+|||||||||||++|+++++.+.+.                   
T Consensus        10 P~~~~dvvGq~~v~~~L~~~i~~-------~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~   82 (504)
T PRK14963         10 PITFDEVVGQEHVKEVLLAALRQ-------GRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRG   82 (504)
T ss_pred             CCCHHHhcChHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcC
Confidence            45789999999999888876543       1222346999999999999999999988421                   


Q ss_pred             ----chhhcCCCcccchhHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          415 ----YAMMTGGDVAPLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       415 ----~~~v~~~~l~~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                          |+.+++.     ...++..++.+.+.+..   ...+.||||||+|.+...
T Consensus        83 ~h~dv~el~~~-----~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~  131 (504)
T PRK14963         83 AHPDVLEIDAA-----SNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKS  131 (504)
T ss_pred             CCCceEEeccc-----ccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHH
Confidence                1111211     11123334444443332   344689999999988643

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.94  E-value=1.3e-09  Score=123.45  Aligned_cols=100  Identities=19%  Similarity=0.284  Sum_probs=72.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC----------CcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG----------LDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~----------~~~~~v~~~~l  423 (466)
                      +..++++||+++...++..++..   ..     ..|+||+||||||||++++.|+..+.          ..++.++.+.+
T Consensus       183 ~~~ld~~iGr~~ei~~~i~~l~r---~~-----~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l  254 (852)
T TIGR03345       183 EGKIDPVLGRDDEIRQMIDILLR---RR-----QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLL  254 (852)
T ss_pred             CCCCCcccCCHHHHHHHHHHHhc---CC-----cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhh
Confidence            44678999999876666544211   11     12799999999999999999998872          33444444433


Q ss_pred             c---cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .   .+.++....++.+|+.+...+.+.|||||||+.|.+.
T Consensus       255 ~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~  295 (852)
T TIGR03345       255 QAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGA  295 (852)
T ss_pred             hcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccC
Confidence            2   2456667899999998876555799999999999863

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.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.93  E-value=6.3e-10  Score=124.97  Aligned_cols=105  Identities=23%  Similarity=0.263  Sum_probs=65.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~  420 (466)
                      +.+|++|||++.+++.|...+..       +.....+|||||+|||||++|+.|++.+.+..             ..+..
T Consensus        11 P~~f~eiiGqe~v~~~L~~~i~~-------~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~   83 (824)
T PRK07764         11 PATFAEVIGQEHVTEPLSTALDS-------GRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAP   83 (824)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHh-------CCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHc
Confidence            45789999999999988776442       11223489999999999999999999985310             11111


Q ss_pred             C-----Ccccchh---HHHHHHHHHHhhh---hhccCceEEEeccccccccccCCC
Q 012305          421 G-----DVAPLGA---QAVTKIHEIFDWA---KKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       421 ~-----~l~~~~~---e~~~~l~~lf~~A---~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                      +     ++..+..   -.+..++.+.+.+   ....++.|+||||+|.|....+|.
T Consensus        84 g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~Na  139 (824)
T PRK07764         84 GGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNA  139 (824)
T ss_pred             CCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHH
Confidence            1     1111111   1133344443322   223457899999999998765543

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.92  E-value=8e-10  Score=119.91  Aligned_cols=104  Identities=24%  Similarity=0.288  Sum_probs=65.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~  420 (466)
                      +.+|++|||++.+++.|...+..       +..+..+|||||+|||||++|+.||+.+++..             ..++.
T Consensus         9 P~~f~eivGq~~i~~~L~~~i~~-------~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~   81 (584)
T PRK14952          9 PATFAEVVGQEHVTEPLSSALDA-------GRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAP   81 (584)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhc
Confidence            55799999999999998876432       12223479999999999999999999875311             01110


Q ss_pred             ---C--Ccccchh---HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          421 ---G--DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       421 ---~--~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                         +  ++.....   .++..++.+.+.+.   ...++.|+||||+|.|...-+|
T Consensus        82 ~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~N  136 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFN  136 (584)
T ss_pred             ccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHH
Confidence               0  1111101   12334444443332   2345789999999999765444

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.92  E-value=4e-10  Score=114.76  Aligned_cols=94  Identities=19%  Similarity=0.151  Sum_probs=69.4

Q ss_pred             eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch--hHHHHHH
Q 012305          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG--AQAVTKI  434 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~--~e~~~~l  434 (466)
                      +||.+..+..+...+..+.....+      |||+|+|||||+++|++|+..+   +.+|+.|+|+.+.+..  .+.++..
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~p------VLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~lfG~~   74 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRP------VLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHE   74 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCC------EEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHHHhccc
Confidence            478888888888877777665554      9999999999999999999887   4799999999875421  1111111


Q ss_pred             -----------HHHHhhhhhccCceEEEeccccccccccC
Q 012305          435 -----------HEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       435 -----------~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                                 .++|..+.    +++||||||+.|....+
T Consensus        75 ~g~~~ga~~~~~G~~~~a~----gGtL~Ldei~~L~~~~Q  110 (329)
T TIGR02974        75 AGAFTGAQKRHQGRFERAD----GGTLFLDELATASLLVQ  110 (329)
T ss_pred             cccccCcccccCCchhhCC----CCEEEeCChHhCCHHHH
Confidence                       23344443    79999999999876543

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

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.92  E-value=3.8e-10  Score=122.27  Aligned_cols=101  Identities=22%  Similarity=0.271  Sum_probs=75.0

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ  429 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e  429 (466)
                      ....|+++||.+..+..+...+..+..+..+      |||+|+||||||++|++|+..+   +.+|+.++|+.+.....+
T Consensus       191 ~~~~~~~liG~s~~~~~~~~~~~~~a~~~~p------vli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~~~~~  264 (534)
T TIGR01817       191 RSGKEDGIIGKSPAMRQVVDQARVVARSNST------VLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLE  264 (534)
T ss_pred             ccCccCceEECCHHHHHHHHHHHHHhCcCCC------EEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCHHHHH
Confidence            3467899999999999998888777765444      9999999999999999999987   579999999987542111


Q ss_pred             H--HHHHH-----------HHHhhhhhccCceEEEeccccccccccC
Q 012305          430 A--VTKIH-----------EIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       430 ~--~~~l~-----------~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .  ++...           ++|..+    .+++||||||+.|....+
T Consensus       265 ~~lfg~~~~~~~~~~~~~~g~~~~a----~~GtL~ldei~~L~~~~Q  307 (534)
T TIGR01817       265 SELFGHEKGAFTGAIAQRKGRFELA----DGGTLFLDEIGEISPAFQ  307 (534)
T ss_pred             HHHcCCCCCccCCCCcCCCCccccc----CCCeEEEechhhCCHHHH
Confidence            1  11111           122322    278999999999876544

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.92  E-value=1.1e-09  Score=124.27  Aligned_cols=99  Identities=20%  Similarity=0.300  Sum_probs=76.7

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcc
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVA  424 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~  424 (466)
                      ..++.+||.+..++++.+++..        ....|+||+||||||||++++.||..+          +.+++.++.+.+.
T Consensus       176 ~~~~~~igr~~ei~~~~~~L~r--------~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~  247 (821)
T CHL00095        176 GNLDPVIGREKEIERVIQILGR--------RTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLL  247 (821)
T ss_pred             CCCCCCCCcHHHHHHHHHHHcc--------cccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHh
Confidence            3578899999988888776432        123479999999999999999999886          3567777765542


Q ss_pred             ---cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          425 ---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       425 ---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                         .+.++....+..+|+.+...+ +.|||||||+.|++..
T Consensus       248 ag~~~~ge~e~rl~~i~~~~~~~~-~~ILfiDEih~l~~~g  287 (821)
T CHL00095        248 AGTKYRGEFEERLKRIFDEIQENN-NIILVIDEVHTLIGAG  287 (821)
T ss_pred             ccCCCccHHHHHHHHHHHHHHhcC-CeEEEEecHHHHhcCC
Confidence               345667788999999887554 7899999999998654

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.91  E-value=5.4e-10  Score=113.75  Aligned_cols=98  Identities=17%  Similarity=0.140  Sum_probs=72.7

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--H
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--A  430 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~  430 (466)
                      .++++||.+..+..+.+.+..+.....+      |||+|+|||||+++|++|+..+   +.+|+.++|..+.+...+  .
T Consensus         4 ~~~~liG~S~~~~~~~~~i~~~a~~~~p------VlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~~~~~l   77 (326)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSRLAPLDKP------VLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSEL   77 (326)
T ss_pred             ccCccEECCHHHHHHHHHHHHHhCCCCC------EEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHHHHHHH
Confidence            3678999999999998888887765554      9999999999999999999877   468999999987532111  0


Q ss_pred             HHH-----------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305          431 VTK-----------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       431 ~~~-----------l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      ++.           ..+++..+.    +++|||||||.|....+
T Consensus        78 fg~~~~~~~g~~~~~~g~l~~a~----gGtL~l~~i~~L~~~~Q  117 (326)
T PRK11608         78 FGHEAGAFTGAQKRHPGRFERAD----GGTLFLDELATAPMLVQ  117 (326)
T ss_pred             ccccccccCCcccccCCchhccC----CCeEEeCChhhCCHHHH
Confidence            111           123344332    78999999999876543

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.90  E-value=1.1e-09  Score=119.49  Aligned_cols=104  Identities=23%  Similarity=0.313  Sum_probs=66.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhc-
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMT-  419 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~-  419 (466)
                      +..|++|||++.++..|...+..       +..+..+|||||+|||||++|+.|++.+++.-             ..+. 
T Consensus        12 P~~f~~iiGq~~v~~~L~~~i~~-------~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~   84 (576)
T PRK14965         12 PQTFSDLTGQEHVSRTLQNAIDT-------GRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITE   84 (576)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhc
Confidence            46799999999999888766432       22334589999999999999999999884320             0111 


Q ss_pred             CC--Ccccch---hHHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          420 GG--DVAPLG---AQAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       420 ~~--~l~~~~---~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                      |.  ++..+.   ...+..++.+.+.+.   ...++.|+||||+|.|....+|
T Consensus        85 g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~n  137 (576)
T PRK14965         85 GRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFN  137 (576)
T ss_pred             CCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHH
Confidence            11  111111   112334555554443   2345689999999999765443

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.89  E-value=4e-10  Score=116.12  Aligned_cols=101  Identities=23%  Similarity=0.243  Sum_probs=74.5

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcccchh
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAPLGA  428 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~~~~  428 (466)
                      ....++++||.+...+.+.+-+.......      .+||++|+|||||+++|+.|+..+    +.||+.+||+++....-
T Consensus        73 ~~~~~~~LIG~~~~~~~~~eqik~~ap~~------~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~  146 (403)
T COG1221          73 KSEALDDLIGESPSLQELREQIKAYAPSG------LPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQ  146 (403)
T ss_pred             cchhhhhhhccCHHHHHHHHHHHhhCCCC------CcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCHH
Confidence            34567899999888888777665543333      349999999999999999998554    57999999999876322


Q ss_pred             H--HHH-----------HHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          429 Q--AVT-----------KIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       429 e--~~~-----------~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +  -++           .-.++|++|.    |++||||||..|.+.-+
T Consensus       147 ~~eLFG~~kGaftGa~~~k~Glfe~A~----GGtLfLDEI~~LP~~~Q  190 (403)
T COG1221         147 EAELFGHEKGAFTGAQGGKAGLFEQAN----GGTLFLDEIHRLPPEGQ  190 (403)
T ss_pred             HHHHhccccceeecccCCcCchheecC----CCEEehhhhhhCCHhHH
Confidence            2  122           2345666655    79999999999876543

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.88  E-value=1.5e-09  Score=112.87  Aligned_cols=109  Identities=21%  Similarity=0.311  Sum_probs=70.6

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhcc-cccc-ccccccccccCCCCCCchHHHHHHHHhhCCcc---------------hhh
Q 012305          356 NNGDIILHPSLQRRIQHLAKATAN-TKIH-QAPFRNMLFYGPPGTGKTMVAREIARKSGLDY---------------AMM  418 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~-~~~~-~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~---------------~~v  418 (466)
                      .|++|||++.+++.|...+..-.. .... ...+..+||+||||||||++|+.+|+.+....               ..-
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~   82 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAG   82 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcC
Confidence            578999999999999887665321 1111 11335799999999999999999998873321               011


Q ss_pred             cCCCcccc---h-hHHHHHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305          419 TGGDVAPL---G-AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       419 ~~~~l~~~---~-~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~  464 (466)
                      +.+|+...   + .-.+..++.+++.+..   .+++.|+||||+|.|.....|
T Consensus        83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aan  135 (394)
T PRK07940         83 THPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAAN  135 (394)
T ss_pred             CCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHH
Confidence            11222111   1 1124567777777654   234579999999999765443

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.88  E-value=1.4e-09  Score=113.59  Aligned_cols=53  Identities=28%  Similarity=0.321  Sum_probs=42.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      +..|++|||++.+++.|...+..       +..+..+|||||||||||++|+.+|+.+..
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            45789999999999988765432       222235999999999999999999998854

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.88  E-value=1.3e-09  Score=118.23  Aligned_cols=101  Identities=27%  Similarity=0.326  Sum_probs=66.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc---------h----hhc-
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY---------A----MMT-  419 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~---------~----~v~-  419 (466)
                      +.+|++|||++.+++.|...+..       +.....+|||||+|||||++|+.+++.+++.-         |    .+. 
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~-------~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~   84 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQ-------GKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITN   84 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhc
Confidence            55799999999999988876443       22234589999999999999999999874211         0    011 


Q ss_pred             C--CCcccchh---HHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          420 G--GDVAPLGA---QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       420 ~--~~l~~~~~---e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                      +  .++..+..   .++..++.+.+.+..   ..++.|+||||+|.|...
T Consensus        85 g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~  134 (559)
T PRK05563         85 GSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTG  134 (559)
T ss_pred             CCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHH
Confidence            1  12211111   224455566555442   345789999999998654

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.88  E-value=1.4e-09  Score=117.50  Aligned_cols=101  Identities=23%  Similarity=0.253  Sum_probs=63.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc--c----------h-hhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD--Y----------A-MMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~--~----------~-~v~~  420 (466)
                      +..|+++||++.++..+...+..       +..+..+||+||||||||++|+.+|+.+.+.  .          | .+..
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~-------~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~   84 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILN-------NKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINT   84 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHc
Confidence            45789999999999888765322       2233569999999999999999999987321  0          0 0000


Q ss_pred             ---CCcccch---hHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          421 ---GDVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       421 ---~~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                         .++..+.   .-++..++.+.+.+..   ..++.|+||||+|.|...
T Consensus        85 ~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~  134 (605)
T PRK05896         85 NQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTS  134 (605)
T ss_pred             CCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHH
Confidence               1111111   0123345555544432   234679999999998654

>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=98.87  E-value=2.6e-10  Score=105.51  Aligned_cols=74  Identities=22%  Similarity=0.353  Sum_probs=52.1

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhhCC----cchhhcCCCcccchhHHHHHHHHHHhhhh---hccCceEEEecccccc
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKSGL----DYAMMTGGDVAPLGAQAVTKIHEIFDWAK---KSKKGLLLFIDEADAF  458 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l~~----~~~~v~~~~l~~~~~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l  458 (466)
                      |..++||+||+|||||.+|++|+..+..    +++.++++.+.. +.+....+..++..+.   ....++||||||||..
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~-~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa   80 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSE-GDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKA   80 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCS-HHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccc-cchHHhhhhhhhhcccceeeccchhhhhhHHHhhc
Confidence            5568999999999999999999999985    889999888765 2222222223332211   1222579999999999


Q ss_pred             cc
Q 012305          459 LC  460 (466)
Q Consensus       459 ~~  460 (466)
                      ++
T Consensus        81 ~~   82 (171)
T PF07724_consen   81 HP   82 (171)
T ss_dssp             SH
T ss_pred             cc
Confidence            87

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 ....

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.87  E-value=3e-09  Score=109.39  Aligned_cols=106  Identities=17%  Similarity=0.259  Sum_probs=70.6

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC---------CcchhhcCCC
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---------LDYAMMTGGD  422 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---------~~~~~v~~~~  422 (466)
                      .+.+..++++|.+.-.+.|...+......    ..+.+++||||||||||++++.+++.+.         ..++.++|..
T Consensus         9 ~~~~~p~~l~gRe~e~~~l~~~l~~~~~~----~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~   84 (365)
T TIGR02928         9 EPDYVPDRIVHRDEQIEELAKALRPILRG----SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQI   84 (365)
T ss_pred             CCCCCCCCCCCcHHHHHHHHHHHHHHHcC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCC
Confidence            44555678999988888887766543321    2234799999999999999999988762         4577788765


Q ss_pred             cccc---------------------hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          423 VAPL---------------------GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       423 l~~~---------------------~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      ....                     +......+..++......+++.||+|||+|.|...
T Consensus        85 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~  144 (365)
T TIGR02928        85 LDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGD  144 (365)
T ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccC
Confidence            4210                     00111223445555544455789999999999743

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.

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.86  E-value=5.3e-10  Score=118.94  Aligned_cols=188  Identities=17%  Similarity=0.200  Sum_probs=112.5

Q ss_pred             ccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhC
Q 012305          233 KLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILG  312 (466)
Q Consensus       233 ~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg  312 (466)
                      ...+|+.+.++.++. .+...++..|...             ++..+++++++.......+.+.+.|   +.+|+.+++.
T Consensus        45 ~~~~DlvllD~~lp~-~dgl~~l~~ir~~-------------~~~~pvIvlt~~~~~~~~~~a~~~G---a~~~l~KP~~  107 (469)
T PRK10923         45 SKTPDVLLSDIRMPG-MDGLALLKQIKQR-------------HPMLPVIIMTAHSDLDAAVSAYQQG---AFDYLPKPFD  107 (469)
T ss_pred             cCCCCEEEECCCCCC-CCHHHHHHHHHhh-------------CCCCeEEEEECCCCHHHHHHHHhcC---cceEEecCCc
Confidence            445677776655543 2444455444432             3456777888877777777777777   4566666655


Q ss_pred             CCccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccc
Q 012305          313 QPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLF  392 (466)
Q Consensus       313 ~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl  392 (466)
                      ...+...           +...+........   .. .......+.+++|.+.....+...+..+.....      ++||
T Consensus       108 ~~~L~~~-----------i~~~l~~~~~~~~---~~-~~~~~~~~~~lig~s~~~~~l~~~~~~~~~~~~------~vli  166 (469)
T PRK10923        108 IDEAVAL-----------VERAISHYQEQQQ---PR-NIQVNGPTTDIIGEAPAMQDVFRIIGRLSRSSI------SVLI  166 (469)
T ss_pred             HHHHHHH-----------HHHHHHHHHHHHh---hh-hhhhccccccceecCHHHHHHHHHHHHHhccCC------eEEE
Confidence            4443221           1111111000000   00 011123456799998888888776665554433      3999


Q ss_pred             cCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchh--HHHHHH-----------HHHHhhhhhccCceEEEecccc
Q 012305          393 YGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGA--QAVTKI-----------HEIFDWAKKSKKGLLLFIDEAD  456 (466)
Q Consensus       393 ~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~--e~~~~l-----------~~lf~~A~~~~~~~iLflDEid  456 (466)
                      +|++|||||++|++++..+   +.+|+.++|+.+.....  ...+..           .+.|..+    .+++|||||||
T Consensus       167 ~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~~~~~lfg~~~g~~~~~~~~~~g~~~~a----~~Gtl~l~~i~  242 (469)
T PRK10923        167 NGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAFTGANTIRQGRFEQA----DGGTLFLDEIG  242 (469)
T ss_pred             EeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHHHHHHhcCCCCCCCCCCCcCCCCCeeEC----CCCEEEEeccc
Confidence            9999999999999999987   47899999998753111  111111           1223332    27899999999


Q ss_pred             cccccc
Q 012305          457 AFLCDN  462 (466)
Q Consensus       457 ~l~~~r  462 (466)
                      .|....
T Consensus       243 ~l~~~~  248 (469)
T PRK10923        243 DMPLDV  248 (469)
T ss_pred             cCCHHH
Confidence            887543

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.86  E-value=2.7e-09  Score=121.43  Aligned_cols=99  Identities=19%  Similarity=0.293  Sum_probs=71.8

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l  423 (466)
                      ...++.+||++....++..++..   .     ...|+||+||||||||++++.|+..+          +++++.++.+.+
T Consensus       169 ~~~~~~~igr~~ei~~~~~~l~r---~-----~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l  240 (852)
T TIGR03346       169 EGKLDPVIGRDEEIRRTIQVLSR---R-----TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGAL  240 (852)
T ss_pred             CCCCCcCCCcHHHHHHHHHHHhc---C-----CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHH
Confidence            34678899999876666554322   1     12369999999999999999999886          445555554443


Q ss_pred             c---cchhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      .   .+.++....+..+|+.+.....+.|||||||+.|.+
T Consensus       241 ~a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~  280 (852)
T TIGR03346       241 IAGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVG  280 (852)
T ss_pred             hhcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhc
Confidence            1   244556678889998886555579999999999985

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.86  E-value=2.4e-09  Score=92.19  Aligned_cols=74  Identities=30%  Similarity=0.479  Sum_probs=55.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCc---chhhcCCCccc---------------chhHHHHHHHHHHhhhhhccCceE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLD---YAMMTGGDVAP---------------LGAQAVTKIHEIFDWAKKSKKGLL  449 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~---~~~v~~~~l~~---------------~~~e~~~~l~~lf~~A~~~~~~~i  449 (466)
                      .+++|+||||||||++++.++..++..   ++.++++....               ...........++..+.... +++
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~v   81 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLK-PDV   81 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcC-CCE
Confidence            479999999999999999999999664   66666654322               11223455677888887655 699


Q ss_pred             EEecccccccccc
Q 012305          450 LFIDEADAFLCDN  462 (466)
Q Consensus       450 LflDEid~l~~~r  462 (466)
                      |||||++.+....
T Consensus        82 iiiDei~~~~~~~   94 (148)
T smart00382       82 LILDEITSLLDAE   94 (148)
T ss_pred             EEEECCcccCCHH
Confidence            9999999987643

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.

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.85  E-value=1.3e-09  Score=110.53  Aligned_cols=62  Identities=24%  Similarity=0.377  Sum_probs=46.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC-----CcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG-----LDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~~~~l  423 (466)
                      +..|++++|++.+...+..++..      +..  .++|||||||||||++|+++++.+.     .+++.+++.++
T Consensus        11 P~~~~~~~g~~~~~~~L~~~~~~------~~~--~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~   77 (337)
T PRK12402         11 PALLEDILGQDEVVERLSRAVDS------PNL--PHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADF   77 (337)
T ss_pred             CCcHHHhcCCHHHHHHHHHHHhC------CCC--ceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhh
Confidence            44689999999998888776432      112  2699999999999999999999873     34566676554

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.85  E-value=1.2e-09  Score=117.54  Aligned_cols=98  Identities=22%  Similarity=0.347  Sum_probs=74.7

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--H
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--A  430 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~  430 (466)
                      .+.++||.+..+..+...+..++....+      |||+|++|||||++|++|+..+   +.+|+.++|..+.....+  .
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~~~p------VlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~~e~~l  258 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAASDLN------VLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESEL  258 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCCCCc------EEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHHHHHHh
Confidence            5678999999999999888887776554      9999999999999999999987   579999999988642111  1


Q ss_pred             HHHH-----------HHHHhhhhhccCceEEEeccccccccccC
Q 012305          431 VTKI-----------HEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       431 ~~~l-----------~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      ++..           .+.|..+.    +++|||||||.|....+
T Consensus       259 fG~~~g~~~ga~~~~~g~~~~a~----gGtL~ldeI~~L~~~~Q  298 (509)
T PRK05022        259 FGHVKGAFTGAISNRSGKFELAD----GGTLFLDEIGELPLALQ  298 (509)
T ss_pred             cCccccccCCCcccCCcchhhcC----CCEEEecChhhCCHHHH
Confidence            1111           12344333    78999999999976543

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.84  E-value=4.1e-10  Score=119.25  Aligned_cols=165  Identities=17%  Similarity=0.170  Sum_probs=97.5

Q ss_pred             cccceeeeechhhhhhhheeecccCceehhhhhhhhhCCCccccccccCCCchhhhhHHHHHHhhhccccccccCccccc
Q 012305          275 DRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAI  354 (466)
Q Consensus       275 d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  354 (466)
                      ++..+++++++.......+.+.+.|   +.+|+.+++....+.....           ......................
T Consensus        74 ~~~~pvI~lt~~~~~~~~~~a~~~G---a~d~l~KP~~~~~L~~~i~-----------~~l~~~~l~~~~~~l~~~l~~~  139 (457)
T PRK11361         74 ETRTPVILMTAYAEVETAVEALRCG---AFDYVIKPFDLDELNLIVQ-----------RALQLQSMKKEIRHLHQALSTS  139 (457)
T ss_pred             CCCCCEEEEeCCCCHHHHHHHHHCC---ccEEEecccCHHHHHHHHh-----------hhccccccchhhhhhhhhhhcc
Confidence            3556777788887777777777777   5556666554333221111           0000000000000001111122


Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH-
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA-  430 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~-  430 (466)
                      ..+.+++|.+.....+...+..+.....      ++|++|++||||+++|++++..+   +.+|+.++|..+.+...++ 
T Consensus       140 ~~~~~ii~~S~~~~~~~~~~~~~a~~~~------~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~~~~~  213 (457)
T PRK11361        140 WQWGHILTNSPAMMDICKDTAKIALSQA------SVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESE  213 (457)
T ss_pred             ccccceecccHHHhHHHHHHHHHcCCCc------EEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHHHHHH
Confidence            3456788988877777766666555444      39999999999999999998876   5789999999875421110 


Q ss_pred             -HHH-----------HHHHHhhhhhccCceEEEeccccccccccC
Q 012305          431 -VTK-----------IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       431 -~~~-----------l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       .+.           ..+++..+.    +++|||||||.|....+
T Consensus       214 lfg~~~~~~~~~~~~~~g~~~~a~----~gtl~ld~i~~l~~~~q  254 (457)
T PRK11361        214 LFGHEKGAFTGAQTLRQGLFERAN----EGTLLLDEIGEMPLVLQ  254 (457)
T ss_pred             hcCCCCCCCCCCCCCCCCceEECC----CCEEEEechhhCCHHHH
Confidence             000           012333332    68999999999976543

>PRK06893 DNA replication initiation factor; Validated

Probab=98.84  E-value=3e-09  Score=102.93  Aligned_cols=96  Identities=9%  Similarity=0.089  Sum_probs=57.6

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL  426 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~  426 (466)
                      ...+..+|+++|+.+...- +..+......     .....++||||||||||+|++++|+.+   +.++..++...... 
T Consensus         8 ~~~~~~~fd~f~~~~~~~~-~~~~~~~~~~-----~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~-   80 (229)
T PRK06893          8 HQIDDETLDNFYADNNLLL-LDSLRKNFID-----LQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQY-   80 (229)
T ss_pred             CCCCcccccccccCChHHH-HHHHHHHhhc-----cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhh-
Confidence            3456778999998776542 2223222211     112358999999999999999999886   33333333321111 


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                            ....+++...   ..++||||||+.+.++
T Consensus        81 ------~~~~~~~~~~---~~dlLilDDi~~~~~~  106 (229)
T PRK06893         81 ------FSPAVLENLE---QQDLVCLDDLQAVIGN  106 (229)
T ss_pred             ------hhHHHHhhcc---cCCEEEEeChhhhcCC
Confidence                  1112333332   3679999999987644

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.83  E-value=2.2e-09  Score=119.71  Aligned_cols=100  Identities=22%  Similarity=0.245  Sum_probs=74.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch--h
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG--A  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~--~  428 (466)
                      ...|+++||.+..+..+...+..+.....+      |||+|+||||||++|++|+..+   +.+|+.++|..+....  .
T Consensus       372 n~~~~~liG~S~~~~~~~~~~~~~a~~~~p------VLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~~~~~  445 (686)
T PRK15429        372 DSEFGEIIGRSEAMYSVLKQVEMVAQSDST------VLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLES  445 (686)
T ss_pred             cccccceeecCHHHHHHHHHHHHHhCCCCC------EEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChhHhhh
Confidence            357889999999999988877776655444      9999999999999999999877   5799999999875311  1


Q ss_pred             HHH-----------HHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          429 QAV-----------TKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       429 e~~-----------~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.+           ....+.|+.+.    +++||||||+.|...-+
T Consensus       446 ~lfg~~~~~~~g~~~~~~g~le~a~----~GtL~Ldei~~L~~~~Q  487 (686)
T PRK15429        446 DLFGHERGAFTGASAQRIGRFELAD----KSSLFLDEVGDMPLELQ  487 (686)
T ss_pred             hhcCcccccccccccchhhHHHhcC----CCeEEEechhhCCHHHH
Confidence            111           11223444443    78999999999876543

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.83  E-value=2.5e-09  Score=113.30  Aligned_cols=52  Identities=23%  Similarity=0.296  Sum_probs=42.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +.+|++|||++.++..|...+..       +..+.++|||||||||||++|+.+++.+.
T Consensus        13 P~~~~diiGq~~~v~~L~~~i~~-------~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~   64 (451)
T PRK06305         13 PQTFSEILGQDAVVAVLKNALRF-------NRAAHAYLFSGIRGTGKTTLARIFAKALN   64 (451)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            45799999999999888765432       22334699999999999999999999873

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.82  E-value=2.9e-09  Score=109.98  Aligned_cols=100  Identities=22%  Similarity=0.293  Sum_probs=65.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-------cc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-------PL  426 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-------~~  426 (466)
                      +..|+++||++.+.+.+...+..       +..+.++|||||||+|||++++.+++.++.......+.++.       ..
T Consensus        13 P~~~~~iig~~~~~~~l~~~i~~-------~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~   85 (367)
T PRK14970         13 PQTFDDVVGQSHITNTLLNAIEN-------NHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAA   85 (367)
T ss_pred             CCcHHhcCCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccc
Confidence            45789999999998887765432       23345799999999999999999999885422111111110       01


Q ss_pred             hhHHHHHHHHHHhhhhh---ccCceEEEecccccccc
Q 012305          427 GAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~  460 (466)
                      .......+..+++.+..   .+.+.||||||+|.+..
T Consensus        86 ~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~  122 (367)
T PRK14970         86 SNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSS  122 (367)
T ss_pred             cCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCH
Confidence            11123455666665443   23357999999998864

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.82  E-value=1.9e-09  Score=119.19  Aligned_cols=100  Identities=19%  Similarity=0.263  Sum_probs=74.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH-
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ-  429 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e-  429 (466)
                      ..+|++++|.+..+..+...+..+.....+      |||+|+|||||+++|++|+..+   +.+|+.++|+.++....+ 
T Consensus       321 ~~~~~~l~g~s~~~~~~~~~~~~~a~~~~p------vli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~~~~  394 (638)
T PRK11388        321 SHTFDHMPQDSPQMRRLIHFGRQAAKSSFP------VLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALAE  394 (638)
T ss_pred             cccccceEECCHHHHHHHHHHHHHhCcCCC------EEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHHHHH
Confidence            346899999999999888877777665444      9999999999999999999987   479999999988641111 


Q ss_pred             -HHH--------HHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          430 -AVT--------KIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       430 -~~~--------~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       ..+        ...+.|+.+.    +++||||||+.|....+
T Consensus       395 elfg~~~~~~~~~~~g~~~~a~----~GtL~ldei~~l~~~~Q  433 (638)
T PRK11388        395 EFLGSDRTDSENGRLSKFELAH----GGTLFLEKVEYLSPELQ  433 (638)
T ss_pred             HhcCCCCcCccCCCCCceeECC----CCEEEEcChhhCCHHHH
Confidence             000        0112343332    78999999999876544

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.82  E-value=3.2e-09  Score=101.62  Aligned_cols=92  Identities=16%  Similarity=0.256  Sum_probs=59.7

Q ss_pred             ccccCCCCeee--CcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc
Q 012305          352 EAIKNNGDIIL--HPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL  426 (466)
Q Consensus       352 ~~~~~l~~vVg--~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~  426 (466)
                      ....+|++++.  +......+..++   .     .....+++||||||||||++++++++.+   +.+++.++|..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~l~~~~---~-----~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~   80 (226)
T TIGR03420         9 PDDPTFDNFYAGGNAELLAALRQLA---A-----GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQA   80 (226)
T ss_pred             CCchhhcCcCcCCcHHHHHHHHHHH---h-----cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHh
Confidence            34567888883  223444444432   1     1223579999999999999999999887   456777777655321


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .       ..++....   ..++|||||+|.+...
T Consensus        81 ~-------~~~~~~~~---~~~lLvIDdi~~l~~~  105 (226)
T TIGR03420        81 D-------PEVLEGLE---QADLVCLDDVEAIAGQ  105 (226)
T ss_pred             H-------HHHHhhcc---cCCEEEEeChhhhcCC
Confidence            1       23333322   2469999999998653

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.81  E-value=2.9e-09  Score=113.64  Aligned_cols=102  Identities=23%  Similarity=0.284  Sum_probs=63.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-------------chhhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-------------YAMMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------~~~v~~  420 (466)
                      +..|+++||++.++..|...+..       +.....+|||||||||||++|+.+|..+++.             +..+.+
T Consensus        12 P~~f~diiGq~~i~~~L~~~i~~-------~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~   84 (486)
T PRK14953         12 PKFFKEVIGQEIVVRILKNAVKL-------QRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDK   84 (486)
T ss_pred             CCcHHHccChHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhc
Confidence            45789999999999988765432       2222347899999999999999999987421             111222


Q ss_pred             CCccc---------chhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          421 GDVAP---------LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       421 ~~l~~---------~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      +..++         .+.+....+...+......+.+.|+||||+|.|....
T Consensus        85 g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a  135 (486)
T PRK14953         85 GSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEA  135 (486)
T ss_pred             CCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHH
Confidence            22111         1222222333333333333456899999999987543

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.81  E-value=6.8e-09  Score=107.92  Aligned_cols=103  Identities=16%  Similarity=0.245  Sum_probs=67.3

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCccc--
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAP--  425 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~--  425 (466)
                      +....+.++|.+.-...|...+.....    +..+.+++||||||||||++++.+++.+     +..++.++|.....  
T Consensus        25 ~~~~P~~l~~Re~e~~~l~~~l~~~~~----~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~  100 (394)
T PRK00411         25 PDYVPENLPHREEQIEELAFALRPALR----GSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRY  100 (394)
T ss_pred             CCCcCCCCCCHHHHHHHHHHHHHHHhC----CCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHH
Confidence            334456688887777777665543222    1223479999999999999999999877     46688888865321  


Q ss_pred             -----------------chhHHHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          426 -----------------LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       426 -----------------~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                                       .+......+..+++.....+++.||+|||+|.+.
T Consensus       101 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~  151 (394)
T PRK00411        101 AIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLF  151 (394)
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhh
Confidence                             0111112233444444444557899999999987

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.79  E-value=4.1e-09  Score=114.28  Aligned_cols=102  Identities=20%  Similarity=0.238  Sum_probs=65.1

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhh-c
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMM-T  419 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v-~  419 (466)
                      +..|++|||++.++..|...+..       +..+..+|||||||||||++|++|++.++..-             ..+ +
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~-------~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~   84 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIES-------NKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDN   84 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHc
Confidence            55789999999999988776532       22334599999999999999999999885320             001 1


Q ss_pred             CC--Ccccchh---HHHHHHHHHHhhhh---hccCceEEEecccccccccc
Q 012305          420 GG--DVAPLGA---QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       420 ~~--~l~~~~~---e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r  462 (466)
                      +.  ++..+.+   .....++.+.+.+.   ...++.|+||||+|.|....
T Consensus        85 ~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a  135 (563)
T PRK06647         85 DNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSA  135 (563)
T ss_pred             CCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHH
Confidence            11  1111111   12334455543332   23457899999999997543

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.79  E-value=4.6e-09  Score=107.27  Aligned_cols=73  Identities=26%  Similarity=0.476  Sum_probs=59.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc---cchhHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA---PLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~---~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                      ||||.||+|+|||+||+.||+.++.||++.+|..+.   +.|-+-.+.|.+|+..|.-   ....+||||||+|.+...
T Consensus       228 NvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~~  306 (564)
T KOG0745|consen  228 NVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITKK  306 (564)
T ss_pred             cEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhccc
Confidence            799999999999999999999999999999999885   3455556777888776542   112489999999998743

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.78  E-value=1.6e-09  Score=96.41  Aligned_cols=83  Identities=27%  Similarity=0.458  Sum_probs=60.9

Q ss_pred             eeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC---cchhhcCCCcccchhHHHHHHHHH
Q 012305          361 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL---DYAMMTGGDVAPLGAQAVTKIHEI  437 (466)
Q Consensus       361 Vg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~---~~~~v~~~~l~~~~~e~~~~l~~l  437 (466)
                      ||.+..++.+..-+..+.....+      |||+|+|||||+++|+.|+...+.   +|+.++|..+.          ..+
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~p------vli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~----------~~~   64 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSP------VLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP----------AEL   64 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-------EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC----------HHH
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCc------EEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc----------HHH
Confidence            57888888888887777766555      999999999999999999998853   56666666543          334


Q ss_pred             HhhhhhccCceEEEeccccccccccC
Q 012305          438 FDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       438 f~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      ++.+    .+++|||++||.|....+
T Consensus        65 l~~a----~~gtL~l~~i~~L~~~~Q   86 (138)
T PF14532_consen   65 LEQA----KGGTLYLKNIDRLSPEAQ   86 (138)
T ss_dssp             HHHC----TTSEEEEECGCCS-HHHH
T ss_pred             HHHc----CCCEEEECChHHCCHHHH
Confidence            4544    388999999999976543

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.78  E-value=5.1e-09  Score=114.19  Aligned_cols=102  Identities=22%  Similarity=0.239  Sum_probs=68.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhc-------C------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT-------G------  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~-------~------  420 (466)
                      +.+|++|||++.+++.|...+..       +..+..+|||||+|||||++|+.||+.+.+.....+       |      
T Consensus        20 P~~f~dliGq~~~v~~L~~~~~~-------gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C   92 (598)
T PRK09111         20 PQTFDDLIGQEAMVRTLTNAFET-------GRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHC   92 (598)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHH
Confidence            45799999999999998875432       233457999999999999999999998854321111       1      


Q ss_pred             --------CCcccch---hHHHHHHHHHHhhhhh---ccCceEEEecccccccccc
Q 012305          421 --------GDVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       421 --------~~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r  462 (466)
                              .|+..+.   .-.+..++.+++.+..   ..++.||||||+|.|...-
T Consensus        93 ~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a  148 (598)
T PRK09111         93 QAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAA  148 (598)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHH
Confidence                    1111111   1124456666666543   3357899999999997543

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.77  E-value=3.3e-09  Score=102.13  Aligned_cols=90  Identities=16%  Similarity=0.276  Sum_probs=57.8

Q ss_pred             cccccCCCCeeeCc--chHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc
Q 012305          351 VEAIKNNGDIILHP--SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP  425 (466)
Q Consensus       351 ~~~~~~l~~vVg~~--~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~  425 (466)
                      ...+.+|+++++..  .+...+..+.   .    ...+..+++|+||||||||++++++++.+   +.+++.+++.++..
T Consensus        11 ~~~~~~~d~f~~~~~~~~~~~l~~~~---~----~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~   83 (227)
T PRK08903         11 PPPPPTFDNFVAGENAELVARLRELA---A----GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLL   83 (227)
T ss_pred             CCChhhhcccccCCcHHHHHHHHHHH---h----ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHH
Confidence            34567889988433  2333333322   1    12233579999999999999999999876   56777777755321


Q ss_pred             chhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                                 .+..   ...+++|||||+|.+.+.
T Consensus        84 -----------~~~~---~~~~~~liiDdi~~l~~~  105 (227)
T PRK08903         84 -----------AFDF---DPEAELYAVDDVERLDDA  105 (227)
T ss_pred             -----------HHhh---cccCCEEEEeChhhcCch
Confidence                       1111   122679999999987543

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.77  E-value=5.6e-09  Score=111.98  Aligned_cols=104  Identities=21%  Similarity=0.262  Sum_probs=65.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc--------hhhcC-----
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY--------AMMTG-----  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~--------~~v~~-----  420 (466)
                      +.+|+++||++.+++.|...+..       +..+..+|||||||||||++|+.+++.+...-        ..-+|     
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~-------grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~   82 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDN-------NRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALE   82 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhh
Confidence            45789999999999888876532       22334579999999999999999999873210        00000     


Q ss_pred             ---CCcccchhH---HHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          421 ---GDVAPLGAQ---AVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       421 ---~~l~~~~~e---~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                         .++......   +...++.+.+...   ..+++.|+||||+|.|...-++
T Consensus        83 ~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~N  135 (535)
T PRK08451         83 NRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFN  135 (535)
T ss_pred             cCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHH
Confidence               011111111   1344555554422   2244689999999999765443

>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=98.76  E-value=1.5e-08  Score=88.27  Aligned_cols=71  Identities=35%  Similarity=0.480  Sum_probs=48.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHHHHHH---HHHHhhhhhccCceEEEecccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQAVTKI---HEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~~~~l---~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                      ++++|+||||||||++++.++..+   +.+++.+++..............   ...+........+++|||||++.+
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lilDe~~~~   96 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSL   96 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHhhccCCCeEEEEeChhhh
Confidence            479999999999999999999998   78888888776543211111000   111122222334789999999976

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.

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.76  E-value=6e-09  Score=114.25  Aligned_cols=101  Identities=22%  Similarity=0.283  Sum_probs=68.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchh----hcCC--------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM----MTGG--------  421 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~----v~~~--------  421 (466)
                      +..|+++||++.++..|...+..       +....++|||||||||||++|+.+|+.+++....    ..|+        
T Consensus        12 P~~f~~liGq~~i~~~L~~~l~~-------~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i   84 (620)
T PRK14948         12 PQRFDELVGQEAIATTLKNALIS-------NRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAI   84 (620)
T ss_pred             CCcHhhccChHHHHHHHHHHHHc-------CCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHH
Confidence            45789999999999998876543       1122479999999999999999999998542110    1111        


Q ss_pred             ------Ccccc---hhHHHHHHHHHHhhhhhc---cCceEEEeccccccccc
Q 012305          422 ------DVAPL---GAQAVTKIHEIFDWAKKS---KKGLLLFIDEADAFLCD  461 (466)
Q Consensus       422 ------~l~~~---~~e~~~~l~~lf~~A~~~---~~~~iLflDEid~l~~~  461 (466)
                            ++..+   ....+..++.+++.+...   .++.||||||+|.|...
T Consensus        85 ~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~  136 (620)
T PRK14948         85 AAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTA  136 (620)
T ss_pred             hcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHH
Confidence                  11111   112345677777666532   44689999999998654

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.76  E-value=4.9e-09  Score=114.68  Aligned_cols=52  Identities=21%  Similarity=0.339  Sum_probs=41.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +.+|++|||++.+++.|...+..       +.....+|||||||||||++|+.|++.++
T Consensus        12 P~~~~eiiGq~~~~~~L~~~i~~-------~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~   63 (585)
T PRK14950         12 SQTFAELVGQEHVVQTLRNAIAE-------GRVAHAYLFTGPRGVGKTSTARILAKAVN   63 (585)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHh-------CCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            45789999999999988765432       11223579999999999999999999874

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.76  E-value=6.8e-09  Score=110.20  Aligned_cols=106  Identities=15%  Similarity=0.181  Sum_probs=66.9

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA  424 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~  424 (466)
                      ...+.++|+++|..+.....+..+.....++   +.++.+++||||||||||+|++++++.+     +..++.+++.++.
T Consensus       114 ~l~~~~tfd~fv~g~~n~~a~~~~~~~~~~~---~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~  190 (450)
T PRK00149        114 PLNPKYTFDNFVVGKSNRLAHAAALAVAENP---GKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFT  190 (450)
T ss_pred             CCCCCCcccccccCCCcHHHHHHHHHHHhCc---CccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH
Confidence            4567789999775556555555444443332   2344569999999999999999999987     4556677766543


Q ss_pred             cchhHHH--HHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 PLGAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 ~~~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .......  .....+.+..   ...++||||||+.+.++
T Consensus       191 ~~~~~~~~~~~~~~~~~~~---~~~dlLiiDDi~~l~~~  226 (450)
T PRK00149        191 NDFVNALRNNTMEEFKEKY---RSVDVLLIDDIQFLAGK  226 (450)
T ss_pred             HHHHHHHHcCcHHHHHHHH---hcCCEEEEehhhhhcCC
Confidence            2111111  1112222222   23679999999998654

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

Probab=98.76  E-value=1e-07  Score=107.16  Aligned_cols=100  Identities=24%  Similarity=0.286  Sum_probs=68.2

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------chh
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LGA  428 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~~  428 (466)
                      +.+|...+++++...+.........  ....++|+||||||||++++.++..++.+|+.++++.+..          +.+
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~~~~--~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~~~~~g  400 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRVNKI--KGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIG  400 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhcccC--CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccchhccCC
Confidence            4789999999987655543322211  1235999999999999999999999999998888766432          111


Q ss_pred             HHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ...+.+...+..+..  .+.||||||||.+..+.
T Consensus       401 ~~~G~~~~~l~~~~~--~~~villDEidk~~~~~  432 (784)
T PRK10787        401 SMPGKLIQKMAKVGV--KNPLFLLDEIDKMSSDM  432 (784)
T ss_pred             CCCcHHHHHHHhcCC--CCCEEEEEChhhccccc
Confidence            122333344444332  24589999999998764

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.76  E-value=5.1e-09  Score=115.28  Aligned_cols=102  Identities=25%  Similarity=0.315  Sum_probs=66.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchh---hcC----------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM---MTG----------  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~---v~~----------  420 (466)
                      +..|++|||++.+++.|...+..       +..+..+|||||||||||++|+.+|+.+.+.-..   -.|          
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~-------~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~   86 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKS-------NKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNS   86 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCC
Confidence            45789999999999888776432       2233458999999999999999999987432100   001          


Q ss_pred             CCcccchh---HHHHHHHHHHhhhhh---ccCceEEEecccccccccc
Q 012305          421 GDVAPLGA---QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       421 ~~l~~~~~---e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r  462 (466)
                      .++....+   .++..++.+.+.+..   .+++.|+||||+|.|....
T Consensus        87 ~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A  134 (725)
T PRK07133         87 LDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSA  134 (725)
T ss_pred             CcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHH
Confidence            01111111   124445666665553   3456899999999987543

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=98.76  E-value=2.8e-09  Score=115.27  Aligned_cols=62  Identities=23%  Similarity=0.396  Sum_probs=47.3

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCC
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGD  422 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~  422 (466)
                      .+.+|+++||++..++.+...+   ...     .+.++|||||||||||++|++++..+          +.+|+.++|..
T Consensus        60 rp~~f~~iiGqs~~i~~l~~al---~~~-----~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~  131 (531)
T TIGR02902        60 RPKSFDEIIGQEEGIKALKAAL---CGP-----NPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATT  131 (531)
T ss_pred             CcCCHHHeeCcHHHHHHHHHHH---hCC-----CCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEcccc
Confidence            4567899999999998887542   111     12479999999999999999998753          35788888864

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.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.75  E-value=7.4e-09  Score=105.98  Aligned_cols=101  Identities=28%  Similarity=0.343  Sum_probs=64.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch-------------hh-c
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA-------------MM-T  419 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~-------------~v-~  419 (466)
                      +..|+++||++..++.+...+..       +..+..+|||||||+|||++|+.+++.+..+-.             .+ .
T Consensus        10 p~~~~~iig~~~~~~~l~~~~~~-------~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~   82 (355)
T TIGR02397        10 PQTFEDVIGQEHIVQTLKNAIKN-------GRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINS   82 (355)
T ss_pred             CCcHhhccCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence            45789999999999988765432       223346899999999999999999988742200             00 0


Q ss_pred             C--CCcccc---hhHHHHHHHHHHhhhhhc---cCceEEEeccccccccc
Q 012305          420 G--GDVAPL---GAQAVTKIHEIFDWAKKS---KKGLLLFIDEADAFLCD  461 (466)
Q Consensus       420 ~--~~l~~~---~~e~~~~l~~lf~~A~~~---~~~~iLflDEid~l~~~  461 (466)
                      +  .++..+   .......++.+++.+...   +.+.||||||+|.|...
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~  132 (355)
T TIGR02397        83 GSSLDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKS  132 (355)
T ss_pred             CCCCCEEEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHH
Confidence            1  111111   111233456666655432   33579999999988643

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.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.74  E-value=9.6e-09  Score=108.64  Aligned_cols=110  Identities=16%  Similarity=0.236  Sum_probs=66.3

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhcccc-ccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTK-IHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP  425 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~-~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~  425 (466)
                      ..++..+|+++|..+........+.....+.. .++.++.+++||||||||||+|++++++.+   +..++.+++.++..
T Consensus       103 ~l~~~~tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~  182 (445)
T PRK12422        103 ELDPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTE  182 (445)
T ss_pred             CCCccccccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHH
Confidence            35677899999855555544333333322221 223355679999999999999999999877   56666666654432


Q ss_pred             chhHHHH-HHHHHHhhhhhccCceEEEeccccccccc
Q 012305          426 LGAQAVT-KIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       426 ~~~e~~~-~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      ....... .....|...  ....++||||||+.+.++
T Consensus       183 ~~~~~l~~~~~~~f~~~--~~~~dvLiIDDiq~l~~k  217 (445)
T PRK12422        183 HLVSAIRSGEMQRFRQF--YRNVDALFIEDIEVFSGK  217 (445)
T ss_pred             HHHHHHhcchHHHHHHH--cccCCEEEEcchhhhcCC
Confidence            1111110 001122221  233689999999998653

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.74  E-value=7.9e-09  Score=112.93  Aligned_cols=53  Identities=25%  Similarity=0.288  Sum_probs=42.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      +.+|++|||++.++..|...+..       +..+..+||+||||||||++|+.+|+.+.+
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            55789999999999988765321       222235999999999999999999999854

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

Probab=98.74  E-value=6.6e-09  Score=99.92  Aligned_cols=104  Identities=20%  Similarity=0.281  Sum_probs=60.3

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcccc
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAPL  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~~  426 (466)
                      ++.++|+++|-.+.....+..+.....++..   .+..++||||+|+|||+|.+++++..     +..++.+++.++...
T Consensus         2 n~~~tFdnfv~g~~N~~a~~~~~~ia~~~~~---~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~   78 (219)
T PF00308_consen    2 NPKYTFDNFVVGESNELAYAAAKAIAENPGE---RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIRE   78 (219)
T ss_dssp             -TT-SCCCS--TTTTHHHHHHHHHHHHSTTT---SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHH
T ss_pred             CCCCccccCCcCCcHHHHHHHHHHHHhcCCC---CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHH
Confidence            4567899997656555555443333333222   23348999999999999999998875     445566655544321


Q ss_pred             hhHHH--HHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          427 GAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       427 ~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      ..+..  ..+..+.+..   ...++|+||+++.+..+
T Consensus        79 ~~~~~~~~~~~~~~~~~---~~~DlL~iDDi~~l~~~  112 (219)
T PF00308_consen   79 FADALRDGEIEEFKDRL---RSADLLIIDDIQFLAGK  112 (219)
T ss_dssp             HHHHHHTTSHHHHHHHH---CTSSEEEEETGGGGTTH
T ss_pred             HHHHHHcccchhhhhhh---hcCCEEEEecchhhcCc
Confidence            11111  1122232322   23689999999998754

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.72  E-value=1.2e-08  Score=106.94  Aligned_cols=106  Identities=16%  Similarity=0.205  Sum_probs=65.0

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA  424 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~  424 (466)
                      ..++..+|+++|..+.....+..+.....++   +..+.+++||||||||||+|++++++.+     +..++.+++.++.
T Consensus       102 ~l~~~~tfd~fi~g~~n~~a~~~~~~~~~~~---~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~  178 (405)
T TIGR00362       102 PLNPKYTFDNFVVGKSNRLAHAAALAVAENP---GKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFT  178 (405)
T ss_pred             CCCCCCcccccccCCcHHHHHHHHHHHHhCc---CccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHH
Confidence            3566788999664455444444443333332   2334569999999999999999999887     4567777766543


Q ss_pred             cchhHHH--HHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 PLGAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 ~~~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .......  ..+..+.+..+   ..++||||||+.+.++
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~---~~dlLiiDDi~~l~~~  214 (405)
T TIGR00362       179 NDFVNALRNNKMEEFKEKYR---SVDLLLIDDIQFLAGK  214 (405)
T ss_pred             HHHHHHHHcCCHHHHHHHHH---hCCEEEEehhhhhcCC
Confidence            2111100  11222222222   2579999999988654

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).

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

Probab=98.72  E-value=1.6e-08  Score=112.98  Aligned_cols=99  Identities=18%  Similarity=0.241  Sum_probs=69.4

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcC-------CCcc
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG-------GDVA  424 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~-------~~l~  424 (466)
                      ..++.+||.+.....+..++...  .      ..|+||+||||||||++++.++...   +.|+...++       +.+.
T Consensus       183 g~~~~liGR~~ei~~~i~iL~r~--~------~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~ll  254 (758)
T PRK11034        183 GGIDPLIGREKELERAIQVLCRR--R------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL  254 (758)
T ss_pred             CCCCcCcCCCHHHHHHHHHHhcc--C------CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHh
Confidence            35678999998888887754441  1      1368999999999999999999875   333332222       2211


Q ss_pred             ---cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          425 ---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       425 ---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                         .+.++....++.+|+.+.... ++||||||||.|.+.+
T Consensus       255 aG~~~~Ge~e~rl~~l~~~l~~~~-~~ILfIDEIh~L~g~g  294 (758)
T PRK11034        255 AGTKYRGDFEKRFKALLKQLEQDT-NSILFIDEIHTIIGAG  294 (758)
T ss_pred             cccchhhhHHHHHHHHHHHHHhcC-CCEEEeccHHHHhccC
Confidence               123455667888888887654 6899999999997654

>PRK12377 putative replication protein; Provisional

Probab=98.71  E-value=1e-08  Score=100.28  Aligned_cols=100  Identities=20%  Similarity=0.166  Sum_probs=57.3

Q ss_pred             ccCCCCeeeCcchH-HHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305          354 IKNNGDIILHPSLQ-RRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ  429 (466)
Q Consensus       354 ~~~l~~vVg~~~~~-~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e  429 (466)
                      ..+|++++....-. ..+..+.....+...   ...+++|+||||||||+|+.+|++.+   |.+++.++..++......
T Consensus        70 ~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~---~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~  146 (248)
T PRK12377         70 KCSFANYQVQNDGQRYALSQAKSIADELMT---GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHE  146 (248)
T ss_pred             cCCcCCcccCChhHHHHHHHHHHHHHHHHh---cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHH
Confidence            44677776433222 223322223222221   12479999999999999999999988   566666655554331111


Q ss_pred             HH---HHHHHHHhhhhhccCceEEEeccccccc
Q 012305          430 AV---TKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       430 ~~---~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      +.   .....++...   ...++|+|||++...
T Consensus       147 ~~~~~~~~~~~l~~l---~~~dLLiIDDlg~~~  176 (248)
T PRK12377        147 SYDNGQSGEKFLQEL---CKVDLLVLDEIGIQR  176 (248)
T ss_pred             HHhccchHHHHHHHh---cCCCEEEEcCCCCCC
Confidence            11   0112333333   336899999997653

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.71  E-value=1.5e-08  Score=111.92  Aligned_cols=110  Identities=16%  Similarity=0.229  Sum_probs=71.1

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCC
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGG  421 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~  421 (466)
                      ...+..+.+++.++-...|..++...-.   ...|...++|||+||||||++++.+...+          +..|+.|+|.
T Consensus       749 ~~DYVPD~LPhREeEIeeLasfL~paIk---gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm  825 (1164)
T PTZ00112        749 QLDVVPKYLPCREKEIKEVHGFLESGIK---QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM  825 (1164)
T ss_pred             CcccCCCcCCChHHHHHHHHHHHHHHHh---cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC
Confidence            3444556787777777777665554322   12232335699999999999999998776          2456788985


Q ss_pred             Cccc------------------chhHHHHHHHHHHhhhhh-ccCceEEEeccccccccccCC
Q 012305          422 DVAP------------------LGAQAVTKIHEIFDWAKK-SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       422 ~l~~------------------~~~e~~~~l~~lf~~A~~-~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+..                  .+..+...+..+|..... .....||||||||.|..+.++
T Consensus       826 ~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QD  887 (1164)
T PTZ00112        826 NVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQK  887 (1164)
T ss_pred             ccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHH
Confidence            5321                  122233456677765532 333579999999999865443

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.71  E-value=1.4e-08  Score=107.50  Aligned_cols=106  Identities=18%  Similarity=0.253  Sum_probs=66.2

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA  424 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~  424 (466)
                      ..++..+|+++|..+.....+..+.....++   +. +.+++||||||||||+|++++++.+     +..++.+++.++.
T Consensus        97 ~l~~~~tFdnFv~g~~n~~a~~~~~~~~~~~---~~-~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~  172 (440)
T PRK14088         97 PLNPDYTFENFVVGPGNSFAYHAALEVAKNP---GR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFL  172 (440)
T ss_pred             CCCCCCcccccccCCchHHHHHHHHHHHhCc---CC-CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH
Confidence            4567889999986566655555444443322   11 4469999999999999999999986     3466777766543


Q ss_pred             cchhHHH--HHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 PLGAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 ~~~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .....+.  ..+..+....+  ...++|||||++.+.++
T Consensus       173 ~~~~~~~~~~~~~~f~~~~~--~~~dvLlIDDi~~l~~~  209 (440)
T PRK14088        173 NDLVDSMKEGKLNEFREKYR--KKVDVLLIDDVQFLIGK  209 (440)
T ss_pred             HHHHHHHhcccHHHHHHHHH--hcCCEEEEechhhhcCc
Confidence            2111111  11122222111  12679999999988654

>PRK15115 response regulator GlrR; Provisional

Probab=98.70  E-value=5.1e-09  Score=110.62  Aligned_cols=182  Identities=18%  Similarity=0.269  Sum_probs=104.4

Q ss_pred             cchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhCC
Q 012305          234 LTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQ  313 (466)
Q Consensus       234 ~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~  313 (466)
                      ...|+...++.++. .....++..+...             .++.+++++++.......+..++.|   +.+|+.+++..
T Consensus        48 ~~~dlvilD~~lp~-~~g~~ll~~l~~~-------------~~~~pvIvlt~~~~~~~~~~a~~~G---a~~~l~KP~~~  110 (444)
T PRK15115         48 EKVDLVISDLRMDE-MDGMQLFAEIQKV-------------QPGMPVIILTAHGSIPDAVAATQQG---VFSFLTKPVDR  110 (444)
T ss_pred             CCCCEEEEcCCCCC-CCHHHHHHHHHhc-------------CCCCcEEEEECCCCHHHHHHHHhcC---hhhhccCCCCH
Confidence            44566665554432 2344444444332             3456777777777666666667776   56677666554


Q ss_pred             CccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhcccccccccccccccc
Q 012305          314 PSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFY  393 (466)
Q Consensus       314 p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~  393 (466)
                      ..+..           .+.......    .   .   .........++|.+.....+...+..+.....      +++|+
T Consensus       111 ~~L~~-----------~l~~~~~~~----~---~---~~~~~~~~~lig~s~~~~~~~~~~~~~a~~~~------~vli~  163 (444)
T PRK15115        111 DALYK-----------AIDDALEQS----A---P---ATDERWREAIVTRSPLMLRLLEQARMVAQSDV------SVLIN  163 (444)
T ss_pred             HHHHH-----------HHHHHHHhh----h---c---ccccchhhcccccCHHHHHHHHHHHhhccCCC------eEEEE
Confidence            33311           111111110    0   0   00011123477777666665554444433322      49999


Q ss_pred             CCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHH-----------HHHHhhhhhccCceEEEeccccc
Q 012305          394 GPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKI-----------HEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       394 GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l-----------~~lf~~A~~~~~~~iLflDEid~  457 (466)
                      |++|||||++|+.++..+   +.+|+.++|..+.....+.  .+..           .+++..+    .+++|||||||.
T Consensus       164 Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a----~~gtl~l~~i~~  239 (444)
T PRK15115        164 GQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHARGAFTGAVSNREGLFQAA----EGGTLFLDEIGD  239 (444)
T ss_pred             cCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHHHHHhcCCCcCCCCCCccCCCCcEEEC----CCCEEEEEcccc
Confidence            999999999999999887   4789999999875421111  1111           1123322    268999999999


Q ss_pred             cccccC
Q 012305          458 FLCDNQ  463 (466)
Q Consensus       458 l~~~r~  463 (466)
                      |....+
T Consensus       240 l~~~~q  245 (444)
T PRK15115        240 MPAPLQ  245 (444)
T ss_pred             CCHHHH
Confidence            876644

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=98.69  E-value=1.3e-08  Score=100.49  Aligned_cols=34  Identities=35%  Similarity=0.569  Sum_probs=31.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD  422 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~  422 (466)
                      ++||+||||||||++|+.||..+|.+|+.++|..
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~   56 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDA   56 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCc
Confidence            4999999999999999999999999999998864

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).

>PRK06620 hypothetical protein; Validated

Probab=98.69  E-value=2.4e-08  Score=95.71  Aligned_cols=88  Identities=16%  Similarity=0.198  Sum_probs=56.3

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhcccccccccc-ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhH
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF-RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQ  429 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~-~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e  429 (466)
                      ..+..+|+++|..+.....+..+......+  ...|+ ++++||||||||||++++++++..+..|+.  ....      
T Consensus         9 ~~~~~tfd~Fvvg~~N~~a~~~~~~~~~~~--~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~--~~~~------   78 (214)
T PRK06620          9 TSSKYHPDEFIVSSSNDQAYNIIKNWQCGF--GVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYIIK--DIFF------   78 (214)
T ss_pred             CCCCCCchhhEecccHHHHHHHHHHHHHcc--ccCCCcceEEEECCCCCCHHHHHHHHHhccCCEEcc--hhhh------
Confidence            456678999887776666555554443221  12342 679999999999999999999987653322  1100      


Q ss_pred             HHHHHHHHHhhhhhccCceEEEecccccc
Q 012305          430 AVTKIHEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       430 ~~~~l~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                          ....+      ...++|+||||+.+
T Consensus        79 ----~~~~~------~~~d~lliDdi~~~   97 (214)
T PRK06620         79 ----NEEIL------EKYNAFIIEDIENW   97 (214)
T ss_pred             ----chhHH------hcCCEEEEeccccc
Confidence                00111      12579999999954

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.69  E-value=1.7e-08  Score=98.07  Aligned_cols=95  Identities=11%  Similarity=0.093  Sum_probs=55.1

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC---CcchhhcCCCcccch
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---LDYAMMTGGDVAPLG  427 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---~~~~~v~~~~l~~~~  427 (466)
                      ..+..+|++++-. .....+..+.......     ...+++||||||||||++++++++.+.   ..+..++......  
T Consensus        15 ~~~~~~fd~f~~~-~n~~a~~~l~~~~~~~-----~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~--   86 (235)
T PRK08084         15 LPDDETFASFYPG-DNDSLLAALQNALRQE-----HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW--   86 (235)
T ss_pred             CCCcCCccccccC-ccHHHHHHHHHHHhCC-----CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh--
Confidence            4556688888733 3333343333322211     123799999999999999999998763   3333333322111  


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                           ....+++...   ...+||||||+.+.++
T Consensus        87 -----~~~~~~~~~~---~~dlliiDdi~~~~~~  112 (235)
T PRK08084         87 -----FVPEVLEGME---QLSLVCIDNIECIAGD  112 (235)
T ss_pred             -----hhHHHHHHhh---hCCEEEEeChhhhcCC
Confidence                 1122222222   1468999999998654

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=98.68  E-value=1.6e-08  Score=101.75  Aligned_cols=101  Identities=25%  Similarity=0.395  Sum_probs=63.2

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC------------------------Cc
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG------------------------LD  414 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~------------------------~~  414 (466)
                      +++++......+........     ..| ..+||+||||||||++|.+||+.+.                        .+
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~-----~~~-halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d   75 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG-----RLP-HALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPD   75 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC-----CCC-ceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCc
Confidence            45666666666654433211     122 1399999999999999999999985                        35


Q ss_pred             chhhcCCCcccc--hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305          415 YAMMTGGDVAPL--GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       415 ~~~v~~~~l~~~--~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                      |+.++.++....  ..+.+..+...+..-...++.-|+||||+|.|..+.+|+
T Consensus        76 ~lel~~s~~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~na  128 (325)
T COG0470          76 FLELNPSDLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANA  128 (325)
T ss_pred             eEEecccccCCCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHH
Confidence            566665554332  233333333333322222457899999999998766543

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.68  E-value=1.1e-08  Score=103.04  Aligned_cols=94  Identities=28%  Similarity=0.511  Sum_probs=59.3

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC-----cchhhcCCCcccchhH
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL-----DYAMMTGGDVAPLGAQ  429 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~-----~~~~v~~~~l~~~~~e  429 (466)
                      ..|++++|++++...+...+..      +..|  ++|||||||||||++++.+++.+..     .++.+++++..  +..
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~------~~~~--~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~--~~~   83 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKE------KNMP--HLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDER--GID   83 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhC------CCCC--eEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecccccc--chH
Confidence            4688999999988888766432      1122  6999999999999999999998732     23444433321  111


Q ss_pred             HHHHHHHHHhhhhhc----cCceEEEecccccccc
Q 012305          430 AVTKIHEIFDWAKKS----KKGLLLFIDEADAFLC  460 (466)
Q Consensus       430 ~~~~l~~lf~~A~~~----~~~~iLflDEid~l~~  460 (466)
                      ...  ..+...+...    ..+.+|||||+|.+..
T Consensus        84 ~~~--~~i~~~~~~~~~~~~~~~vviiDe~~~l~~  116 (319)
T PRK00440         84 VIR--NKIKEFARTAPVGGAPFKIIFLDEADNLTS  116 (319)
T ss_pred             HHH--HHHHHHHhcCCCCCCCceEEEEeCcccCCH
Confidence            110  1122222211    2256999999999864

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

Probab=98.67  E-value=2.9e-08  Score=102.39  Aligned_cols=103  Identities=18%  Similarity=0.325  Sum_probs=69.2

Q ss_pred             CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC-----cchhhcCCCcc-------
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL-----DYAMMTGGDVA-------  424 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~-----~~~~v~~~~l~-------  424 (466)
                      .+.+.+.++....+..   .+.+.-.+..| .|+++|||||||||.+++.+..++..     .++.|||-...       
T Consensus        16 P~~l~~Re~ei~~l~~---~l~~~~~~~~p-~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~   91 (366)
T COG1474          16 PEELPHREEEINQLAS---FLAPALRGERP-SNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLS   91 (366)
T ss_pred             cccccccHHHHHHHHH---HHHHHhcCCCC-ccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHH
Confidence            3445455554444444   44444443334 46999999999999999999999833     37888886642       


Q ss_pred             ----------cchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          425 ----------PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       425 ----------~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                                ..|......+..+++.........||+|||+|.|..+.+
T Consensus        92 ~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~  140 (366)
T COG1474          92 KILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDG  140 (366)
T ss_pred             HHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccc
Confidence                      223333444556666666666689999999999987654

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

Probab=98.67  E-value=1.8e-08  Score=97.30  Aligned_cols=92  Identities=20%  Similarity=0.338  Sum_probs=69.3

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ  429 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e  429 (466)
                      +...+++++|.+..++.|..-...+..    +.|..|+||||++|||||++++++...+   |+.++.|...++.     
T Consensus        22 ~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~----G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~-----   92 (249)
T PF05673_consen   22 DPIRLDDLIGIERQKEALIENTEQFLQ----GLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLG-----   92 (249)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHHc----CCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhc-----
Confidence            345678999999998888765444333    4566799999999999999999999877   6666777665553     


Q ss_pred             HHHHHHHHHhhhhhccCceEEEecccc
Q 012305          430 AVTKIHEIFDWAKKSKKGLLLFIDEAD  456 (466)
Q Consensus       430 ~~~~l~~lf~~A~~~~~~~iLflDEid  456 (466)
                         .+..+++..+..+..-|||||+..
T Consensus        93 ---~l~~l~~~l~~~~~kFIlf~DDLs  116 (249)
T PF05673_consen   93 ---DLPELLDLLRDRPYKFILFCDDLS  116 (249)
T ss_pred             ---cHHHHHHHHhcCCCCEEEEecCCC
Confidence               445677776666667999999854

>PHA02244 ATPase-like protein

Probab=98.66  E-value=2.2e-08  Score=102.29  Aligned_cols=93  Identities=28%  Similarity=0.305  Sum_probs=56.1

Q ss_pred             eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc-cc-chh-HHHHHH--
Q 012305          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-AP-LGA-QAVTKI--  434 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l-~~-~~~-e~~~~l--  434 (466)
                      .||.......+...+..+.....      +|||+||||||||++|++||..++.+|+.+++..- .. .|. ......  
T Consensus        98 ~ig~sp~~~~~~~ri~r~l~~~~------PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~d  171 (383)
T PHA02244         98 KIASNPTFHYETADIAKIVNANI------PVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHE  171 (383)
T ss_pred             ccCCCHHHHHHHHHHHHHHhcCC------CEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccc
Confidence            45666665544443333322222      49999999999999999999999999998874210 00 000 000011  


Q ss_pred             HHHHhhhhhccCceEEEeccccccccc
Q 012305          435 HEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       435 ~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      ..++..   ...|++||||||+.+.++
T Consensus       172 gpLl~A---~~~GgvLiLDEId~a~p~  195 (383)
T PHA02244        172 TPFYEA---FKKGGLFFIDEIDASIPE  195 (383)
T ss_pred             hHHHHH---hhcCCEEEEeCcCcCCHH
Confidence            112222   234899999999977554

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.65  E-value=1.3e-08  Score=111.68  Aligned_cols=62  Identities=21%  Similarity=0.378  Sum_probs=47.1

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l  423 (466)
                      +.+|+++||++.....+...+   ....     +.+++|+||||||||++|+.+++.+          +.+|+.++|..+
T Consensus       150 p~~~~~iiGqs~~~~~l~~~i---a~~~-----~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l  221 (615)
T TIGR02903       150 PRAFSEIVGQERAIKALLAKV---ASPF-----PQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTL  221 (615)
T ss_pred             cCcHHhceeCcHHHHHHHHHH---hcCC-----CCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhc
Confidence            457899999999888765432   2111     2369999999999999999998766          346888888765

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.64  E-value=2e-08  Score=108.73  Aligned_cols=107  Identities=11%  Similarity=0.149  Sum_probs=66.0

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA  424 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~  424 (466)
                      ..+..++|+++|..+.....+..+.....+..   ..+..++|||++|||||+|+++|++.+     ++.++++++.++.
T Consensus       280 ~L~~~~TFDnFvvG~sN~~A~aaa~avae~~~---~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~  356 (617)
T PRK14086        280 RLNPKYTFDTFVIGASNRFAHAAAVAVAEAPA---KAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFT  356 (617)
T ss_pred             CCCCCCCHhhhcCCCccHHHHHHHHHHHhCcc---ccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHH
Confidence            34667899999866665544433333333221   123349999999999999999999976     4667777776654


Q ss_pred             cchhHHH--HHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          425 PLGAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       425 ~~~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      .......  ..+..+...   ....++||||||+.+.++.
T Consensus       357 ~el~~al~~~~~~~f~~~---y~~~DLLlIDDIq~l~gke  393 (617)
T PRK14086        357 NEFINSIRDGKGDSFRRR---YREMDILLVDDIQFLEDKE  393 (617)
T ss_pred             HHHHHHHHhccHHHHHHH---hhcCCEEEEehhccccCCH
Confidence            2111111  111122222   2336899999999987643

>PRK08116 hypothetical protein; Validated

Probab=98.64  E-value=2e-08  Score=99.51  Aligned_cols=101  Identities=18%  Similarity=0.178  Sum_probs=58.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA  430 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~  430 (466)
                      ..+|++++..+.....+..+..++.+.........+++|||+||||||+|+.+|++.+   +.+++.++.+++......+
T Consensus        81 ~~tFdnf~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~  160 (268)
T PRK08116         81 NSTFENFLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKST  160 (268)
T ss_pred             hcchhcccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHH
Confidence            3467777654444434443333333322211222469999999999999999999987   6777777765543211111


Q ss_pred             H-----HHHHHHHhhhhhccCceEEEeccccc
Q 012305          431 V-----TKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       431 ~-----~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                      .     .....+++..   ...++|+|||++.
T Consensus       161 ~~~~~~~~~~~~~~~l---~~~dlLviDDlg~  189 (268)
T PRK08116        161 YKSSGKEDENEIIRSL---VNADLLILDDLGA  189 (268)
T ss_pred             HhccccccHHHHHHHh---cCCCEEEEecccC
Confidence            0     1122333333   2257999999965

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=98.64  E-value=1.7e-08  Score=101.14  Aligned_cols=101  Identities=17%  Similarity=0.226  Sum_probs=82.3

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG  427 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~  427 (466)
                      ..+..+|+.+|+.+..++.+..-+..++..+.+      +||.|.+||||.++|++-+..+   ..+|+.+||..++...
T Consensus       197 ~~~~~~F~~~v~~S~~mk~~v~qA~k~AmlDAP------LLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~lPe~~  270 (511)
T COG3283         197 AQDVSGFEQIVAVSPKMKHVVEQAQKLAMLDAP------LLITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPEDA  270 (511)
T ss_pred             cccccchHHHhhccHHHHHHHHHHHHhhccCCC------eEEecCCCchHHHHHHHHhhcCcccCCCeeEeecCCCchhH
Confidence            346678999999999998888777777777666      9999999999999999988777   6899999999987633


Q ss_pred             hHH--------HHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          428 AQA--------VTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       428 ~e~--------~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .++        .....++|++|.    ++++|||||+.|++.
T Consensus       271 aEsElFG~apg~~gk~GffE~An----gGTVlLDeIgEmSp~  308 (511)
T COG3283         271 AESELFGHAPGDEGKKGFFEQAN----GGTVLLDEIGEMSPR  308 (511)
T ss_pred             hHHHHhcCCCCCCCccchhhhcc----CCeEEeehhhhcCHH
Confidence            322        133468999886    899999999999864

>PRK08727 hypothetical protein; Validated

Probab=98.64  E-value=3.4e-08  Score=95.85  Aligned_cols=95  Identities=17%  Similarity=0.213  Sum_probs=57.6

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG  427 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~  427 (466)
                      ..+..+|+++|+.++.  .+..+..... .    ..+..++||||||||||+++++++..+   |..++.++..++    
T Consensus        12 ~~~~~~f~~f~~~~~n--~~~~~~~~~~-~----~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~----   80 (233)
T PRK08727         12 YPSDQRFDSYIAAPDG--LLAQLQALAA-G----QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAA----   80 (233)
T ss_pred             CCCcCChhhccCCcHH--HHHHHHHHHh-c----cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHh----
Confidence            4556688998876653  2222211111 1    112349999999999999999998776   444444443221    


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                         ...+...++...   ...+|+|||++.+..+.
T Consensus        81 ---~~~~~~~~~~l~---~~dlLiIDDi~~l~~~~  109 (233)
T PRK08727         81 ---AGRLRDALEALE---GRSLVALDGLESIAGQR  109 (233)
T ss_pred             ---hhhHHHHHHHHh---cCCEEEEeCcccccCCh
Confidence               223334444433   36799999999887543

>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=98.64  E-value=1.4e-08  Score=95.95  Aligned_cols=45  Identities=36%  Similarity=0.547  Sum_probs=35.7

Q ss_pred             CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      |.+|+|++.++..+.-.+.-          ..|+||+||||||||++|+.+..-+
T Consensus         2 f~dI~GQe~aKrAL~iAAaG----------~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    2 FSDIVGQEEAKRALEIAAAG----------GHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             TCCSSSTHHHHHHHHHHHHC----------C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             hhhhcCcHHHHHHHHHHHcC----------CCCeEEECCCCCCHHHHHHHHHHhC
Confidence            78999999999988754321          1379999999999999999999877

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.

>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=98.64  E-value=2.9e-09  Score=94.37  Aligned_cols=73  Identities=27%  Similarity=0.404  Sum_probs=45.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchh--HHHHHHHHHHhh-----hhhccCceEEEeccccccccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGA--QAVTKIHEIFDW-----AKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~--e~~~~l~~lf~~-----A~~~~~~~iLflDEid~l~~~  461 (466)
                      +|||+||||||||++++.+|..++.++..+++........  .........+.|     ......+++||||||+...+.
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~a~~~   80 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINRAPPE   80 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG--HH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcccCCHH
Confidence            4899999999999999999999999999988876432110  000000111111     101124799999999976543

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.

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=98.64  E-value=1.4e-08  Score=100.58  Aligned_cols=102  Identities=27%  Similarity=0.354  Sum_probs=71.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC----c--chhhcCCCcccch
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL----D--YAMMTGGDVAPLG  427 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~----~--~~~v~~~~l~~~~  427 (466)
                      +..++++|++.+....+..+      ...++.|  |+|||||||||||+...+.++.+-.    .  +..++.++  +.|
T Consensus        37 P~~l~dv~~~~ei~st~~~~------~~~~~lP--h~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd--~rg  106 (360)
T KOG0990|consen   37 PPFLGIVIKQEPIWSTENRY------SGMPGLP--HLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASD--DRG  106 (360)
T ss_pred             CchhhhHhcCCchhhHHHHh------ccCCCCC--cccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccC--ccC
Confidence            34578899999988888766      3333444  9999999999999999999998832    2  34555554  234


Q ss_pred             hHHHHHHHHHHhhhhhc------cCceEEEeccccccccccCCC
Q 012305          428 AQAVTKIHEIFDWAKKS------KKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~------~~~~iLflDEid~l~~~r~~~  465 (466)
                      .+.+..-...|...+..      ....+++|||+|+|..+-|+.
T Consensus       107 id~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnA  150 (360)
T KOG0990|consen  107 IDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNA  150 (360)
T ss_pred             CcchHHHHHHHHhhccceeccccCceeEEEecchhHhhHHHHHH
Confidence            44445555566555421      236899999999999876654

>PRK05642 DNA replication initiation factor; Validated

Probab=98.61  E-value=3.8e-08  Score=95.60  Aligned_cols=99  Identities=9%  Similarity=0.063  Sum_probs=59.6

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL  426 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~  426 (466)
                      ...+..+|+++|.... . .....+..+.. ....+++.+++||||+|||||+|++++++.+   +..++.++..++...
T Consensus        11 ~~~~~~tfdnF~~~~~-~-~a~~~~~~~~~-~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~   87 (234)
T PRK05642         11 RLRDDATFANYYPGAN-A-AALGYVERLCE-ADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDR   87 (234)
T ss_pred             CCCCcccccccCcCCh-H-HHHHHHHHHhh-ccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhh
Confidence            3456678999884332 2 22222222211 1112344679999999999999999998765   556666665544321


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                             ...+.+...   ..++|+|||++.+.++
T Consensus        88 -------~~~~~~~~~---~~d~LiiDDi~~~~~~  112 (234)
T PRK05642         88 -------GPELLDNLE---QYELVCLDDLDVIAGK  112 (234)
T ss_pred             -------hHHHHHhhh---hCCEEEEechhhhcCC
Confidence                   123333333   2569999999987654

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=98.61  E-value=3.5e-08  Score=104.97  Aligned_cols=106  Identities=23%  Similarity=0.292  Sum_probs=71.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~~  420 (466)
                      +..|+++||++.+.+.|...+..-       .-...+||+||-|||||++||.+|+.+++.-             -.++-
T Consensus        12 P~~F~evvGQe~v~~~L~nal~~~-------ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~   84 (515)
T COG2812          12 PKTFDDVVGQEHVVKTLSNALENG-------RIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINE   84 (515)
T ss_pred             cccHHHhcccHHHHHHHHHHHHhC-------cchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhc
Confidence            557999999999999998765442       2223599999999999999999999884431             01222


Q ss_pred             ---CCcccchh---HHHHHHHHHHhh---hhhccCceEEEeccccccccccCCCC
Q 012305          421 ---GDVAPLGA---QAVTKIHEIFDW---AKKSKKGLLLFIDEADAFLCDNQDFI  466 (466)
Q Consensus       421 ---~~l~~~~~---e~~~~l~~lf~~---A~~~~~~~iLflDEid~l~~~r~~~l  466 (466)
                         .|+..+..   .++..++.+.+.   +....++.|++|||++.|+..-+|.|
T Consensus        85 g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNAL  139 (515)
T COG2812          85 GSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNAL  139 (515)
T ss_pred             CCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHH
Confidence               22222211   123445555544   33455689999999999987766543

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.59  E-value=2.4e-08  Score=100.66  Aligned_cols=70  Identities=20%  Similarity=0.305  Sum_probs=46.8

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHHHHHHhhhhhccCceEEEecccccc
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKIHEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                      ..++++||||||||||+|+.+|++.+   |.++..++.+++......+  ...+...++..   ....+|+|||++.-
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l---~~~dlLiIDDiG~e  229 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAV---KEAPVLMLDDIGAE  229 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHh---cCCCEEEEecCCCc
Confidence            34689999999999999999999998   6666666655543211111  11223333333   33689999999864

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.59  E-value=5e-08  Score=103.44  Aligned_cols=105  Identities=16%  Similarity=0.272  Sum_probs=63.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~~~~  428 (466)
                      ..+|+++|..+.....+..+.....   .++.++.+++|||++|||||+|++++++.+     +..++.+++.++.....
T Consensus       111 ~~tFdnFv~g~~n~~A~~aa~~~a~---~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~  187 (450)
T PRK14087        111 ENTFENFVIGSSNEQAFIAVQTVSK---NPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAV  187 (450)
T ss_pred             ccchhcccCCCcHHHHHHHHHHHHh---CcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHH
Confidence            4789998865555444433322222   223345569999999999999999999865     46677777766543221


Q ss_pred             HHHHHH-HHHHhhhhhccCceEEEeccccccccc
Q 012305          429 QAVTKI-HEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       429 e~~~~l-~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .+.... ..+...-......++|+||||+.+.++
T Consensus       188 ~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~~k  221 (450)
T PRK14087        188 DILQKTHKEIEQFKNEICQNDVLIIDDVQFLSYK  221 (450)
T ss_pred             HHHHHhhhHHHHHHHHhccCCEEEEeccccccCC
Confidence            111110 111111122234689999999988654

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.58  E-value=5.2e-08  Score=95.13  Aligned_cols=100  Identities=18%  Similarity=0.180  Sum_probs=60.7

Q ss_pred             ccCCCCeeeCc-chHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305          354 IKNNGDIILHP-SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ  429 (466)
Q Consensus       354 ~~~l~~vVg~~-~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e  429 (466)
                      ..+|++++..+ .....+..+.....+...   ...+++|+|+||||||+|+.+|+..+   |.+++.++.+++......
T Consensus        68 ~~tFdnf~~~~~~q~~al~~a~~~~~~~~~---~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~  144 (244)
T PRK07952         68 NCSFENYRVECEGQMNALSKARQYVEEFDG---NIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKD  144 (244)
T ss_pred             CCccccccCCCchHHHHHHHHHHHHHhhcc---CCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHH
Confidence            45677775433 333344444444433221   12479999999999999999999988   667777766554321111


Q ss_pred             H----HHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          430 A----VTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       430 ~----~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      .    ......+++...   ..++|+|||++...
T Consensus       145 ~~~~~~~~~~~~l~~l~---~~dlLvIDDig~~~  175 (244)
T PRK07952        145 TFSNSETSEEQLLNDLS---NVDLLVIDEIGVQT  175 (244)
T ss_pred             HHhhccccHHHHHHHhc---cCCEEEEeCCCCCC
Confidence            1    111223444332   36899999999865

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.57  E-value=4.7e-08  Score=105.39  Aligned_cols=71  Identities=28%  Similarity=0.434  Sum_probs=49.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhh---hhhccCceEEEeccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDW---AKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~---A~~~~~~~iLflDEid~l~  459 (466)
                      +-+||+||||-||||||+.+|++.|+.++.||.+|--. +..-...+..++..   .....++.+|+|||||.-.
T Consensus       327 KilLL~GppGlGKTTLAHViAkqaGYsVvEINASDeRt-~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~  400 (877)
T KOG1969|consen  327 KILLLCGPPGLGKTTLAHVIAKQAGYSVVEINASDERT-APMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAP  400 (877)
T ss_pred             ceEEeecCCCCChhHHHHHHHHhcCceEEEeccccccc-HHHHHHHHHHHHhhccccccCCCcceEEEecccCCc
Confidence            56889999999999999999999999999999987421 11111122222211   1112457899999999743

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.56  E-value=1.9e-08  Score=106.74  Aligned_cols=189  Identities=16%  Similarity=0.200  Sum_probs=107.3

Q ss_pred             cchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhCC
Q 012305          234 LTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQ  313 (466)
Q Consensus       234 ~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~  313 (466)
                      ...|+.+.++.++. .....++..|...             ++..+++++++.......+..++.|   +.+|+.+++..
T Consensus        41 ~~~DlVllD~~~p~-~~g~~ll~~l~~~-------------~~~~~vIvlt~~~~~~~~~~a~~~G---a~~~l~KP~~~  103 (463)
T TIGR01818        41 GQPDLLITDVRMPG-EDGLDLLPQIKKR-------------HPQLPVIVMTAHSDLDTAVAAYQRG---AFEYLPKPFDL  103 (463)
T ss_pred             CCCCEEEEcCCCCC-CCHHHHHHHHHHh-------------CCCCeEEEEeCCCCHHHHHHHHHcC---cceeecCCCCH
Confidence            45677666654432 2344444444332             3456677777777766666667776   55666666554


Q ss_pred             CccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhcccccccccccccccc
Q 012305          314 PSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFY  393 (466)
Q Consensus       314 p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~  393 (466)
                      ..+...           +............   .............++|.+.....+...+..+.....      ++++.
T Consensus       104 ~~L~~~-----------i~~~l~~~~~~~~---~~~~~~~~~~~~~lig~s~~~~~v~~~i~~~a~~~~------~vli~  163 (463)
T TIGR01818       104 DEAVTL-----------VERALAHAQEQVA---LPADAGEAEDSAELIGEAPAMQEVFRAIGRLSRSDI------TVLIN  163 (463)
T ss_pred             HHHHHH-----------HHHHHHHHHHHHh---hhhhhhccccccceeecCHHHHHHHHHHHHHhCcCC------eEEEE
Confidence            333221           1111110000000   000000111234688988887777766555544433      39999


Q ss_pred             CCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--HHHHH-----------HHHHhhhhhccCceEEEeccccc
Q 012305          394 GPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--AVTKI-----------HEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       394 GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~~~~l-----------~~lf~~A~~~~~~~iLflDEid~  457 (466)
                      |++||||+++|++++..+   +.+|+.++|+.+.....+  ..+..           .+.+..+    .+++||||||+.
T Consensus       164 Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a----~~gtl~l~ei~~  239 (463)
T TIGR01818       164 GESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLIESELFGHEKGAFTGANTRRQGRFEQA----DGGTLFLDEIGD  239 (463)
T ss_pred             CCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHHHHHhcCCCCCCCCCcccCCCCcEEEC----CCCeEEEEchhh
Confidence            999999999999999886   568999999987531111  01111           1122222    278999999999


Q ss_pred             cccccC
Q 012305          458 FLCDNQ  463 (466)
Q Consensus       458 l~~~r~  463 (466)
                      |....+
T Consensus       240 l~~~~q  245 (463)
T TIGR01818       240 MPLDAQ  245 (463)
T ss_pred             CCHHHH
Confidence            876543

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

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

Probab=98.53  E-value=5.6e-08  Score=95.53  Aligned_cols=69  Identities=29%  Similarity=0.366  Sum_probs=46.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHHHH---HHHHHHhhhhhccCceEEEeccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQAVT---KIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~~~---~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      .|++||||||||||+||-+|++.+   |.++..++.+++......+..   ....+...   .....+|||||++...
T Consensus       106 ~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~---l~~~dlLIiDDlG~~~  180 (254)
T COG1484         106 ENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRE---LKKVDLLIIDDIGYEP  180 (254)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHH---hhcCCEEEEecccCcc
Confidence            589999999999999999999988   667777776665432211111   11122221   2337899999999854

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.53  E-value=6.7e-08  Score=106.03  Aligned_cols=102  Identities=19%  Similarity=0.251  Sum_probs=65.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchh--------------hc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM--------------MT  419 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~--------------v~  419 (466)
                      +.+|++|||++.+++.|...+..       +..+..+|||||+|+|||++|+.+++.+.+....              ++
T Consensus        13 P~~f~~viGq~~~~~~L~~~i~~-------~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~   85 (614)
T PRK14971         13 PSTFESVVGQEALTTTLKNAIAT-------NKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFN   85 (614)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-------CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHh
Confidence            45789999999999988766432       2223458999999999999999999987431100              00


Q ss_pred             -C--CCcccch---hHHHHHHHHHHhhhhh---ccCceEEEecccccccccc
Q 012305          420 -G--GDVAPLG---AQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       420 -~--~~l~~~~---~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r  462 (466)
                       +  .++..+.   ..+...++.+.+.+..   ...+.|+||||+|.|....
T Consensus        86 ~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a  137 (614)
T PRK14971         86 EQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAA  137 (614)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHH
Confidence             0  0111111   1123456666655543   2346799999999997543

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

Probab=98.52  E-value=1.1e-07  Score=99.34  Aligned_cols=75  Identities=28%  Similarity=0.507  Sum_probs=62.9

Q ss_pred             ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC--cccchhHHHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          384 QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD--VAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       384 ~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~--l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      ..|..+|||.||||+|||.||-.+|..++.||+.+-.++  ++.........+.+.|+.|.+++ -+||++|+|+.|+
T Consensus       535 ~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~-lsiivvDdiErLi  611 (744)
T KOG0741|consen  535 RSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSP-LSIIVVDDIERLL  611 (744)
T ss_pred             cCcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCc-ceEEEEcchhhhh
Confidence            446789999999999999999999999999999875432  33345555678999999999876 8999999999986

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=98.52  E-value=3.4e-08  Score=100.62  Aligned_cols=96  Identities=24%  Similarity=0.346  Sum_probs=62.0

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC-ccc---chhHHHHHH
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAP---LGAQAVTKI  434 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~-l~~---~~~e~~~~l  434 (466)
                      .++|.++....+...+.          --+++||-||||||||++++.+|..++.+|+.+.|.+ +.+   +|.......
T Consensus        25 ~~~g~~~~~~~~l~a~~----------~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~   94 (329)
T COG0714          25 VVVGDEEVIELALLALL----------AGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAAL   94 (329)
T ss_pred             eeeccHHHHHHHHHHHH----------cCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhh
Confidence            37776666655543211          1135999999999999999999999999999999974 322   222222222


Q ss_pred             ---HHHHhhhhhccCce---EEEeccccccccccCC
Q 012305          435 ---HEIFDWAKKSKKGL---LLFIDEADAFLCDNQD  464 (466)
Q Consensus       435 ---~~lf~~A~~~~~~~---iLflDEid~l~~~r~~  464 (466)
                         .+.|.+....-...   +||+|||+...++-++
T Consensus        95 ~~~~~~~~~~~gpl~~~~~~ill~DEInra~p~~q~  130 (329)
T COG0714          95 LLEPGEFRFVPGPLFAAVRVILLLDEINRAPPEVQN  130 (329)
T ss_pred             hccCCeEEEecCCcccccceEEEEeccccCCHHHHH
Confidence               33344433211123   9999999998765443

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.51  E-value=1.3e-07  Score=103.64  Aligned_cols=61  Identities=21%  Similarity=0.389  Sum_probs=47.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      +..+++++|++..+..|..++......   ..+.+.++|+||||||||++++.|++.++..+..
T Consensus        80 P~~ldel~~~~~ki~~l~~~l~~~~~~---~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~E  140 (637)
T TIGR00602        80 PETQHELAVHKKKIEEVETWLKAQVLE---NAPKRILLITGPSGCGKSTTIKILSKELGIQVQE  140 (637)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhcccc---cCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHH
Confidence            557899999999999887765543222   2222348999999999999999999999877655

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

>PRK08181 transposase; Validated

Probab=98.51  E-value=3.5e-08  Score=97.63  Aligned_cols=71  Identities=25%  Similarity=0.320  Sum_probs=47.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .|++|+||||||||+|+.+|+..+   |+.++.++..++......+  ...+..++...   ....+|+|||++.+..+
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l---~~~dLLIIDDlg~~~~~  182 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKL---DKFDLLILDDLAYVTKD  182 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHH---hcCCEEEEeccccccCC
Confidence            479999999999999999998766   6666666655543311111  11223344433   33689999999987654

>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=98.51  E-value=2.7e-09  Score=93.28  Aligned_cols=75  Identities=28%  Similarity=0.410  Sum_probs=41.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCC-Cccc---chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGG-DVAP---LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~-~l~~---~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      ||||.|+||+|||++++++|+.+|.+|..|.+. |+.+   .|......-.+-|.+....--..|||+|||....++-+
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif~~ill~DEiNrappktQ   79 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIFTNILLADEINRAPPKTQ   79 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT-SSEEEEETGGGS-HHHH
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhhhceeeecccccCCHHHH
Confidence            699999999999999999999999999988874 4432   11100000012232222111127999999999876644

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.

>PRK06526 transposase; Provisional

Probab=98.50  E-value=4.7e-08  Score=96.07  Aligned_cols=70  Identities=26%  Similarity=0.336  Sum_probs=45.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH--HHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ--AVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e--~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      .|++|+||||||||+++.+|+..+   |..+..++..++......  ..+.+...+..   .....+|+|||++.+..
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~---l~~~dlLIIDD~g~~~~  173 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVK---LGRYPLLIVDEVGYIPF  173 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHH---hccCCEEEEcccccCCC
Confidence            579999999999999999998876   666666655544321111  11122222222   23368999999998653

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=98.49  E-value=2e-08  Score=101.34  Aligned_cols=73  Identities=26%  Similarity=0.292  Sum_probs=51.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----chhHH-----H----HHHHHHHhhhhhccCceEEEecc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----LGAQA-----V----TKIHEIFDWAKKSKKGLLLFIDE  454 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----~~~e~-----~----~~l~~lf~~A~~~~~~~iLflDE  454 (466)
                      ++|||.||||||||++++.||..++.+++.|+|.....    .|...     .    .-..+.+.+|.  ..+++||+||
T Consensus        65 ~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~--~~g~illlDE  142 (327)
T TIGR01650        65 RRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWAL--QHNVALCFDE  142 (327)
T ss_pred             CcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHH--hCCeEEEech
Confidence            46999999999999999999999999999998865322    22111     0    01123344443  3368899999


Q ss_pred             cccccccc
Q 012305          455 ADAFLCDN  462 (466)
Q Consensus       455 id~l~~~r  462 (466)
                      +|...++-
T Consensus       143 in~a~p~~  150 (327)
T TIGR01650       143 YDAGRPDV  150 (327)
T ss_pred             hhccCHHH
Confidence            99876543

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.

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=98.46  E-value=4.1e-08  Score=103.50  Aligned_cols=187  Identities=17%  Similarity=0.121  Sum_probs=104.8

Q ss_pred             cchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhCC
Q 012305          234 LTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILGQ  313 (466)
Q Consensus       234 ~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg~  313 (466)
                      ...|+...++.++. .....++..|...             +++.++++++++......+.+.+.|   +.+|+.+++..
T Consensus        48 ~~~DlvilD~~m~~-~~G~~~~~~ir~~-------------~~~~~vi~lt~~~~~~~~~~a~~~g---a~~~l~Kp~~~  110 (441)
T PRK10365         48 QVFDLVLCDVRMAE-MDGIATLKEIKAL-------------NPAIPVLIMTAYSSVETAVEALKTG---ALDYLIKPLDF  110 (441)
T ss_pred             CCCCEEEEeCCCCC-CCHHHHHHHHHhh-------------CCCCeEEEEECCCCHHHHHHHHHhh---hHHHhcCCCCH
Confidence            45677666654432 2333444433332             4567788888877766666666666   67777665543


Q ss_pred             CccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhcccccccccccccccc
Q 012305          314 PSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFY  393 (466)
Q Consensus       314 p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~  393 (466)
                      ..+..           .+...+.........  ..   ........++|.+.....+...+..+....      .+++|+
T Consensus       111 ~~L~~-----------~l~~~l~~~~~~~~~--~~---~~~~~~~~lig~s~~~~~~~~~i~~~~~~~------~~vli~  168 (441)
T PRK10365        111 DNLQA-----------TLEKALAHTHSIDAE--TP---AVTASQFGMVGKSPAMQHLLSEIALVAPSE------ATVLIH  168 (441)
T ss_pred             HHHHH-----------HHHHHHHHHHHHHHh--hh---hhhccccceEecCHHHHHHHHHHhhccCCC------CeEEEE
Confidence            32211           111111110000000  00   001111347787777666655444444332      249999


Q ss_pred             CCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHH-----------HHHHhhhhhccCceEEEeccccc
Q 012305          394 GPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKI-----------HEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       394 GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l-----------~~lf~~A~~~~~~~iLflDEid~  457 (466)
                      |++||||++++++++..+   +.+|+.++|+.+.....+.  .+..           .+++..+    .+++||||||+.
T Consensus       169 ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a----~~gtl~ldei~~  244 (441)
T PRK10365        169 GDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTGADKRREGRFVEA----DGGTLFLDEIGD  244 (441)
T ss_pred             ecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCHHHHHHHhcCCCCCCcCCCCcCCCCceeEC----CCCEEEEecccc
Confidence            999999999999998877   4789999999875311110  0100           1122222    278999999999


Q ss_pred             cccccC
Q 012305          458 FLCDNQ  463 (466)
Q Consensus       458 l~~~r~  463 (466)
                      |....+
T Consensus       245 l~~~~q  250 (441)
T PRK10365        245 ISPMMQ  250 (441)
T ss_pred             CCHHHH
Confidence            976543

>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=98.46  E-value=1.6e-07  Score=95.43  Aligned_cols=86  Identities=23%  Similarity=0.387  Sum_probs=60.7

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcccchhH
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAPLGAQ  429 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~~~~e  429 (466)
                      .+....+++|||..+.+...-++..+...+-.+   +.+||.||||||||.+|-++++.+|  .||+.++++.+......
T Consensus        18 ~~~~~~~GlVGQ~~AReAagiiv~mIk~~K~aG---r~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS~e~k   94 (398)
T PF06068_consen   18 EARYIADGLVGQEKAREAAGIIVDMIKEGKIAG---RAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYSSEVK   94 (398)
T ss_dssp             -B-SEETTEES-HHHHHHHHHHHHHHHTT--TT----EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-BTTC-
T ss_pred             CEeeccccccChHHHHHHHHHHHHHHhcccccC---cEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeeecccC
Confidence            344455789999999999988887776655332   5699999999999999999999996  79999999998665544


Q ss_pred             HHHHHHHHHhh
Q 012305          430 AVTKIHEIFDW  440 (466)
Q Consensus       430 ~~~~l~~lf~~  440 (466)
                      .-..+.+.|+.
T Consensus        95 KTE~L~qa~Rr  105 (398)
T PF06068_consen   95 KTEALTQAFRR  105 (398)
T ss_dssp             HHHHHHHHHHC
T ss_pred             chHHHHHHHHH
Confidence            33445555553

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=98.45  E-value=4.5e-08  Score=100.05  Aligned_cols=52  Identities=13%  Similarity=0.195  Sum_probs=41.2

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ...+.|.+|||+++++..|...+   .+     ....+|||+||+|||||++++.++..+
T Consensus        11 ~~~~pf~~ivGq~~~k~al~~~~---~~-----p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         11 RPVFPFTAIVGQEEMKLALILNV---ID-----PKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             CCCCCHHHHhChHHHHHHHHHhc---cC-----CCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            45678999999999988876431   11     122579999999999999999998877

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=98.44  E-value=4.8e-08  Score=99.51  Aligned_cols=50  Identities=20%  Similarity=0.266  Sum_probs=39.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ...|.+|||++.++..+.-.+.   +..     ..|+||+||||||||+++++++.-+
T Consensus         4 ~~~f~~i~Gq~~~~~~l~~~~~---~~~-----~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          4 PFPFSAIVGQEEMKQAMVLTAI---DPG-----IGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCCHHHhCCHHHHHHHHHHHHh---ccC-----CCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            4578899999999887764211   011     2379999999999999999999988

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.42  E-value=2.1e-07  Score=94.11  Aligned_cols=101  Identities=22%  Similarity=0.223  Sum_probs=62.6

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc---c-chh-HH
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA---P-LGA-QA  430 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~---~-~~~-e~  430 (466)
                      .|++|||++.+++.+...+..       +..+..+|||||+|+|||++|+.++..+-+....-+.+|+.   + .+. -.
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~-------~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~   74 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIK-------NRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIG   74 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHc-------CCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCC
Confidence            478999999998888765421       22334579999999999999999999762211111111211   1 010 12


Q ss_pred             HHHHHHHHhhhhh---ccCceEEEeccccccccccC
Q 012305          431 VTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       431 ~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~  463 (466)
                      ...++.+.+.+..   .+...|+|||++|.|...-.
T Consensus        75 v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~~a~  110 (313)
T PRK05564         75 VDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTEQAQ  110 (313)
T ss_pred             HHHHHHHHHHHhcCcccCCceEEEEechhhcCHHHH
Confidence            3345555554332   23467999999999875443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.42  E-value=2.3e-07  Score=95.37  Aligned_cols=52  Identities=21%  Similarity=0.284  Sum_probs=41.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +..++++||+..+...+...+..       +..+..+||+||+|+|||++|+.+++.+.
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~-------grl~ha~L~~G~~G~GKttlA~~lA~~Ll   70 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYRE-------GKLHHALLFEGPEGIGKATLAFHLANHIL   70 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHc-------CCCCeeEeeECCCCCCHHHHHHHHHHHHc
Confidence            44678899999999988876432       22334599999999999999999999883

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

Probab=98.40  E-value=4.5e-07  Score=91.08  Aligned_cols=88  Identities=23%  Similarity=0.360  Sum_probs=66.1

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcccch
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAPLG  427 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~~~  427 (466)
                      ...+...-+.+|||.++.+..--++..+...+..   -+++||.||||||||.+|-.|++.+|  .||+.++++.+-...
T Consensus        31 ng~~k~~~dG~VGQ~~AReAaGvIv~mik~gk~a---GrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEiYS~E  107 (450)
T COG1224          31 NGKAKFIGDGLVGQEEAREAAGVIVKMIKQGKMA---GRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLE  107 (450)
T ss_pred             CCCEeEcCCcccchHHHHHhhhHHHHHHHhCccc---ccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeeccceeeeec
Confidence            3344555578999999999887777766655433   35799999999999999999999995  789999999986654


Q ss_pred             hHHHHHHHHHHhh
Q 012305          428 AQAVTKIHEIFDW  440 (466)
Q Consensus       428 ~e~~~~l~~lf~~  440 (466)
                      ...-..+.+.|+.
T Consensus       108 ~kKTE~L~qa~Rr  120 (450)
T COG1224         108 VKKTEALTQALRR  120 (450)
T ss_pred             ccHHHHHHHHHHH
Confidence            4333344455543

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.40  E-value=1.1e-07  Score=100.32  Aligned_cols=97  Identities=13%  Similarity=0.194  Sum_probs=56.8

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC--cchhhcCC--Cccc-chhHHHH
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL--DYAMMTGG--DVAP-LGAQAVT  432 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~--~~~~v~~~--~l~~-~~~e~~~  432 (466)
                      ..|+|.+++++.+...+.    +.      .||||+||||||||++|++|+..++.  +|..+.+.  .... +|..+..
T Consensus        20 ~~i~gre~vI~lll~aal----ag------~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG~l~i~   89 (498)
T PRK13531         20 KGLYERSHAIRLCLLAAL----SG------ESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQ   89 (498)
T ss_pred             hhccCcHHHHHHHHHHHc----cC------CCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcCcHHHh
Confidence            348899988887765421    11      36999999999999999999998753  34433332  1111 1111111


Q ss_pred             HH--HHHHhhhhh--ccCceEEEeccccccccccCC
Q 012305          433 KI--HEIFDWAKK--SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       433 ~l--~~lf~~A~~--~~~~~iLflDEid~l~~~r~~  464 (466)
                      ..  .+-|.....  .....|||+|||..+.++-++
T Consensus        90 ~~~~~g~f~r~~~G~L~~A~lLfLDEI~rasp~~Qs  125 (498)
T PRK13531         90 ALKDEGRYQRLTSGYLPEAEIVFLDEIWKAGPAILN  125 (498)
T ss_pred             hhhhcCchhhhcCCccccccEEeecccccCCHHHHH
Confidence            11  122221110  001348999999988766543

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.39  E-value=2.8e-07  Score=95.15  Aligned_cols=52  Identities=19%  Similarity=0.261  Sum_probs=41.3

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+..+++|||++.+++.|...+..       +..+..+||+||+|+||+++|..+|+.+
T Consensus        14 ~P~~~~~iiGq~~~~~~L~~~~~~-------~rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         14 HPRETTALFGHAAAEAALLDAYRS-------GRLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             CCCchhhccChHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            345678999999999988765332       2233459999999999999999999988

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

Probab=98.37  E-value=8.6e-07  Score=88.26  Aligned_cols=100  Identities=21%  Similarity=0.289  Sum_probs=69.6

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC---------CcchhhcCCCccc---
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---------LDYAMMTGGDVAP---  425 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---------~~~~~v~~~~l~~---  425 (466)
                      +.+||.+.+...+..+...+..++....|  |+||+|++|+|||++++.+++...         .|++.+..+.-+.   
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp--~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~  111 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMP--NLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERR  111 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCC--ceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHH
Confidence            56899999999999988888888887777  899999999999999999987762         2444444333211   


Q ss_pred             ------------c-hhHHHHH-HHHHHhhhhhccCceEEEecccccccc
Q 012305          426 ------------L-GAQAVTK-IHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       426 ------------~-~~e~~~~-l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                                  + ....... ...+....+..+ ..+|+|||++.++.
T Consensus       112 ~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~-vrmLIIDE~H~lLa  159 (302)
T PF05621_consen  112 FYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLG-VRMLIIDEFHNLLA  159 (302)
T ss_pred             HHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcC-CcEEEeechHHHhc
Confidence                        0 0011111 222334444444 67999999999763

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

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.34  E-value=4e-07  Score=92.25  Aligned_cols=49  Identities=20%  Similarity=0.230  Sum_probs=40.2

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|++|||++.++..+...+..       +..+..+||+||+|+||+++|.++++.+
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~-------~rl~ha~Lf~G~~G~Gk~~~A~~~a~~l   50 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQ-------NRIAPAYLFAGPEGVGRKLAALCFIEGL   50 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh-------CCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999988876433       2223479999999999999999999887

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=98.34  E-value=2e-07  Score=102.98  Aligned_cols=48  Identities=23%  Similarity=0.252  Sum_probs=37.2

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|..|||++.++..+.-.+  + +..     ..+|||+||||||||++|++|+..+
T Consensus         2 pf~~ivGq~~~~~al~~~a--v-~~~-----~g~vli~G~~GtgKs~lar~l~~~l   49 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNA--V-DPR-----IGGVLIRGEKGTAKSTAARGLAALL   49 (633)
T ss_pred             CcchhcChHHHHHHHHHHh--h-CCC-----CCeEEEEcCCCCcHHHHHHHHHHhC
Confidence            5788999999887765321  1 111     1369999999999999999999888

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.33  E-value=3.4e-07  Score=93.18  Aligned_cols=69  Identities=29%  Similarity=0.445  Sum_probs=46.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH----HHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA----VTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~----~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      .+++||||||||||+|+.+||+.+   |..++.++.+++.......    .......++..   ...++|+|||++...
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l---~~~DLLIIDDlG~e~  259 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLL---INCDLLIIDDLGTEK  259 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHh---ccCCEEEEeccCCCC
Confidence            579999999999999999999987   6777777766654322111    00111112322   225899999998764

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

Probab=98.33  E-value=7.9e-08  Score=89.50  Aligned_cols=69  Identities=32%  Similarity=0.465  Sum_probs=43.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--HHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--VTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      .|++|+||||||||++|.++++.+   |.++..++.+++......+  ......++....   ...+|||||++...
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~---~~dlLilDDlG~~~  121 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLK---RVDLLILDDLGYEP  121 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH---TSSCEEEETCTSS-
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccc---cccEecccccceee
Confidence            579999999999999999998877   6777666665543211110  111222333322   26799999998654

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.

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

Probab=98.33  E-value=2.9e-07  Score=95.91  Aligned_cols=48  Identities=33%  Similarity=0.447  Sum_probs=39.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ...|.||+|++..++.+.-..          ....|+||+||||||||++|+.+..-+
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAA----------AGgHnLl~~GpPGtGKTmla~Rl~~lL  222 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAA----------AGGHNLLLVGPPGTGKTMLASRLPGLL  222 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHH----------hcCCcEEEecCCCCchHHhhhhhcccC
Confidence            347899999999999987542          122479999999999999999987666

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.31  E-value=3.7e-07  Score=85.29  Aligned_cols=76  Identities=21%  Similarity=0.389  Sum_probs=45.5

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCc--c-----------hhh---cCCCcccc---h-hHHHHHHHHHHhhhhh---
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLD--Y-----------AMM---TGGDVAPL---G-AQAVTKIHEIFDWAKK---  443 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~--~-----------~~v---~~~~l~~~---~-~e~~~~l~~lf~~A~~---  443 (466)
                      +..+|||||||+|||++++.+++.+...  .           ..+   +..|+...   + .-....++.+.+.+..   
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~~   93 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTPQ   93 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCcc
Confidence            3569999999999999999999887321  0           000   01111100   0 0112344444444433   


Q ss_pred             ccCceEEEecccccccccc
Q 012305          444 SKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~~r  462 (466)
                      .+...||||||+|.|....
T Consensus        94 ~~~~kviiide~~~l~~~~  112 (188)
T TIGR00678        94 ESGRRVVIIEDAERMNEAA  112 (188)
T ss_pred             cCCeEEEEEechhhhCHHH
Confidence            3456899999999987643

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.

>TIGR00368 Mg chelatase-related protein

Probab=98.28  E-value=1.7e-07  Score=100.33  Aligned_cols=47  Identities=34%  Similarity=0.491  Sum_probs=36.1

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..|.+|+|+..++..+...+          ....+++|+||||||||++++.++..+
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            36889999988876665432          112369999999999999999998754

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.27  E-value=7.9e-07  Score=85.12  Aligned_cols=91  Identities=19%  Similarity=0.356  Sum_probs=69.4

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ  429 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e  429 (466)
                      +...+.+++|-+..++.|..-...+..    +.|-.||||+|.-||||+++++++.+.+   |...+.|+-.++.     
T Consensus        55 ~~i~L~~l~Gvd~qk~~L~~NT~~F~~----G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~-----  125 (287)
T COG2607          55 DPIDLADLVGVDRQKEALVRNTEQFAE----GLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLA-----  125 (287)
T ss_pred             CCcCHHHHhCchHHHHHHHHHHHHHHc----CCcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHh-----
Confidence            345678899999999988765444433    4555699999999999999999998887   5566666666553     


Q ss_pred             HHHHHHHHHhhhhhccCceEEEeccc
Q 012305          430 AVTKIHEIFDWAKKSKKGLLLFIDEA  455 (466)
Q Consensus       430 ~~~~l~~lf~~A~~~~~~~iLflDEi  455 (466)
                         .+-.+++..+..+...|||+|+.
T Consensus       126 ---~Lp~l~~~Lr~~~~kFIlFcDDL  148 (287)
T COG2607         126 ---TLPDLVELLRARPEKFILFCDDL  148 (287)
T ss_pred             ---hHHHHHHHHhcCCceEEEEecCC
Confidence               44567777777777899999975

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.24  E-value=6.8e-07  Score=87.69  Aligned_cols=74  Identities=27%  Similarity=0.416  Sum_probs=53.9

Q ss_pred             ccccCCCCCCchHHHHHHH------HhhCCcchhhcCCCcccchhH--HHHHHHHHHhhhhh-------ccCceEEEecc
Q 012305          390 MLFYGPPGTGKTMVAREIA------RKSGLDYAMMTGGDVAPLGAQ--AVTKIHEIFDWAKK-------SKKGLLLFIDE  454 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA------~~l~~~~~~v~~~~l~~~~~e--~~~~l~~lf~~A~~-------~~~~~iLflDE  454 (466)
                      +||.||+|.||+.+|+.|-      +.+..+|+.+||..+-..+.-  ..+.+++.|..+..       +..|++|||||
T Consensus       211 ~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsadggmlflde  290 (531)
T COG4650         211 ILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSADGGMLFLDE  290 (531)
T ss_pred             eEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccCCCceEehHh
Confidence            9999999999999999984      234778999999887432221  23455566655443       34479999999


Q ss_pred             ccccccccC
Q 012305          455 ADAFLCDNQ  463 (466)
Q Consensus       455 id~l~~~r~  463 (466)
                      |+.+..+.+
T Consensus       291 igelgadeq  299 (531)
T COG4650         291 IGELGADEQ  299 (531)
T ss_pred             hhhcCccHH
Confidence            999876544

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

Probab=98.24  E-value=1.3e-06  Score=91.73  Aligned_cols=95  Identities=25%  Similarity=0.310  Sum_probs=55.2

Q ss_pred             CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc--ch---hhcCC------Cc--
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD--YA---MMTGG------DV--  423 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~--~~---~v~~~------~l--  423 (466)
                      ++++++.+...+.+...+.          ..++++|+||||||||++|+.||..++..  +.   .+...      ++  
T Consensus       174 l~d~~i~e~~le~l~~~L~----------~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~  243 (459)
T PRK11331        174 LNDLFIPETTIETILKRLT----------IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQ  243 (459)
T ss_pred             hhcccCCHHHHHHHHHHHh----------cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhc
Confidence            5666666666655543322          12479999999999999999999988432  11   11111      11  


Q ss_pred             --cc--chhHH-HHHHHHHHhhhhhcc-CceEEEeccccccccc
Q 012305          424 --AP--LGAQA-VTKIHEIFDWAKKSK-KGLLLFIDEADAFLCD  461 (466)
Q Consensus       424 --~~--~~~e~-~~~l~~lf~~A~~~~-~~~iLflDEid~l~~~  461 (466)
                        .+  .+..- .+.+..++..|...+ .+.+||||||+.....
T Consensus       244 G~rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~  287 (459)
T PRK11331        244 GYRPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLS  287 (459)
T ss_pred             ccCCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHH
Confidence              01  11110 112334455555432 4789999999986543

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

Probab=98.24  E-value=1.2e-06  Score=90.80  Aligned_cols=106  Identities=18%  Similarity=0.220  Sum_probs=65.5

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVA  424 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~  424 (466)
                      ...+.++|+++|..+...-...-......++   +.++..++||||+|+|||+|.+++++..     +..|+.++..++.
T Consensus        79 ~l~~~ytFdnFv~g~~N~~A~aa~~~va~~~---g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~  155 (408)
T COG0593          79 GLNPKYTFDNFVVGPSNRLAYAAAKAVAENP---GGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFT  155 (408)
T ss_pred             cCCCCCchhheeeCCchHHHHHHHHHHHhcc---CCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHH
Confidence            4678889999998888776665444433333   2244569999999999999999999987     2234444443332


Q ss_pred             c-chhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      . +.......-..-|..  .+ .-++|+||+|+.+.++
T Consensus       156 ~~~v~a~~~~~~~~Fk~--~y-~~dlllIDDiq~l~gk  190 (408)
T COG0593         156 NDFVKALRDNEMEKFKE--KY-SLDLLLIDDIQFLAGK  190 (408)
T ss_pred             HHHHHHHHhhhHHHHHH--hh-ccCeeeechHhHhcCC
Confidence            1 110000000111111  12 2579999999999876

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

Probab=98.23  E-value=5.6e-07  Score=78.32  Aligned_cols=71  Identities=27%  Similarity=0.397  Sum_probs=43.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh--------CCcchhhcCCCccc----------------ch-hHHHHHHHHHHhhhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS--------GLDYAMMTGGDVAP----------------LG-AQAVTKIHEIFDWAK  442 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l--------~~~~~~v~~~~l~~----------------~~-~e~~~~l~~lf~~A~  442 (466)
                      +.++++||||+|||++++.++..+        ..+++.++++....                .. .........+.+...
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~   84 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALD   84 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHH
Confidence            368999999999999999999887        45555555433221                00 011222234444444


Q ss_pred             hccCceEEEeccccccc
Q 012305          443 KSKKGLLLFIDEADAFL  459 (466)
Q Consensus       443 ~~~~~~iLflDEid~l~  459 (466)
                      ..+ ..+|+|||+|.+.
T Consensus        85 ~~~-~~~lviDe~~~l~  100 (131)
T PF13401_consen   85 RRR-VVLLVIDEADHLF  100 (131)
T ss_dssp             HCT-EEEEEEETTHHHH
T ss_pred             hcC-CeEEEEeChHhcC
Confidence            433 4699999999973

>PRK06921 hypothetical protein; Provisional

Probab=98.23  E-value=6.3e-07  Score=88.74  Aligned_cols=68  Identities=21%  Similarity=0.198  Sum_probs=41.6

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                      ..+++|+||||||||+|+.+|++.+    |.+++.++..++..............+..   ....++|+|||++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~~~~~~~~~~---~~~~dlLiIDDl~~  188 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDFDLLEAKLNR---MKKVEVLFIDDLFK  188 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHHHHHHHHHHH---hcCCCEEEEecccc
Confidence            3579999999999999999999876    44555555433221111111111222222   23368999999943

>PRK09087 hypothetical protein; Validated

Probab=98.22  E-value=1.9e-06  Score=83.31  Aligned_cols=60  Identities=20%  Similarity=0.235  Sum_probs=40.3

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..+..+|+++|..+.....+..+....      .++...++||||+|||||+|+++++...+..|+
T Consensus        14 ~~~~~~~~~Fi~~~~N~~a~~~l~~~~------~~~~~~l~l~G~~GsGKThLl~~~~~~~~~~~i   73 (226)
T PRK09087         14 HDPAYGRDDLLVTESNRAAVSLVDHWP------NWPSPVVVLAGPVGSGKTHLASIWREKSDALLI   73 (226)
T ss_pred             CCCCCChhceeecCchHHHHHHHHhcc------cCCCCeEEEECCCCCCHHHHHHHHHHhcCCEEe
Confidence            455678999987555554444332211      112234999999999999999999987655443

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

Probab=98.22  E-value=1.7e-06  Score=95.84  Aligned_cols=98  Identities=22%  Similarity=0.328  Sum_probs=73.1

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcc
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVA  424 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~  424 (466)
                      ..++-|||.+.-+.++-+++..-  ++.      |-+|.|+||+|||.++..||...          +..++.++.+.+.
T Consensus       167 gklDPvIGRd~EI~r~iqIL~RR--~KN------NPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~Lv  238 (786)
T COG0542         167 GKLDPVIGRDEEIRRTIQILSRR--TKN------NPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLV  238 (786)
T ss_pred             CCCCCCcChHHHHHHHHHHHhcc--CCC------CCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHh
Confidence            35688999988887776654321  222      57899999999999999999876          3333444433332


Q ss_pred             ---cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 ---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 ---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                         .+.++-..+++.+.+.....+ +.|||||||+.+.+-
T Consensus       239 AGakyRGeFEeRlk~vl~ev~~~~-~vILFIDEiHtiVGA  277 (786)
T COG0542         239 AGAKYRGEFEERLKAVLKEVEKSK-NVILFIDEIHTIVGA  277 (786)
T ss_pred             ccccccCcHHHHHHHHHHHHhcCC-CeEEEEechhhhcCC
Confidence               255677889999999999887 899999999998754

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

Probab=98.20  E-value=2.1e-06  Score=92.68  Aligned_cols=96  Identities=17%  Similarity=0.246  Sum_probs=69.4

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC----CcchhhcCCCcccchhHH-HH
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG----LDYAMMTGGDVAPLGAQA-VT  432 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~----~~~~~v~~~~l~~~~~e~-~~  432 (466)
                      .++|..++.++....  .    .-++.....++||+||+|||||.|+++++.++.    ..+..++|+.+.....+. -.
T Consensus       408 ~d~i~~~s~kke~~n--~----~~spv~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk  481 (952)
T KOG0735|consen  408 HDFIQVPSYKKENAN--Q----ELSPVFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQK  481 (952)
T ss_pred             Cceeecchhhhhhhh--h----hcccccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHH
Confidence            567777777776654  1    112233346899999999999999999999984    345678888875433332 23


Q ss_pred             HHHHHHhhhhhccCceEEEecccccccc
Q 012305          433 KIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       433 ~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      .+..+|..+..+. |+||+||++|.+.+
T Consensus       482 ~l~~vfse~~~~~-PSiIvLDdld~l~~  508 (952)
T KOG0735|consen  482 FLNNVFSEALWYA-PSIIVLDDLDCLAS  508 (952)
T ss_pred             HHHHHHHHHHhhC-CcEEEEcchhhhhc
Confidence            4667777777666 89999999999986

>PRK09183 transposase/IS protein; Provisional

Probab=98.19  E-value=6.3e-07  Score=88.41  Aligned_cols=72  Identities=25%  Similarity=0.387  Sum_probs=45.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-chh-HHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-LGA-QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-~~~-e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .+++|+||||||||+++.+|+...   |+.+..+++.++.. +.. .....+...+...  ....++|+|||++.+..+
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~--~~~~dlLiiDdlg~~~~~  179 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRG--VMAPRLLIIDEIGYLPFS  179 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHH--hcCCCEEEEcccccCCCC
Confidence            479999999999999999997664   66666665554431 110 1111233344332  123679999999876443

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.18  E-value=1.1e-06  Score=89.61  Aligned_cols=101  Identities=18%  Similarity=0.159  Sum_probs=62.5

Q ss_pred             CCCeee-CcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcc-------------hhhc---
Q 012305          357 NGDIIL-HPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDY-------------AMMT---  419 (466)
Q Consensus       357 l~~vVg-~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~-------------~~v~---  419 (466)
                      |+.|+| ++.+++.+...+..       +..+..+|||||+|+|||++|+.+++.+-.+-             -.+.   
T Consensus         4 ~~~i~~~q~~~~~~L~~~~~~-------~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~   76 (329)
T PRK08058          4 WEQLTALQPVVVKMLQNSIAK-------NRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGN   76 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHHHc-------CCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCC
Confidence            566888 88888888765422       33334679999999999999999998872210             0111   


Q ss_pred             CCCcccc---hh-HHHHHHHHHHhhhh---hccCceEEEeccccccccccCC
Q 012305          420 GGDVAPL---GA-QAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       420 ~~~l~~~---~~-e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+|+...   +. -....++.+.+.+.   ..+.+.|+|||++|.|...-+|
T Consensus        77 hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~N  128 (329)
T PRK08058         77 HPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAAN  128 (329)
T ss_pred             CCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHH
Confidence            1122111   11 12345566655544   2334679999999999765443

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

Probab=98.16  E-value=2.1e-06  Score=85.82  Aligned_cols=82  Identities=22%  Similarity=0.365  Sum_probs=60.2

Q ss_pred             eeeCcchHHHHHHHHH-hhcc-----ccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC---cccchhHH
Q 012305          360 IILHPSLQRRIQHLAK-ATAN-----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD---VAPLGAQA  430 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~-~~~~-----~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~---l~~~~~e~  430 (466)
                      |||+.++++.+.-.++ .++.     .......|+|+|+.||+|+|||.+|+.||+-.|.||+.+-..-   +++.|.+-
T Consensus        17 IIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATKfTEVGYVGrDV   96 (444)
T COG1220          17 IIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVGYVGRDV   96 (444)
T ss_pred             hcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeeeeeecccccccH
Confidence            8999999998865332 2111     1223455789999999999999999999999999999987654   45566666


Q ss_pred             HHHHHHHHhhh
Q 012305          431 VTKIHEIFDWA  441 (466)
Q Consensus       431 ~~~l~~lf~~A  441 (466)
                      .+.++++.+.+
T Consensus        97 esivRDLve~a  107 (444)
T COG1220          97 ESIIRDLVEIA  107 (444)
T ss_pred             HHHHHHHHHHH
Confidence            66666666543

>PF13173 AAA_14: AAA domain

Probab=98.16  E-value=1.8e-06  Score=75.69  Aligned_cols=69  Identities=20%  Similarity=0.221  Sum_probs=46.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      .++|+||.|||||++++.++..+.  .+++.+++.+.......... +...+.... .....+||||||..+.
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~i~iDEiq~~~   74 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPD-LLEYFLELI-KPGKKYIFIDEIQYLP   74 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhh-hHHHHHHhh-ccCCcEEEEehhhhhc
Confidence            488999999999999999998886  77888888776442211111 222222111 1236899999998863

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=98.15  E-value=3.8e-07  Score=93.11  Aligned_cols=48  Identities=19%  Similarity=0.249  Sum_probs=37.3

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|..|||+++++..+.-.+  + ++.     ..++||.|+||||||+++++|+..+
T Consensus         2 pf~~ivgq~~~~~al~~~~--~-~~~-----~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNV--I-DPK-----IGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             CccccccHHHHHHHHHHHh--c-CCC-----CCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            5788999999988764321  1 111     2479999999999999999999877

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.

>PHA00729 NTP-binding motif containing protein

Probab=98.11  E-value=2.1e-06  Score=82.49  Aligned_cols=25  Identities=32%  Similarity=0.488  Sum_probs=23.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .+++|+|+||||||++|.+|+..++
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4799999999999999999999876

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

Probab=98.11  E-value=3.8e-06  Score=91.46  Aligned_cols=76  Identities=29%  Similarity=0.504  Sum_probs=66.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      ..+||+|+||||||++.+++|.++|.+++.++|..+.. ....+...+...|..++.+. +.||||-..|-|..++++
T Consensus       432 ~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~-pavifl~~~dvl~id~dg  508 (953)
T KOG0736|consen  432 PSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRCS-PAVLFLRNLDVLGIDQDG  508 (953)
T ss_pred             eEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhcC-ceEEEEeccceeeecCCC
Confidence            47999999999999999999999999999999987754 45566788899999999876 899999999998866553

>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=98.11  E-value=2.6e-06  Score=78.13  Aligned_cols=96  Identities=24%  Similarity=0.300  Sum_probs=54.4

Q ss_pred             eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch------------h---hcCCCcccc
Q 012305          362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA------------M---MTGGDVAPL  426 (466)
Q Consensus       362 g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~------------~---v~~~~l~~~  426 (466)
                      |++.+.+.|..++..       +..+..+||+||+|+||+++|..+++.+-..-.            .   .+.+|+...
T Consensus         1 gq~~~~~~L~~~~~~-------~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~   73 (162)
T PF13177_consen    1 GQEEIIELLKNLIKS-------GRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIII   73 (162)
T ss_dssp             S-HHHHHHHHHHHHC-------TC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEE
T ss_pred             CcHHHHHHHHHHHHc-------CCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEE
Confidence            455555555544221       233345899999999999999999998821111            1   112222111


Q ss_pred             hh------HHHHHHHHHHhhhhh---ccCceEEEeccccccccccCC
Q 012305          427 GA------QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       427 ~~------e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~  464 (466)
                      ..      -....++.+.+++..   ...+.|++||++|.|...-+|
T Consensus        74 ~~~~~~~~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~N  120 (162)
T PF13177_consen   74 KPDKKKKSIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQN  120 (162)
T ss_dssp             ETTTSSSSBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHH
T ss_pred             ecccccchhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHH
Confidence            11      123455555555443   334689999999999876544

...

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=98.06  E-value=1.3e-06  Score=93.54  Aligned_cols=93  Identities=23%  Similarity=0.334  Sum_probs=66.2

Q ss_pred             eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCccc--chhHHHHHHHHH
Q 012305          362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAP--LGAQAVTKIHEI  437 (466)
Q Consensus       362 g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~--~~~e~~~~l~~l  437 (466)
                      +.+.....+...+..+..++.+      +|++|.|||||..++++|+..++  .+|+.|||+.++.  .+.+-++.+.+.
T Consensus       317 ~~d~s~a~l~rk~~rv~~~~~p------vll~GEtGtGKe~laraiH~~s~~~gpfvAvNCaAip~~liesELFGy~~Ga  390 (606)
T COG3284         317 LLDPSRATLLRKAERVAATDLP------VLLQGETGTGKEVLARAIHQNSEAAGPFVAVNCAAIPEALIESELFGYVAGA  390 (606)
T ss_pred             ccCHHHHHHHHHHHHHhhcCCC------eEecCCcchhHHHHHHHHHhcccccCCeEEEEeccchHHhhhHHHhccCccc
Confidence            4455555555555566555554      99999999999999999998884  6899999999876  333334444455


Q ss_pred             Hhhhhh--------ccCceEEEecccccccc
Q 012305          438 FDWAKK--------SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       438 f~~A~~--------~~~~~iLflDEid~l~~  460 (466)
                      |..+..        ...+++||||||+.|.-
T Consensus       391 fTga~~kG~~g~~~~A~gGtlFldeIgd~p~  421 (606)
T COG3284         391 FTGARRKGYKGKLEQADGGTLFLDEIGDMPL  421 (606)
T ss_pred             cccchhccccccceecCCCccHHHHhhhchH
Confidence            544332        22369999999999853

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.94  E-value=9.2e-06  Score=72.47  Aligned_cols=32  Identities=31%  Similarity=0.491  Sum_probs=25.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      .++|+||||||||+++..++...   +.+++.+++
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~   35 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDI   35 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEEC
Confidence            37899999999999999998877   445555444

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.

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=97.94  E-value=1.6e-05  Score=78.24  Aligned_cols=71  Identities=25%  Similarity=0.431  Sum_probs=55.2

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCccc
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAP  425 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~  425 (466)
                      .+...-+.+||+..+.+...-++..+...+-.   -+.+||.||||||||.+|-+++.++|  .||+.+.|+.+..
T Consensus        32 ~~~~~~~g~vGQ~~AReAagiivdlik~Kkma---GravLlaGppgtGKTAlAlaisqELG~kvPFcpmvgSEvyS  104 (456)
T KOG1942|consen   32 NAVEVAAGFVGQENAREAAGIIVDLIKSKKMA---GRAVLLAGPPGTGKTALALAISQELGPKVPFCPMVGSEVYS  104 (456)
T ss_pred             CeeecccccccchhhhhhhhHHHHHHHhhhcc---CcEEEEecCCCCchhHHHHHHHHHhCCCCCcccccchhhhh
Confidence            34444578999999988876666655544333   35699999999999999999999995  7899999988754

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.92  E-value=7.2e-06  Score=83.62  Aligned_cols=78  Identities=19%  Similarity=0.280  Sum_probs=48.9

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCc--c-----------hhhc---CCCcccc---h---hHHHHHHHHHHhhhhh-
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLD--Y-----------AMMT---GGDVAPL---G---AQAVTKIHEIFDWAKK-  443 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~--~-----------~~v~---~~~l~~~---~---~e~~~~l~~lf~~A~~-  443 (466)
                      +..+||+||+|+|||++|+.+|+.+...  .           -.+.   -+|+..+   +   .-.+..++.+.+.+.. 
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~  101 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQT  101 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhhc
Confidence            3469999999999999999999988321  0           0111   1122111   1   1124456666555443 


Q ss_pred             --ccCceEEEeccccccccccCC
Q 012305          444 --SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       444 --~~~~~iLflDEid~l~~~r~~  464 (466)
                        .+.+.|+|||++|.|...-.|
T Consensus       102 ~~~~~~kv~iI~~a~~m~~~aaN  124 (328)
T PRK05707        102 AQLGGRKVVLIEPAEAMNRNAAN  124 (328)
T ss_pred             cccCCCeEEEECChhhCCHHHHH
Confidence              334689999999999865544

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

Probab=97.90  E-value=2.9e-05  Score=76.24  Aligned_cols=24  Identities=29%  Similarity=0.519  Sum_probs=22.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .++|+||||+|||++++.+++.+.
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcC
Confidence            488999999999999999998874

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.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.89  E-value=9.9e-06  Score=82.87  Aligned_cols=63  Identities=16%  Similarity=0.113  Sum_probs=45.5

Q ss_pred             CCC-CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC-------cchhhcC
Q 012305          356 NNG-DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL-------DYAMMTG  420 (466)
Q Consensus       356 ~l~-~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~-------~~~~v~~  420 (466)
                      -|+ +++|.++.+..+...+.......  ....+.++|+||||||||++|++|++.++.       +++.+.+
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 FFDHDFFGMEEAIERFVNYFKSAAQGL--EERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             ccchhccCcHHHHHHHHHHHHHHHhcC--CCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            355 79999888777766544443221  112245899999999999999999999954       6666666

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

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.84  E-value=4.5e-05  Score=66.70  Aligned_cols=52  Identities=23%  Similarity=0.247  Sum_probs=37.9

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.||+-+.+.|-..+...-....+..| .-+.|+||||||||.+++.||+.+
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~Kp-LVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKP-LVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCC-EEEEeecCCCCcHHHHHHHHHHHH
Confidence            4889998888886655443333333333 345599999999999999999996

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

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=97.83  E-value=3.3e-05  Score=76.37  Aligned_cols=97  Identities=16%  Similarity=0.157  Sum_probs=58.9

Q ss_pred             eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCC--Cccc------c
Q 012305          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGG--DVAP------L  426 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~--~l~~------~  426 (466)
                      +.||.-+++.|-..+....++..+..| ..+-|+|+|||||..+++.||+++     ..+|+..--+  +++.      +
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p~KP-LvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~Y  162 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNPRKP-LVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIEDY  162 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCCCCC-eEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHHH
Confidence            678888888776654443333333333 335589999999999999999988     3444432211  2221      1


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      ..+....++   +.+..+. .+|+++||+|.|.+.
T Consensus       163 k~eL~~~v~---~~v~~C~-rslFIFDE~DKmp~g  193 (344)
T KOG2170|consen  163 KEELKNRVR---GTVQACQ-RSLFIFDEVDKLPPG  193 (344)
T ss_pred             HHHHHHHHH---HHHHhcC-CceEEechhhhcCHh
Confidence            112222223   3333344 689999999998753

>PRK09862 putative ATP-dependent protease; Provisional

Probab=97.78  E-value=6.9e-06  Score=87.96  Aligned_cols=47  Identities=36%  Similarity=0.487  Sum_probs=34.1

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..|.+++|+..++..+...          -....+++|+||||||||++++.|+..+
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            3677788877666554321          1122479999999999999999998766

>smart00350 MCM minichromosome maintenance proteins

Probab=97.78  E-value=5.5e-06  Score=89.42  Aligned_cols=101  Identities=18%  Similarity=0.167  Sum_probs=53.8

Q ss_pred             CCeeeCcchHHHHHHHH-Hhhccccccccc---cccccccCCCCCCchHHHHHHHHhhCC-cchhh---cCCCccc-chh
Q 012305          358 GDIILHPSLQRRIQHLA-KATANTKIHQAP---FRNMLFYGPPGTGKTMVAREIARKSGL-DYAMM---TGGDVAP-LGA  428 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~-~~~~~~~~~~~p---~~~vLl~GppGTGKT~lA~alA~~l~~-~~~~v---~~~~l~~-~~~  428 (466)
                      ..++|+..++..+.-.+ .........+..   ..||||+|+||||||++++.++..+.. .|+..   ++..+.. ...
T Consensus       203 p~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~~  282 (509)
T smart00350      203 PSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTR  282 (509)
T ss_pred             ccccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccceE
Confidence            35778887765553322 111111111111   237999999999999999999998743 33321   2211211 000


Q ss_pred             HH----HHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          429 QA----VTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       429 e~----~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      +.    .....+.+..|    .+++|+|||++.|..+-
T Consensus       283 ~~~~g~~~~~~G~l~~A----~~Gil~iDEi~~l~~~~  316 (509)
T smart00350      283 DPETREFTLEGGALVLA----DNGVCCIDEFDKMDDSD  316 (509)
T ss_pred             ccCcceEEecCccEEec----CCCEEEEechhhCCHHH
Confidence            00    00011222222    26899999999987543

>PRK14974 cell division protein FtsY; Provisional

Probab=97.77  E-value=6.3e-05  Score=76.85  Aligned_cols=73  Identities=23%  Similarity=0.297  Sum_probs=47.1

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWAK  442 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A~  442 (466)
                      +.-++|+||||+||||++..||..+   |..++.++++.+-.                     .+.+....+...++++.
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~  219 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAK  219 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHH
Confidence            3568999999999999999998776   55666665543210                     11111122334445554


Q ss_pred             hccCceEEEecccccccc
Q 012305          443 KSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       443 ~~~~~~iLflDEid~l~~  460 (466)
                      ..+ .++||||.++.+..
T Consensus       220 ~~~-~DvVLIDTaGr~~~  236 (336)
T PRK14974        220 ARG-IDVVLIDTAGRMHT  236 (336)
T ss_pred             hCC-CCEEEEECCCccCC
Confidence            433 67999999998754

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.77  E-value=2.2e-05  Score=76.80  Aligned_cols=50  Identities=28%  Similarity=0.497  Sum_probs=37.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.+|+.++++.+....+..+      ......|  |+|||||+|+||-|.+.+|-+++
T Consensus         9 pksl~~l~~~~e~~~~Lksl------~~~~d~P--Hll~yGPSGaGKKTrimclL~el   58 (351)
T KOG2035|consen    9 PKSLDELIYHEELANLLKSL------SSTGDFP--HLLVYGPSGAGKKTRIMCLLREL   58 (351)
T ss_pred             cchhhhcccHHHHHHHHHHh------cccCCCC--eEEEECCCCCCchhhHHHHHHHH
Confidence            34567788877777776654      1222234  89999999999999999998887

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.76  E-value=3.6e-05  Score=76.93  Aligned_cols=35  Identities=29%  Similarity=0.464  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh----C-CcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS----G-LDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l----~-~~~~~v~~~~  422 (466)
                      +.++|+||+|+||||++..|+..+    | ..+..++++.
T Consensus       195 ~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~  234 (282)
T TIGR03499       195 GVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT  234 (282)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence            468899999999999999998766    3 6777777765

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

Probab=97.76  E-value=2.9e-05  Score=83.49  Aligned_cols=79  Identities=32%  Similarity=0.593  Sum_probs=65.6

Q ss_pred             ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          384 QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       384 ~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ..|+++++++||||||||++++.++.. +..+..+++..+. .+.+++...++.+|.++.... ++++|+||+|.+.+.+
T Consensus        15 ~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~-~~ii~~d~~~~~~~~~   92 (494)
T COG0464          15 IEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEEAEKLA-PSIIFIDEIDALAPKR   92 (494)
T ss_pred             CCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhhhhhHHHHHHHHHHHHHHHhC-CCeEeechhhhcccCc
Confidence            456688999999999999999999999 6655666666544 466778889999999999877 4999999999999887


Q ss_pred             CC
Q 012305          463 QD  464 (466)
Q Consensus       463 ~~  464 (466)
                      ..
T Consensus        93 ~~   94 (494)
T COG0464          93 SS   94 (494)
T ss_pred             cc
Confidence            54

>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=97.76  E-value=1.1e-05  Score=69.42  Aligned_cols=30  Identities=37%  Similarity=0.784  Sum_probs=26.1

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      |+|+|||||||||+|+.|+..+|.+++.++
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d   31 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMD   31 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEec
Confidence            789999999999999999999987765443

...

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=97.70  E-value=4.5e-06  Score=91.46  Aligned_cols=73  Identities=21%  Similarity=0.241  Sum_probs=47.2

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCC--cchhhcCCCccc--chhHH-HHHH--------HHHHhhhhhccCceEEEec
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGL--DYAMMTGGDVAP--LGAQA-VTKI--------HEIFDWAKKSKKGLLLFID  453 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~--~~~~v~~~~l~~--~~~e~-~~~l--------~~lf~~A~~~~~~~iLflD  453 (466)
                      ..||||.|+||||||+++++|+..++.  +|+.+.++....  .|.-. ...+        .+++..+    .++|||||
T Consensus        16 ~g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A----~~GvL~lD   91 (589)
T TIGR02031        16 LGGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDEA----PRGVLYVD   91 (589)
T ss_pred             cceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeeeC----CCCcEecc
Confidence            358999999999999999999998854  587777532221  11100 0000        1122222    26899999


Q ss_pred             cccccccccC
Q 012305          454 EADAFLCDNQ  463 (466)
Q Consensus       454 Eid~l~~~r~  463 (466)
                      ||+.+.++-+
T Consensus        92 Ei~rl~~~~q  101 (589)
T TIGR02031        92 MANLLDDGLS  101 (589)
T ss_pred             chhhCCHHHH
Confidence            9999876544

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.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.69  E-value=2e-05  Score=67.00  Aligned_cols=63  Identities=24%  Similarity=0.306  Sum_probs=37.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      |+||||||+|||++++.|+..+...+.......+-. .    ..-.+.++.-.   .-.++++||+.....
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~-~----~~~~~~w~gY~---~q~vvi~DD~~~~~~   63 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYT-R----NPGDKFWDGYQ---GQPVVIIDDFGQDND   63 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEe-C----CCccchhhccC---CCcEEEEeecCcccc
Confidence            579999999999999999888743321111111100 0    01123343332   246899999887653

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

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.69  E-value=2.7e-05  Score=74.90  Aligned_cols=22  Identities=41%  Similarity=0.691  Sum_probs=19.8

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      ..+||||+||||||++|+.++.
T Consensus        13 ~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        13 NMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             cEEEEECCCCCCHHHHHHhcCC
Confidence            4599999999999999999974

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.67  E-value=2.7e-05  Score=83.93  Aligned_cols=62  Identities=21%  Similarity=0.374  Sum_probs=44.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +.++++++.+..-++.|+.++.....   ...+.+-+||+||||||||++++.||+++|..+..-
T Consensus        15 P~~~~eLavhkkKv~eV~~wl~~~~~---~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew   76 (519)
T PF03215_consen   15 PKTLDELAVHKKKVEEVRSWLEEMFS---GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEW   76 (519)
T ss_pred             CCCHHHhhccHHHHHHHHHHHHHHhc---cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEe
Confidence            34567888888777777665554222   222334688899999999999999999998766553

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

Probab=97.65  E-value=7.5e-05  Score=70.77  Aligned_cols=72  Identities=22%  Similarity=0.398  Sum_probs=45.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC---cchhhcCCCccc------------------------------------chh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL---DYAMMTGGDVAP------------------------------------LGA  428 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~---~~~~v~~~~l~~------------------------------------~~~  428 (466)
                      .++++|||.|+|||++++.+...+..   ..+.+.+.....                                    ...
T Consensus        21 ~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  100 (234)
T PF01637_consen   21 QHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETSLADELSEALGISIPSITLEKISKDLSE  100 (234)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHHHCCTSTTEEEECTS-G
T ss_pred             cEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhhhcccccchhhhhcchh
Confidence            46999999999999999999988821   222222211100                                    001


Q ss_pred             HHHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      .....+..+++.........||+|||++.+.
T Consensus       101 ~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~  131 (234)
T PF01637_consen  101 DSFSALERLLEKLKKKGKKVIIVIDEFQYLA  131 (234)
T ss_dssp             G-G--HHHHHHHHHHCHCCEEEEEETGGGGG
T ss_pred             hHHHHHHHHHHHHHhcCCcEEEEEecHHHHh
Confidence            1234456666666655545999999999998

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

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=97.65  E-value=1.5e-05  Score=89.63  Aligned_cols=69  Identities=20%  Similarity=0.124  Sum_probs=41.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC-------CcchhhcCCCccc-chhHH--HHHHHHHHhhhhhccCceEEEecccccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG-------LDYAMMTGGDVAP-LGAQA--VTKIHEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~-------~~~~~v~~~~l~~-~~~e~--~~~l~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                      ||||+|+||||||.+++.++..+.       .+++.+.+..... ....+  .....+.+..|    .+++|+|||++.|
T Consensus       494 hVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~vgLTa~~~~~d~~tG~~~le~GaLvlA----dgGtL~IDEidkm  569 (915)
T PTZ00111        494 NVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSVGLTASIKFNESDNGRAMIQPGAVVLA----NGGVCCIDELDKC  569 (915)
T ss_pred             eEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccccccchhhhcccccCcccccCCcEEEc----CCCeEEecchhhC
Confidence            899999999999999999998763       2333333222111 00000  00111222222    2689999999998


Q ss_pred             ccc
Q 012305          459 LCD  461 (466)
Q Consensus       459 ~~~  461 (466)
                      ..+
T Consensus       570 s~~  572 (915)
T PTZ00111        570 HNE  572 (915)
T ss_pred             CHH
Confidence            754

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.64  E-value=4.9e-05  Score=71.93  Aligned_cols=71  Identities=21%  Similarity=0.280  Sum_probs=43.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhhhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWAKK  443 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A~~  443 (466)
                      +.++|+||+|+||||++-.||..+   +..+..++++..-.                     ...+....+...++....
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~   81 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRK   81 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhh
Confidence            468899999999999999998777   56666666544310                     000112233444555443


Q ss_pred             ccCceEEEeccccccc
Q 012305          444 SKKGLLLFIDEADAFL  459 (466)
Q Consensus       444 ~~~~~iLflDEid~l~  459 (466)
                      .+ .++||||-.+...
T Consensus        82 ~~-~D~vlIDT~Gr~~   96 (196)
T PF00448_consen   82 KG-YDLVLIDTAGRSP   96 (196)
T ss_dssp             TT-SSEEEEEE-SSSS
T ss_pred             cC-CCEEEEecCCcch
Confidence            23 6899999887654

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 ....

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.63  E-value=5.1e-05  Score=76.30  Aligned_cols=73  Identities=23%  Similarity=0.282  Sum_probs=59.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc--------------------c-cchhHHHHHHHHHHhhhhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV--------------------A-PLGAQAVTKIHEIFDWAKK  443 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l--------------------~-~~~~e~~~~l~~lf~~A~~  443 (466)
                      -.+||+|.+||||||.+-.||..+   |++++...|+.+                    . ..|.+..+.....++.|..
T Consensus       140 ~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~Aka  219 (340)
T COG0552         140 FVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQAAKA  219 (340)
T ss_pred             EEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHHHHH
Confidence            468999999999999999999988   777776666554                    1 2566677778888888887


Q ss_pred             ccCceEEEeccccccccc
Q 012305          444 SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~~  461 (466)
                      .+ .++||||-++.|..+
T Consensus       220 r~-~DvvliDTAGRLhnk  236 (340)
T COG0552         220 RG-IDVVLIDTAGRLHNK  236 (340)
T ss_pred             cC-CCEEEEeCcccccCc
Confidence            66 899999999999764

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.63  E-value=4.9e-05  Score=68.88  Aligned_cols=23  Identities=39%  Similarity=0.650  Sum_probs=21.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.++|+||+|||+++..++..+
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHH
Confidence            58999999999999999999888

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.62  E-value=0.0001  Score=77.85  Aligned_cols=71  Identities=27%  Similarity=0.391  Sum_probs=47.9

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-----------------ch----hHHHHHHHHHHhhh
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-----------------LG----AQAVTKIHEIFDWA  441 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-----------------~~----~e~~~~l~~lf~~A  441 (466)
                      ++..++|+|+||+|||+++..||..+   |..+..++++..-+                 ++    .+....+...++.+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~  173 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF  173 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHh
Confidence            45679999999999999999999877   56677776655321                 11    11122234444444


Q ss_pred             hhccCceEEEeccccccc
Q 012305          442 KKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       442 ~~~~~~~iLflDEid~l~  459 (466)
                      ..   ..+||||..+.+.
T Consensus       174 ~~---~DvVIIDTAGr~~  188 (437)
T PRK00771        174 KK---ADVIIVDTAGRHA  188 (437)
T ss_pred             hc---CCEEEEECCCccc
Confidence            32   4899999998765

>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=97.61  E-value=5.9e-05  Score=69.73  Aligned_cols=31  Identities=35%  Similarity=0.370  Sum_probs=23.6

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      +|++||||||||+++..++...   |.+++.++.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~   35 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL   35 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence            7899999999999998886654   555555443

A related protein is found in archaea.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.60  E-value=5.3e-05  Score=81.55  Aligned_cols=64  Identities=13%  Similarity=0.129  Sum_probs=45.0

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-CCcchhhcC
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-GLDYAMMTG  420 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-~~~~~~v~~  420 (466)
                      ..|+|++|.++.+++|-..+.........  .-+.++|+||||+|||+|++.|++.+ .++++.+.+
T Consensus        73 ~fF~d~yGlee~ieriv~~l~~Aa~gl~~--~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~kg  137 (644)
T PRK15455         73 PAFEEFYGMEEAIEQIVSYFRHAAQGLEE--KKQILYLLGPVGGGKSSLAERLKSLMERVPIYVLKA  137 (644)
T ss_pred             cchhcccCcHHHHHHHHHHHHHHHHhcCC--CCceEEEecCCCCCchHHHHHHHHHHHhCcceeecC
Confidence            35788999999998877654322222111  22468899999999999999999988 345555444

>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=97.59  E-value=7e-05  Score=74.45  Aligned_cols=53  Identities=21%  Similarity=0.231  Sum_probs=31.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ...|.+++.+..-..+...++..+-....      ++||+||||||||++++.+-..++
T Consensus         6 ~~~~~~~~VpT~dt~r~~~ll~~l~~~~~------pvLl~G~~GtGKT~li~~~l~~l~   58 (272)
T PF12775_consen    6 EMPFNEILVPTVDTVRYSYLLDLLLSNGR------PVLLVGPSGTGKTSLIQNFLSSLD   58 (272)
T ss_dssp             -------T---HHHHHHHHHHHHHHHCTE------EEEEESSTTSSHHHHHHHHHHCST
T ss_pred             ccccceEEeCcHHHHHHHHHHHHHHHcCC------cEEEECCCCCchhHHHHhhhccCC
Confidence            34556666665555566666665544333      399999999999999988776653

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.59  E-value=8.8e-05  Score=77.28  Aligned_cols=67  Identities=19%  Similarity=0.303  Sum_probs=39.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      .|+++.||||||||+++.+|+...    +..+|+-+.  ....+..+..  .........++|+|||+..+.-++
T Consensus       210 ~Nli~lGp~GTGKThla~~l~~~~----a~~sG~f~T--~a~Lf~~L~~--~~lg~v~~~DlLI~DEvgylp~~~  276 (449)
T TIGR02688       210 YNLIELGPKGTGKSYIYNNLSPYV----ILISGGTIT--VAKLFYNIST--RQIGLVGRWDVVAFDEVATLKFAK  276 (449)
T ss_pred             CcEEEECCCCCCHHHHHHHHhHHH----HHHcCCcCc--HHHHHHHHHH--HHHhhhccCCEEEEEcCCCCcCCc
Confidence            479999999999999999987762    122221110  1111111111  111223347899999999965443

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.57  E-value=3.8e-05  Score=69.95  Aligned_cols=31  Identities=29%  Similarity=0.519  Sum_probs=27.4

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..+|+|+||||||||++++.|+..+|.+|+.
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~~~~~d   34 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLGYDFID   34 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEE
Confidence            3579999999999999999999999887653

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=97.57  E-value=3.6e-05  Score=84.66  Aligned_cols=82  Identities=21%  Similarity=0.217  Sum_probs=54.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc----chhhcCCCccc----
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD----YAMMTGGDVAP----  425 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~----~~~v~~~~l~~----  425 (466)
                      ..-+++++|+.++...+...+..          .+|++|+||||||||+++++++..++..    ++.+.-+...+    
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            34568899999999888765432          1379999999999999999999999654    22333332222    


Q ss_pred             ---chhHHHHHHHHHHhhhhhcc
Q 012305          426 ---LGAQAVTKIHEIFDWAKKSK  445 (466)
Q Consensus       426 ---~~~e~~~~l~~lf~~A~~~~  445 (466)
                         ....+...+...|..|++..
T Consensus        84 ~~v~~~~g~~~~~~~~~~~~~~~  106 (608)
T TIGR00764        84 VEVPAGEGREIVEDYKKKAFKQP  106 (608)
T ss_pred             HHHHHhhchHHHHHHHHHhhccc
Confidence               11223445666777776533

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

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.57  E-value=6.5e-05  Score=77.66  Aligned_cols=36  Identities=28%  Similarity=0.492  Sum_probs=27.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh----C-CcchhhcCCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS----G-LDYAMMTGGDV  423 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l----~-~~~~~v~~~~l  423 (466)
                      ..++|+||||+||||++..|+..+    | ..+..++++.+
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~  178 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSY  178 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccc
Confidence            469999999999999999998764    3 34555555443

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.57  E-value=5.3e-05  Score=71.56  Aligned_cols=72  Identities=25%  Similarity=0.302  Sum_probs=40.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--ch---hHHHHHHHHHHhhhhh--------ccCceEEEe
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--LG---AQAVTKIHEIFDWAKK--------SKKGLLLFI  452 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--~~---~e~~~~l~~lf~~A~~--------~~~~~iLfl  452 (466)
                      .+++.||||||||++.+.+...+   |..++.+....-.-  +.   +-....++.++.....        ..+..+|||
T Consensus        20 ~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~~~~~~~~~~~~~~~vliV   99 (196)
T PF13604_consen   20 VSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIPNGDDEGRPELPKKDVLIV   99 (196)
T ss_dssp             EEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEECCEECCSSCC-TSTSEEEE
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCCcccccccccCCcccEEEE
Confidence            47889999999999999987666   44444443221110  00   0011234444433222        234589999


Q ss_pred             cccccccc
Q 012305          453 DEADAFLC  460 (466)
Q Consensus       453 DEid~l~~  460 (466)
                      ||+..+..
T Consensus       100 DEasmv~~  107 (196)
T PF13604_consen  100 DEASMVDS  107 (196)
T ss_dssp             SSGGG-BH
T ss_pred             ecccccCH
Confidence            99988753

>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=97.56  E-value=0.00013  Score=70.68  Aligned_cols=88  Identities=23%  Similarity=0.312  Sum_probs=55.6

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHH
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIF  438 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf  438 (466)
                      .+|..|-..+....+...+...       .+-.++||+|||||.+++.||..+|..++.++|++-.+.     ..+..+|
T Consensus        11 rlv~Tplt~r~~~~l~~al~~~-------~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~-----~~l~ril   78 (231)
T PF12774_consen   11 RLVITPLTDRCFLTLTQALSLN-------LGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDY-----QSLSRIL   78 (231)
T ss_dssp             -----HHHHHHHHHHHHHHCTT-------TEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-H-----HHHHHHH
T ss_pred             CceechHHHHHHHHHHHHhccC-------CCCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccccH-----HHHHHHH
Confidence            3555555555555555554321       235679999999999999999999999999999875432     2344455


Q ss_pred             hhhhhccCceEEEecccccccc
Q 012305          439 DWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       439 ~~A~~~~~~~iLflDEid~l~~  460 (466)
                      ..+-..  |.-+.+||++.|..
T Consensus        79 ~G~~~~--GaW~cfdefnrl~~   98 (231)
T PF12774_consen   79 KGLAQS--GAWLCFDEFNRLSE   98 (231)
T ss_dssp             HHHHHH--T-EEEEETCCCSSH
T ss_pred             HHHhhc--CchhhhhhhhhhhH
Confidence            444332  67899999998753

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.54  E-value=7.4e-05  Score=75.99  Aligned_cols=79  Identities=16%  Similarity=0.221  Sum_probs=48.5

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCc--c-----------hhhc---CCCcccch---h--HHHHHHHHHHhhhhh--
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLD--Y-----------AMMT---GGDVAPLG---A--QAVTKIHEIFDWAKK--  443 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~--~-----------~~v~---~~~l~~~~---~--e~~~~l~~lf~~A~~--  443 (466)
                      +..+||+||+|+||+++|+.+|..+-..  .           -.+.   -+|+....   +  -.+..++.+.+.+..  
T Consensus        24 ~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~id~iR~l~~~~~~~~  103 (325)
T PRK06871         24 HHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGVDQVREINEKVSQHA  103 (325)
T ss_pred             ceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCHHHHHHHHHHHhhcc
Confidence            3469999999999999999999888221  0           0111   12221111   1  124455555554432  


Q ss_pred             -ccCceEEEeccccccccccCCC
Q 012305          444 -SKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       444 -~~~~~iLflDEid~l~~~r~~~  465 (466)
                       .++..|+|||++|.|...-.|+
T Consensus       104 ~~g~~KV~iI~~a~~m~~~AaNa  126 (325)
T PRK06871        104 QQGGNKVVYIQGAERLTEAAANA  126 (325)
T ss_pred             ccCCceEEEEechhhhCHHHHHH
Confidence             3446899999999998655443

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.54  E-value=6.9e-05  Score=77.98  Aligned_cols=70  Identities=21%  Similarity=0.260  Sum_probs=45.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh-------CCcchhhcCCCccc-----------------chhHHHHHHHHHHhhhhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS-------GLDYAMMTGGDVAP-----------------LGAQAVTKIHEIFDWAKK  443 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l-------~~~~~~v~~~~l~~-----------------~~~e~~~~l~~lf~~A~~  443 (466)
                      ..++|+||+|+||||++..||..+       |..+..++++..-.                 ........+...+..   
T Consensus       175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~---  251 (388)
T PRK12723        175 RVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQ---  251 (388)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHH---
Confidence            469999999999999999998765       35666666554210                 001112223333322   


Q ss_pred             ccCceEEEecccccccc
Q 012305          444 SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~  460 (466)
                      ....++||||+++.+..
T Consensus       252 ~~~~DlVLIDTaGr~~~  268 (388)
T PRK12723        252 SKDFDLVLVDTIGKSPK  268 (388)
T ss_pred             hCCCCEEEEcCCCCCcc
Confidence            34478999999998764

>PF13479 AAA_24: AAA domain

Probab=97.53  E-value=6e-05  Score=72.13  Aligned_cols=66  Identities=24%  Similarity=0.331  Sum_probs=41.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch-hhcCC--------CcccchhHHHHHHHHHHhhhh-hccCceEEEecccccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA-MMTGG--------DVAPLGAQAVTKIHEIFDWAK-KSKKGLLLFIDEADAF  458 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~-~v~~~--------~l~~~~~e~~~~l~~lf~~A~-~~~~~~iLflDEid~l  458 (466)
                      .+|||||||+|||+++..+    +.+++ -+..+        +.......+...+...+.++. ....+.+|+||-++.|
T Consensus         5 ~~lIyG~~G~GKTt~a~~~----~k~l~id~E~g~~~~~~~~~~~~i~i~s~~~~~~~~~~l~~~~~~y~tiVIDsis~~   80 (213)
T PF13479_consen    5 KILIYGPPGSGKTTLAASL----PKPLFIDTENGSDSLKFLDDGDVIPITSWEDFLEALDELEEDEADYDTIVIDSISWL   80 (213)
T ss_pred             EEEEECCCCCCHHHHHHhC----CCeEEEEeCCCccchhhhcCCCeeCcCCHHHHHHHHHHHHhccCCCCEEEEECHHHH
Confidence            5999999999999999888    32221 11112        111122234556667666642 2356899999998876

>PRK08118 topology modulation protein; Reviewed

Probab=97.50  E-value=5.3e-05  Score=69.74  Aligned_cols=31  Identities=23%  Similarity=0.529  Sum_probs=28.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      .|+++||||+||||+|+.|+..++.+++.++
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD   33 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLD   33 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecc
Confidence            5899999999999999999999998876665

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.50  E-value=0.00023  Score=73.83  Aligned_cols=73  Identities=16%  Similarity=0.265  Sum_probs=47.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcc--c---------------chhHHHHHHHHHHhhhhhccCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVA--P---------------LGAQAVTKIHEIFDWAKKSKKG  447 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~--~---------------~~~e~~~~l~~lf~~A~~~~~~  447 (466)
                      +.++|+||+|+||||++..||..+   |..+..++++..-  .               ........+...+..+......
T Consensus       242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~  321 (436)
T PRK11889        242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV  321 (436)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCC
Confidence            679999999999999999998877   5566666654421  0               0011223344444444432236


Q ss_pred             eEEEecccccccc
Q 012305          448 LLLFIDEADAFLC  460 (466)
Q Consensus       448 ~iLflDEid~l~~  460 (466)
                      ++||||..+....
T Consensus       322 DvVLIDTaGRs~k  334 (436)
T PRK11889        322 DYILIDTAGKNYR  334 (436)
T ss_pred             CEEEEeCccccCc
Confidence            8999999988653

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=97.50  E-value=5.3e-05  Score=74.83  Aligned_cols=97  Identities=16%  Similarity=0.230  Sum_probs=55.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCccc-------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVAP-------  425 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~~-------  425 (466)
                      ..++++++..+...+.+..++.......      +++||.||||+|||++.+++...+... ...+...+...       
T Consensus       100 ~~sle~l~~~~~~~~~~~~~l~~~v~~~------~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~~~  173 (270)
T PF00437_consen  100 PFSLEDLGESGSIPEEIAEFLRSAVRGR------GNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPGPN  173 (270)
T ss_dssp             --CHCCCCHTHHCHHHHHHHHHHCHHTT------EEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SCSS
T ss_pred             cccHhhccCchhhHHHHHHHHhhccccc------eEEEEECCCccccchHHHHHhhhccccccceEEeccccceeecccc
Confidence            3356677665555555555544332222      369999999999999999999888443 22222222111       


Q ss_pred             ---chh-HHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305          426 ---LGA-QAVTKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       426 ---~~~-e~~~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                         +.. ........++..+-+.. +++|+|+||-.
T Consensus       174 ~~~~~~~~~~~~~~~~l~~~LR~~-pD~iiigEiR~  208 (270)
T PF00437_consen  174 QIQIQTRRDEISYEDLLKSALRQD-PDVIIIGEIRD  208 (270)
T ss_dssp             EEEEEEETTTBSHHHHHHHHTTS---SEEEESCE-S
T ss_pred             eEEEEeecCcccHHHHHHHHhcCC-CCcccccccCC
Confidence               111 12334556666666555 79999999864

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 ....

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.49  E-value=0.00011  Score=79.90  Aligned_cols=102  Identities=23%  Similarity=0.300  Sum_probs=67.5

Q ss_pred             eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcccc-----
Q 012305          362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVAPL-----  426 (466)
Q Consensus       362 g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~~~-----  426 (466)
                      ..+.....|..++...-.....   ...+++.|-||||||.+++.+-..+          ..+|+.|||-.+...     
T Consensus       400 cRe~E~~~I~~f~~~~i~~~~~---g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~  476 (767)
T KOG1514|consen  400 CRENEFSEIEDFLRSFISDQGL---GSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYE  476 (767)
T ss_pred             chhHHHHHHHHHHHhhcCCCCC---ceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHH
Confidence            3444555555555544333221   1368999999999999999998766          457888888766431     


Q ss_pred             ------------hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCCCC
Q 012305          427 ------------GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI  466 (466)
Q Consensus       427 ------------~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~l  466 (466)
                                  ...+...+..-|......++.+||+|||.|.|....|++|
T Consensus       477 ~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVl  528 (767)
T KOG1514|consen  477 KIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVL  528 (767)
T ss_pred             HHHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHH
Confidence                        1122344556666444456679999999999988776653

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

Probab=97.48  E-value=0.00014  Score=71.44  Aligned_cols=25  Identities=32%  Similarity=0.417  Sum_probs=22.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      .++|+||+|||||++++.|++....
T Consensus        18 r~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          18 RGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcccc
Confidence            5999999999999999999988743

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.

>PRK13947 shikimate kinase; Provisional

Probab=97.40  E-value=8.1e-05  Score=68.08  Aligned_cols=30  Identities=30%  Similarity=0.491  Sum_probs=27.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +|+|.|+||||||++++.||..+|.+|+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~   32 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDT   32 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            699999999999999999999999887543

>PRK00625 shikimate kinase; Provisional

Probab=97.40  E-value=8e-05  Score=69.05  Aligned_cols=31  Identities=23%  Similarity=0.400  Sum_probs=27.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      +|+|+|+||+|||++++.|+..+|++|+.++
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D   32 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTD   32 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence            5899999999999999999999998875543

>PF05729 NACHT: NACHT domain

Probab=97.39  E-value=0.00014  Score=65.31  Aligned_cols=23  Identities=30%  Similarity=0.639  Sum_probs=21.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -++|+|+||+|||++++.++..+
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~   24 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQL   24 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHH
Confidence            48899999999999999998877

>PHA02624 large T antigen; Provisional

Probab=97.39  E-value=0.00016  Score=78.30  Aligned_cols=35  Identities=29%  Similarity=0.338  Sum_probs=30.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~  422 (466)
                      +.+|||||||||||+|+.+|.+.+|..++.||++.
T Consensus       432 ~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt  466 (647)
T PHA02624        432 RYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPP  466 (647)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCc
Confidence            47999999999999999999999966666677654

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.39  E-value=0.00013  Score=74.41  Aligned_cols=77  Identities=21%  Similarity=0.170  Sum_probs=48.3

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCcch---hhcC--------------CCcccchh-------------HHHHHHHH
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLDYA---MMTG--------------GDVAPLGA-------------QAVTKIHE  436 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~---~v~~--------------~~l~~~~~-------------e~~~~l~~  436 (466)
                      +..+||+||+|+|||++|+.+|+.+...--   ...|              +|+..+..             -.+..++.
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR~  100 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVRE  100 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHHH
Confidence            346999999999999999999998732100   0011              22211111             13456677


Q ss_pred             HHhhhhh---ccCceEEEeccccccccccC
Q 012305          437 IFDWAKK---SKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       437 lf~~A~~---~~~~~iLflDEid~l~~~r~  463 (466)
                      +.+.+..   .++..|+|||+++.|.....
T Consensus       101 l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~  130 (325)
T PRK08699        101 IIDNVYLTSVRGGLRVILIHPAESMNLQAA  130 (325)
T ss_pred             HHHHHhhCcccCCceEEEEechhhCCHHHH
Confidence            7666653   23457999999999875443

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.38  E-value=0.00016  Score=67.61  Aligned_cols=24  Identities=29%  Similarity=0.470  Sum_probs=22.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+++|.||+|+|||++.++|+...
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            359999999999999999999877

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.38  E-value=0.00025  Score=67.12  Aligned_cols=35  Identities=29%  Similarity=0.500  Sum_probs=27.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~  422 (466)
                      .-++|+||||||||+++..++...   |..++.+++..
T Consensus        13 ~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~   50 (209)
T TIGR02237        13 TITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG   50 (209)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence            458899999999999999987654   55677777654

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

>PRK03839 putative kinase; Provisional

Probab=97.38  E-value=8.8e-05  Score=68.67  Aligned_cols=30  Identities=37%  Similarity=0.648  Sum_probs=26.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .|+|.|+||+||||+++.|++.++.+|+.+
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~   31 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDL   31 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            388999999999999999999999887654

>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=97.37  E-value=7.1e-05  Score=66.04  Aligned_cols=25  Identities=36%  Similarity=0.876  Sum_probs=22.6

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      |+|+||||||||++++.++..++..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~~~   26 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLGAV   26 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHSTEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCE
Confidence            7899999999999999999988743

...

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.37  E-value=9.8e-05  Score=66.08  Aligned_cols=31  Identities=45%  Similarity=0.862  Sum_probs=28.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      |+|++|-||||||+++..||..+|..|+.++
T Consensus         9 NILvtGTPG~GKstl~~~lae~~~~~~i~is   39 (176)
T KOG3347|consen    9 NILVTGTPGTGKSTLAERLAEKTGLEYIEIS   39 (176)
T ss_pred             CEEEeCCCCCCchhHHHHHHHHhCCceEehh
Confidence            8999999999999999999999998876653

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.36  E-value=0.00013  Score=74.72  Aligned_cols=26  Identities=27%  Similarity=0.346  Sum_probs=23.3

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+..+||+||+|+||+++|+.+|..+
T Consensus        20 l~ha~Lf~Gp~G~GK~~lA~~~A~~L   45 (342)
T PRK06964         20 LPHALLLHGQAGIGKLDFAQHLAQGL   45 (342)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHH
Confidence            33579999999999999999999888

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.34  E-value=0.00044  Score=68.73  Aligned_cols=37  Identities=30%  Similarity=0.423  Sum_probs=29.3

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD  422 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~  422 (466)
                      +++.++|+||||+|||+++..||..+   |..+..++++.
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~  110 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDT  110 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCC
Confidence            34678899999999999999998777   66666666553

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.34  E-value=0.0004  Score=73.04  Aligned_cols=74  Identities=19%  Similarity=0.252  Sum_probs=48.7

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-----------------ch----hHHHHHHHHHHhhh
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-----------------LG----AQAVTKIHEIFDWA  441 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-----------------~~----~e~~~~l~~lf~~A  441 (466)
                      ++..++|+||+|+||||++..||..+   |..++.++++..-+                 +.    .+........+..+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~  178 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKF  178 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHH
Confidence            34678999999999999999999877   67777777754311                 10    11112223344444


Q ss_pred             hhccCceEEEecccccccc
Q 012305          442 KKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       442 ~~~~~~~iLflDEid~l~~  460 (466)
                      +..+ +++||||-.+.+..
T Consensus       179 ~~~~-~DvViIDTaGr~~~  196 (429)
T TIGR01425       179 KKEN-FDIIIVDTSGRHKQ  196 (429)
T ss_pred             HhCC-CCEEEEECCCCCcc
Confidence            4333 78999999887643

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.

>PRK04132 replication factor C small subunit; Provisional

Probab=97.34  E-value=0.00011  Score=83.05  Aligned_cols=75  Identities=25%  Similarity=0.289  Sum_probs=52.3

Q ss_pred             ccccccccC--CCCCCchHHHHHHHHhh-----CCcchhhcCCCcccchhHHHHHHHHHHhhhhhc-----cCceEEEec
Q 012305          386 PFRNMLFYG--PPGTGKTMVAREIARKS-----GLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKS-----KKGLLLFID  453 (466)
Q Consensus       386 p~~~vLl~G--ppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~-----~~~~iLflD  453 (466)
                      |.-+-++.|  |++.||||+|++||+.+     +.+|+.+|+++..  +.   ..++.++..+...     .++.|+|||
T Consensus       563 ~~~~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~r--gi---d~IR~iIk~~a~~~~~~~~~~KVvIID  637 (846)
T PRK04132        563 PGYHNFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDER--GI---NVIREKVKEFARTKPIGGASFKIIFLD  637 (846)
T ss_pred             CchhhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcc--cH---HHHHHHHHHHHhcCCcCCCCCEEEEEE
Confidence            333567779  99999999999999998     5579999998742  22   2344444332211     124799999


Q ss_pred             cccccccccCCC
Q 012305          454 EADAFLCDNQDF  465 (466)
Q Consensus       454 Eid~l~~~r~~~  465 (466)
                      |+|.|....++.
T Consensus       638 EaD~Lt~~AQnA  649 (846)
T PRK04132        638 EADALTQDAQQA  649 (846)
T ss_pred             CcccCCHHHHHH
Confidence            999998766553

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

Probab=97.34  E-value=5e-05  Score=69.72  Aligned_cols=47  Identities=26%  Similarity=0.409  Sum_probs=27.9

Q ss_pred             eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +||.++..+.+...+. ...    ....++++|+||||||||++.+.+...+
T Consensus         2 fvgR~~e~~~l~~~l~-~~~----~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    2 FVGREEEIERLRDLLD-AAQ----SGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             -TT-HHHHHHHHHTTG-GTS----S-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH-HHH----cCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4666766666666543 111    2223689999999999999999887766

>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=97.33  E-value=0.00011  Score=65.67  Aligned_cols=29  Identities=38%  Similarity=0.614  Sum_probs=25.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      +|+|+||||+|||++++.|+..+|.+++.
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~~~   29 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVD   29 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCEEE
Confidence            48999999999999999999999887653

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.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=97.33  E-value=0.0003  Score=63.40  Aligned_cols=32  Identities=28%  Similarity=0.536  Sum_probs=26.4

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      ++|+|+||+|||++++.|+..+   +.+++.+++.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~d   36 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGD   36 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCH
Confidence            6899999999999999999988   5555555543

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.32  E-value=0.00017  Score=73.87  Aligned_cols=79  Identities=14%  Similarity=0.129  Sum_probs=48.8

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCC--cc--------------hhhcCCCcccc---hh---HHHHHHHHHHhhhhh-
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGL--DY--------------AMMTGGDVAPL---GA---QAVTKIHEIFDWAKK-  443 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~--~~--------------~~v~~~~l~~~---~~---e~~~~l~~lf~~A~~-  443 (466)
                      +..+||+||+|+||+++|..+|..+-.  +-              ..-+-+|+...   +.   -++..++.+.+.+.. 
T Consensus        24 ~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~  103 (334)
T PRK07993         24 HHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYEH  103 (334)
T ss_pred             ceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHhhc
Confidence            346999999999999999999988821  00              00111222111   11   124455555554432 


Q ss_pred             --ccCceEEEeccccccccccCCC
Q 012305          444 --SKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       444 --~~~~~iLflDEid~l~~~r~~~  465 (466)
                        .+.+.|+|||++|.|...-.|.
T Consensus       104 ~~~g~~kV~iI~~ae~m~~~AaNa  127 (334)
T PRK07993        104 ARLGGAKVVWLPDAALLTDAAANA  127 (334)
T ss_pred             cccCCceEEEEcchHhhCHHHHHH
Confidence              3446899999999998655443

>PRK14532 adenylate kinase; Provisional

Probab=97.30  E-value=0.00012  Score=68.28  Aligned_cols=28  Identities=29%  Similarity=0.707  Sum_probs=25.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      +++|+|||||||||+++.|+..+|..++
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~i   29 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQL   29 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEE
Confidence            4899999999999999999999987654

>PRK13949 shikimate kinase; Provisional

Probab=97.30  E-value=0.00013  Score=67.29  Aligned_cols=32  Identities=28%  Similarity=0.566  Sum_probs=27.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      ++|+|+||||+|||++++.||..++.+|+.++
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~~~~id~D   33 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELGLSFIDLD   33 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence            36999999999999999999999988766544

>PRK04296 thymidine kinase; Provisional

Probab=97.29  E-value=0.00025  Score=66.66  Aligned_cols=69  Identities=26%  Similarity=0.392  Sum_probs=40.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcCC-C-------cc-cchh--HH--HHHHHHHHhhhhh-ccCceEEEe
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG-D-------VA-PLGA--QA--VTKIHEIFDWAKK-SKKGLLLFI  452 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~-~-------l~-~~~~--e~--~~~l~~lf~~A~~-~~~~~iLfl  452 (466)
                      .|++||||+|||+++..++..+   |..++.+... +       +. .++.  ..  ......++..+.. .+...+|+|
T Consensus         5 ~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~dvviI   84 (190)
T PRK04296          5 EFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEEEGEKIDCVLI   84 (190)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHhhCCCCCEEEE
Confidence            6889999999999988887665   5555555331 1       00 0111  00  1122333433321 234689999


Q ss_pred             cccccc
Q 012305          453 DEADAF  458 (466)
Q Consensus       453 DEid~l  458 (466)
                      ||+..|
T Consensus        85 DEaq~l   90 (190)
T PRK04296         85 DEAQFL   90 (190)
T ss_pred             EccccC
Confidence            999765

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.29  E-value=0.0002  Score=61.23  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=19.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +++++||||+|||+++-.++..+
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~   24 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILEL   24 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHH
Confidence            68999999999999888776655

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=97.29  E-value=0.00022  Score=70.55  Aligned_cols=92  Identities=20%  Similarity=0.322  Sum_probs=71.1

Q ss_pred             ccCccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcc
Q 012305          347 TAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVA  424 (466)
Q Consensus       347 ~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~  424 (466)
                      +.....+.+.-+.+||+-.+.+...-++..+...+-.+   +.+|+.|+||||||.+|-.++..+|  .||..+.|+.+.
T Consensus        29 ldd~le~~~~s~GmVGQ~~AR~Aagvi~kmi~egkiaG---raiLiaG~pgtGKtAiAmg~sksLG~~tpF~~i~gSEI~  105 (454)
T KOG2680|consen   29 LDDVLEPRYVSEGMVGQVKARKAAGVILKMIREGKIAG---RAILIAGQPGTGKTAIAMGMSKSLGDDTPFTSISGSEIY  105 (454)
T ss_pred             CCcccCcccccccchhhHHHHHHhHHHHHHHHcCcccc---eEEEEecCCCCCceeeeeehhhhhCCCCceeeeecceee
Confidence            33445566666889999888888777776666655333   4599999999999999999999996  589999999998


Q ss_pred             cchhHHHHHHHHHHhhh
Q 012305          425 PLGAQAVTKIHEIFDWA  441 (466)
Q Consensus       425 ~~~~e~~~~l~~lf~~A  441 (466)
                      .+....-..+.+.|..+
T Consensus       106 SlEmsKTEAltQAfRks  122 (454)
T KOG2680|consen  106 SLEMSKTEALTQAFRKS  122 (454)
T ss_pred             eecccHHHHHHHHHHHh
Confidence            77766666677777643

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.28  E-value=0.00027  Score=67.69  Aligned_cols=72  Identities=25%  Similarity=0.350  Sum_probs=44.9

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh--C------Ccchhhc------CCCcc--cch-------hHHHHHHHHHHhhhhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS--G------LDYAMMT------GGDVA--PLG-------AQAVTKIHEIFDWAKK  443 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l--~------~~~~~v~------~~~l~--~~~-------~e~~~~l~~lf~~A~~  443 (466)
                      +.|.||.|||||||||+.+-||+.+  |      ..++.++      +.+.+  ..+       .+...+-.+++...+.
T Consensus       137 ~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~~gmmmaIrs  216 (308)
T COG3854         137 WLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKAEGMMMAIRS  216 (308)
T ss_pred             ceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHHHHHHHHHHh
Confidence            3479999999999999999998877  2      2333333      11111  011       1112233455555665


Q ss_pred             ccCceEEEeccccccc
Q 012305          444 SKKGLLLFIDEADAFL  459 (466)
Q Consensus       444 ~~~~~iLflDEid~l~  459 (466)
                      .. +.|+++|||+...
T Consensus       217 m~-PEViIvDEIGt~~  231 (308)
T COG3854         217 MS-PEVIIVDEIGTEE  231 (308)
T ss_pred             cC-CcEEEEeccccHH
Confidence            55 7899999998753

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.27  E-value=0.00022  Score=72.36  Aligned_cols=77  Identities=21%  Similarity=0.272  Sum_probs=48.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCc---------ch-hhcC---CCcccc------hh------HHHHHHHHHHhhhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLD---------YA-MMTG---GDVAPL------GA------QAVTKIHEIFDWAK  442 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~---------~~-~v~~---~~l~~~------~~------e~~~~l~~lf~~A~  442 (466)
                      ..+||+||+|+||+++|..+|..+-..         .+ .+..   +|+-.+      .+      -.+..++.+.+.+.
T Consensus        27 HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~~~  106 (319)
T PRK08769         27 HGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLA  106 (319)
T ss_pred             eeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHHHh
Confidence            459999999999999999999887211         11 1211   222111      00      12455666666554


Q ss_pred             h---ccCceEEEeccccccccccCC
Q 012305          443 K---SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       443 ~---~~~~~iLflDEid~l~~~r~~  464 (466)
                      .   .+.+.|+|||++|.|...-.|
T Consensus       107 ~~p~~g~~kV~iI~~ae~m~~~AaN  131 (319)
T PRK08769        107 LTPQYGIAQVVIVDPADAINRAACN  131 (319)
T ss_pred             hCcccCCcEEEEeccHhhhCHHHHH
Confidence            3   233589999999999765544

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.27  E-value=0.00015  Score=66.90  Aligned_cols=33  Identities=18%  Similarity=0.291  Sum_probs=27.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~  420 (466)
                      +.++|.|+||+|||++++.|+..++.+++.++.
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~~~   35 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLAEPWLHFGV   35 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCCCccccCc
Confidence            358899999999999999999998776655443

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.26  E-value=0.0006  Score=69.32  Aligned_cols=72  Identities=25%  Similarity=0.276  Sum_probs=44.8

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWAK  442 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A~  442 (466)
                      +..++|+||||+||||++..||..+   |..+..++++....                     .+..........+..+.
T Consensus       114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~~  193 (318)
T PRK10416        114 PFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAAK  193 (318)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHHH
Confidence            3568899999999999999998877   55666555543210                     00011112223333333


Q ss_pred             hccCceEEEeccccccc
Q 012305          443 KSKKGLLLFIDEADAFL  459 (466)
Q Consensus       443 ~~~~~~iLflDEid~l~  459 (466)
                      . ..+++||||-.+.+.
T Consensus       194 ~-~~~D~ViIDTaGr~~  209 (318)
T PRK10416        194 A-RGIDVLIIDTAGRLH  209 (318)
T ss_pred             h-CCCCEEEEeCCCCCc
Confidence            3 337899999988765

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.25  E-value=0.00028  Score=66.74  Aligned_cols=24  Identities=25%  Similarity=0.418  Sum_probs=21.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .++|+||||+||||++.++...+.
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            488999999999999999988774

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=97.25  E-value=0.00057  Score=72.12  Aligned_cols=73  Identities=21%  Similarity=0.291  Sum_probs=48.2

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCccc-----------------c----hhHHHHHHHHHHhh
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAP-----------------L----GAQAVTKIHEIFDW  440 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~-----------------~----~~e~~~~l~~lf~~  440 (466)
                      ++..++|+||||+||||++..||..+    |..++.++|+..-+                 +    +.+........+.+
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~  178 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEE  178 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHH
Confidence            45678999999999999888888765    56677777764321                 0    01112223345555


Q ss_pred             hhhccCceEEEeccccccc
Q 012305          441 AKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       441 A~~~~~~~iLflDEid~l~  459 (466)
                      +.... +++||||-.+.+.
T Consensus       179 a~~~~-~DvVIIDTaGrl~  196 (433)
T PRK10867        179 AKENG-YDVVIVDTAGRLH  196 (433)
T ss_pred             HHhcC-CCEEEEeCCCCcc
Confidence            55433 7899999998764

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.25  E-value=0.00015  Score=66.54  Aligned_cols=30  Identities=27%  Similarity=0.463  Sum_probs=27.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      .++++|.||||||++++.|. .+|++++.++
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~lg~~~i~l~   31 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-ELGYKVIELN   31 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-HhCCceeeHH
Confidence            47899999999999999999 9998887776

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.25  E-value=0.00015  Score=67.09  Aligned_cols=26  Identities=27%  Similarity=0.526  Sum_probs=23.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      |+|+||||+||||+|+.|+..+|..+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~   27 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTH   27 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE
Confidence            68999999999999999999997543

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.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.24  E-value=0.00017  Score=65.54  Aligned_cols=28  Identities=46%  Similarity=0.714  Sum_probs=25.1

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      +-+.|||||||||+++.||.++|++++.
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vs   30 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVS   30 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceee
Confidence            5678999999999999999999988654

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=97.23  E-value=0.00026  Score=71.99  Aligned_cols=69  Identities=14%  Similarity=0.231  Sum_probs=42.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh-----CCcchhh------cC--CCcccchhHHHHHHHHHHhhhhhccCceEEEecc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS-----GLDYAMM------TG--GDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDE  454 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v------~~--~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDE  454 (466)
                      .+++++|+||+|||+++++|+...     +..++.+      .+  .....+.....-.+..++..+-+.+ ++.||+.|
T Consensus       149 ~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El~~~~~~~v~~~~~~~~~~~~ll~~aLR~~-PD~IivGE  227 (319)
T PRK13894        149 RNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYVQYHTSIDVNMTALLKTTLRMR-PDRILVGE  227 (319)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCccccCCCCEEEEecCCCCCHHHHHHHHhcCC-CCEEEEec
Confidence            469999999999999999998763     1112211      11  0111111111223566777777666 78999999


Q ss_pred             ccc
Q 012305          455 ADA  457 (466)
Q Consensus       455 id~  457 (466)
                      |-.
T Consensus       228 iR~  230 (319)
T PRK13894        228 VRG  230 (319)
T ss_pred             cCC
Confidence            853

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=97.22  E-value=0.00023  Score=72.37  Aligned_cols=66  Identities=17%  Similarity=0.268  Sum_probs=41.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC-----CcchhhcCCCcc----------cchhHHHHHHHHHHhhhhhccCceEEEe
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG-----LDYAMMTGGDVA----------PLGAQAVTKIHEIFDWAKKSKKGLLLFI  452 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~~~~l~----------~~~~e~~~~l~~lf~~A~~~~~~~iLfl  452 (466)
                      .|+|++|+||+|||++.++|.....     ..++.+  .+..          .+.....-....++..+-+.+ ++.||+
T Consensus       145 ~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivti--Ed~~El~~~~~n~v~l~~~~~~~~~~lv~~aLR~~-PD~Iiv  221 (323)
T PRK13833        145 LNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVIL--EDTAEIQCAAENAVALHTSDTVDMARLLKSTMRLR-PDRIIV  221 (323)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEe--cCCcccccCCCCEEEeccCCCcCHHHHHHHHhCCC-CCEEEE
Confidence            3699999999999999999988752     222221  1111          011111223566666666555 789999


Q ss_pred             cccc
Q 012305          453 DEAD  456 (466)
Q Consensus       453 DEid  456 (466)
                      .||-
T Consensus       222 GEiR  225 (323)
T PRK13833        222 GEVR  225 (323)
T ss_pred             eecC
Confidence            9883

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.21  E-value=0.0005  Score=63.12  Aligned_cols=34  Identities=26%  Similarity=0.382  Sum_probs=27.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      ++|+||||+|||+++..++..+   |..++.++++..
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~   39 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTY   39 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Confidence            6889999999999999998776   566666666543

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.

>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=97.21  E-value=0.00091  Score=66.34  Aligned_cols=92  Identities=13%  Similarity=0.188  Sum_probs=61.2

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHH
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEI  437 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~l  437 (466)
                      .++|.-+++.+.|..+.+.+..+.      .|+||.|.+||||+++++..+...++.++.+.... .+...+-...++.+
T Consensus         8 m~lVlf~~ai~hi~ri~RvL~~~~------Gh~LLvG~~GsGr~sl~rLaa~i~~~~~~~i~~~~-~y~~~~f~~dLk~~   80 (268)
T PF12780_consen    8 MNLVLFDEAIEHIARISRVLSQPR------GHALLVGVGGSGRQSLARLAAFICGYEVFQIEITK-GYSIKDFKEDLKKA   80 (268)
T ss_dssp             ------HHHHHHHHHHHHHHCSTT------EEEEEECTTTSCHHHHHHHHHHHTTEEEE-TTTST-TTHHHHHHHHHHHH
T ss_pred             cceeeHHHHHHHHHHHHHHHcCCC------CCeEEecCCCccHHHHHHHHHHHhccceEEEEeeC-CcCHHHHHHHHHHH
Confidence            568888999999998877775544      46999999999999999988888898888777543 12222223567777


Q ss_pred             HhhhhhccCceEEEecccc
Q 012305          438 FDWAKKSKKGLLLFIDEAD  456 (466)
Q Consensus       438 f~~A~~~~~~~iLflDEid  456 (466)
                      +..+--.+.+.+++|+|-+
T Consensus        81 ~~~ag~~~~~~vfll~d~q   99 (268)
T PF12780_consen   81 LQKAGIKGKPTVFLLTDSQ   99 (268)
T ss_dssp             HHHHHCS-S-EEEEEECCC
T ss_pred             HHHHhccCCCeEEEecCcc
Confidence            7766655557788887643

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.

>PRK07261 topology modulation protein; Provisional

Probab=97.20  E-value=0.00019  Score=66.31  Aligned_cols=31  Identities=19%  Similarity=0.396  Sum_probs=27.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      .++|+|+||+||||+|+.|+..++.+++.++
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D   32 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLD   32 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecC
Confidence            3889999999999999999999988766554

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.20  E-value=0.00023  Score=71.78  Aligned_cols=69  Identities=16%  Similarity=0.290  Sum_probs=43.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC-----Ccchhhc--------CCCcccch-hHHHHHHHHHHhhhhhccCceEEEec
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG-----LDYAMMT--------GGDVAPLG-AQAVTKIHEIFDWAKKSKKGLLLFID  453 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~--------~~~l~~~~-~e~~~~l~~lf~~A~~~~~~~iLflD  453 (466)
                      +++|++||+|+|||+++++|.....     ..++.+-        +.....+. ......+..++..+-+.+ ++.|++.
T Consensus       133 ~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v~~~~~~~~~~~~~~l~~aLR~~-pD~iivG  211 (299)
T TIGR02782       133 KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVVQLRTSDDAISMTRLLKATLRLR-PDRIIVG  211 (299)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEEEEEecCCCCCHHHHHHHHhcCC-CCEEEEe
Confidence            4699999999999999999998862     2221111        11111110 011124566777766666 7899999


Q ss_pred             cccc
Q 012305          454 EADA  457 (466)
Q Consensus       454 Eid~  457 (466)
                      ||-.
T Consensus       212 EiR~  215 (299)
T TIGR02782       212 EVRG  215 (299)
T ss_pred             ccCC
Confidence            9853

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.

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

Probab=97.19  E-value=0.00074  Score=70.54  Aligned_cols=104  Identities=17%  Similarity=0.214  Sum_probs=65.0

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC-----CcchhhcCCCcccch-----
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG-----LDYAMMTGGDVAPLG-----  427 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~~~~l~~~~-----  427 (466)
                      +.++|...-+..+..+....-..+    ..+++++.|-||||||.+...+-..++     ...+++||..+..-.     
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~~----t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~k  225 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLELN----TSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKK  225 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhcc----cCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHH
Confidence            567788777777776654433322    225799999999999998887755552     234778887653210     


Q ss_pred             -----------hHH-HHHHHHHHhhhhhccCceEEEeccccccccccCCC
Q 012305          428 -----------AQA-VTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       428 -----------~e~-~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~~  465 (466)
                                 ... ...+..+-..........||++||+|.|....+..
T Consensus       226 I~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~v  275 (529)
T KOG2227|consen  226 IFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTV  275 (529)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccce
Confidence                       000 11123333334444557899999999998655543

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.19  E-value=0.00031  Score=68.61  Aligned_cols=34  Identities=26%  Similarity=0.583  Sum_probs=27.0

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      |+|+|+||+|||++|+.|+..+   +.+++.++.+.+
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~D~l   38 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDLI   38 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEccHHH
Confidence            7899999999999999999987   456666554333

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.

>PRK14531 adenylate kinase; Provisional

Probab=97.18  E-value=0.0002  Score=66.66  Aligned_cols=28  Identities=39%  Similarity=0.725  Sum_probs=25.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .++|+||||+|||++++.|+..+|.+++
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~g~~~i   31 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAHGLRHL   31 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeE
Confidence            5999999999999999999999986543

>PRK13948 shikimate kinase; Provisional

Probab=97.18  E-value=0.00022  Score=66.71  Aligned_cols=34  Identities=26%  Similarity=0.359  Sum_probs=29.9

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      ++.+|+|.|++|||||++++.|+..+|.+|+..+
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D   42 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALMLHFIDTD   42 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence            4578999999999999999999999998877543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.18  E-value=0.00069  Score=70.02  Aligned_cols=74  Identities=15%  Similarity=0.176  Sum_probs=47.7

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-----------------chhHHHHHHHHHHhhhhhcc
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-----------------LGAQAVTKIHEIFDWAKKSK  445 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-----------------~~~e~~~~l~~lf~~A~~~~  445 (466)
                      +.+.++|+||+|+|||+++..||..+   |..+..++++..-.                 ........+...+..+....
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~  284 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYVN  284 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcC
Confidence            34678999999999999999998766   56666666554311                 11112233444444443223


Q ss_pred             CceEEEeccccccc
Q 012305          446 KGLLLFIDEADAFL  459 (466)
Q Consensus       446 ~~~iLflDEid~l~  459 (466)
                      ..++||||-++...
T Consensus       285 ~~D~VLIDTAGr~~  298 (407)
T PRK12726        285 CVDHILIDTVGRNY  298 (407)
T ss_pred             CCCEEEEECCCCCc
Confidence            36899999988754

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=97.17  E-value=0.00019  Score=74.18  Aligned_cols=50  Identities=22%  Similarity=0.173  Sum_probs=38.8

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ...|.-+||++.++..|.-.  .      -.....++||-|+.|||||+++|+|+.-|
T Consensus        13 ~~pf~aivGqd~lk~aL~l~--a------v~P~iggvLI~G~kGtaKSt~~Rala~LL   62 (423)
T COG1239          13 NLPFTAIVGQDPLKLALGLN--A------VDPQIGGALIAGEKGTAKSTLARALADLL   62 (423)
T ss_pred             ccchhhhcCchHHHHHHhhh--h------cccccceeEEecCCCccHHHHHHHHHHhC
Confidence            34567789999998887522  1      12233589999999999999999999988

>PRK06762 hypothetical protein; Provisional

Probab=97.17  E-value=0.00013  Score=66.39  Aligned_cols=33  Identities=21%  Similarity=0.476  Sum_probs=26.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~  420 (466)
                      .-++|+|+|||||||+|+.|+..++..++.++.
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~~   35 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERLGRGTLLVSQ   35 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeEEecH
Confidence            358899999999999999999998655544443

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.17  E-value=0.00046  Score=71.46  Aligned_cols=24  Identities=33%  Similarity=0.511  Sum_probs=21.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..||+||||||||+|++.|++...
T Consensus       171 R~lIvgppGvGKTTLaK~Ian~I~  194 (416)
T PRK09376        171 RGLIVAPPKAGKTVLLQNIANSIT  194 (416)
T ss_pred             eEEEeCCCCCChhHHHHHHHHHHH
Confidence            489999999999999999988763

>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=97.16  E-value=0.00023  Score=62.96  Aligned_cols=30  Identities=40%  Similarity=0.659  Sum_probs=27.1

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      ++|.|+||||||++|+.|+..+|.+++...
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            678999999999999999999999887665

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.15  E-value=0.00038  Score=70.47  Aligned_cols=56  Identities=20%  Similarity=0.361  Sum_probs=40.3

Q ss_pred             cchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          364 PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      ++..+.+..++..+-.......|..+|+|+|+||||||++++.|+..+|.+|+.+.
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            44445555555544333333455578999999999999999999999999877543

>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=97.14  E-value=0.00022  Score=66.40  Aligned_cols=28  Identities=43%  Similarity=0.769  Sum_probs=24.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .|+|+||||+|||++++.|+..+|..++
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~~~~~~i   28 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKKYGLPHI   28 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcCCeEE
Confidence            3899999999999999999999876654

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK14530 adenylate kinase; Provisional

Probab=97.14  E-value=0.00022  Score=68.09  Aligned_cols=28  Identities=29%  Similarity=0.618  Sum_probs=25.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      +|+|.||||+||||+++.|+..+|.+++
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i   32 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFGVEHV   32 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            5899999999999999999999987765

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.13  E-value=0.00023  Score=64.59  Aligned_cols=32  Identities=28%  Similarity=0.702  Sum_probs=25.8

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV  423 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l  423 (466)
                      ++|+||||||||++++.|+..++..+  ++++++
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~--v~~D~~   32 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKF--IEGDDL   32 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeE--EeCccc
Confidence            57899999999999999999998654  344443

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.13  E-value=0.00058  Score=72.13  Aligned_cols=35  Identities=26%  Similarity=0.359  Sum_probs=27.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~  422 (466)
                      +.++|+||+|+||||++..||..+     +..+..++++.
T Consensus       222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~  261 (424)
T PRK05703        222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT  261 (424)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence            468999999999999998887654     45677777665

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.12  E-value=0.00091  Score=70.01  Aligned_cols=71  Identities=24%  Similarity=0.335  Sum_probs=45.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCccc--------------chhHHHHHHHHHHhhhhhccCceE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAP--------------LGAQAVTKIHEIFDWAKKSKKGLL  449 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~--------------~~~e~~~~l~~lf~~A~~~~~~~i  449 (466)
                      ..++|+||+|+||||++..||..+    |..+..++++....              +.......+..+.+.+.. ...++
T Consensus       224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~-~~~D~  302 (432)
T PRK12724        224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLAR-DGSEL  302 (432)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHh-CCCCE
Confidence            358899999999999999998654    55666666654211              001112224455555543 33789


Q ss_pred             EEeccccccc
Q 012305          450 LFIDEADAFL  459 (466)
Q Consensus       450 LflDEid~l~  459 (466)
                      ||||-.+...
T Consensus       303 VLIDTaGr~~  312 (432)
T PRK12724        303 ILIDTAGYSH  312 (432)
T ss_pred             EEEeCCCCCc
Confidence            9999776554

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.12  E-value=0.00044  Score=70.24  Aligned_cols=80  Identities=19%  Similarity=0.189  Sum_probs=48.7

Q ss_pred             cccccccccCCCCCCchHHHHHHHHhhCC-cc-----------hhhc---CCCcccch-----h-HHHHHHHHHHhhhhh
Q 012305          385 APFRNMLFYGPPGTGKTMVAREIARKSGL-DY-----------AMMT---GGDVAPLG-----A-QAVTKIHEIFDWAKK  443 (466)
Q Consensus       385 ~p~~~vLl~GppGTGKT~lA~alA~~l~~-~~-----------~~v~---~~~l~~~~-----~-e~~~~l~~lf~~A~~  443 (466)
                      ..+..+||+||.|+||+++|..+|..+-. ..           -.+.   -+|+-...     . -.+..++.+.+.+..
T Consensus        23 rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~vdqiR~l~~~~~~  102 (319)
T PRK06090         23 RIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITVEQIRQCNRLAQE  102 (319)
T ss_pred             CcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCHHHHHHHHHHHhh
Confidence            33457999999999999999999988721 10           0111   12221111     0 123455555554432


Q ss_pred             ---ccCceEEEeccccccccccCC
Q 012305          444 ---SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       444 ---~~~~~iLflDEid~l~~~r~~  464 (466)
                         .+.+.|++||++|.|...-.|
T Consensus       103 ~~~~~~~kV~iI~~ae~m~~~AaN  126 (319)
T PRK06090        103 SSQLNGYRLFVIEPADAMNESASN  126 (319)
T ss_pred             CcccCCceEEEecchhhhCHHHHH
Confidence               234689999999999865544

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.12  E-value=0.00036  Score=71.68  Aligned_cols=25  Identities=24%  Similarity=0.403  Sum_probs=22.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..+||+||||+||||+.+++...+.
T Consensus       123 g~ili~G~tGSGKTT~l~al~~~i~  147 (343)
T TIGR01420       123 GLILVTGPTGSGKSTTLASMIDYIN  147 (343)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhC
Confidence            4699999999999999999988764

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.

>TIGR00767 rho transcription termination factor Rho

Probab=97.11  E-value=0.00051  Score=71.36  Aligned_cols=24  Identities=33%  Similarity=0.560  Sum_probs=21.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||||||||++++.|++..
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I  192 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAI  192 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhh
Confidence            459999999999999999999976

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

>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=97.11  E-value=0.00035  Score=72.22  Aligned_cols=30  Identities=27%  Similarity=0.523  Sum_probs=26.0

Q ss_pred             ccccccccccCCCCCCchHHHHHHHHhhCC
Q 012305          384 QAPFRNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       384 ~~p~~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      ..+++|++||||+|+|||+|.-.+...+..
T Consensus        59 ~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~   88 (362)
T PF03969_consen   59 PPPPKGLYLWGPVGRGKTMLMDLFYDSLPI   88 (362)
T ss_pred             CCCCceEEEECCCCCchhHHHHHHHHhCCc
Confidence            456799999999999999999999887743

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

>PHA02774 E1; Provisional

Probab=97.11  E-value=0.00044  Score=74.57  Aligned_cols=33  Identities=24%  Similarity=0.481  Sum_probs=26.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch-hhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA-MMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~-~v~~  420 (466)
                      .+++||||||||||+|+.+|.+.++..++ .+|.
T Consensus       435 nciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~  468 (613)
T PHA02774        435 NCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNS  468 (613)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEEC
Confidence            57999999999999999999999864443 3443

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=97.11  E-value=0.00027  Score=65.10  Aligned_cols=32  Identities=25%  Similarity=0.460  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      .+++|+|++|+||||+.+.||+.++++|+-++
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D   34 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTD   34 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCcccch
Confidence            46999999999999999999999999987654

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.11  E-value=0.00025  Score=78.27  Aligned_cols=50  Identities=28%  Similarity=0.410  Sum_probs=40.9

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ++..|++|+|+.+++..|...+..-          +++||+||||||||+++++++..++
T Consensus        26 ~~~~~~~vigq~~a~~~L~~~~~~~----------~~~l~~G~~G~GKttla~~l~~~l~   75 (637)
T PRK13765         26 PERLIDQVIGQEHAVEVIKKAAKQR----------RHVMMIGSPGTGKSMLAKAMAELLP   75 (637)
T ss_pred             CcccHHHcCChHHHHHHHHHHHHhC----------CeEEEECCCCCcHHHHHHHHHHHcC
Confidence            3567889999999999887654321          3699999999999999999998874

>PRK04040 adenylate kinase; Provisional

Probab=97.10  E-value=0.00025  Score=66.67  Aligned_cols=34  Identities=32%  Similarity=0.467  Sum_probs=27.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh--CCcchhhcCCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS--GLDYAMMTGGDV  423 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l--~~~~~~v~~~~l  423 (466)
                      ..++|+|+||||||++++.|+..+  +..+  ++.+++
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~--~~~g~~   38 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLKEDYKI--VNFGDV   38 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhccCCeE--EecchH
Confidence            468999999999999999999999  4444  444553

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.10  E-value=0.00036  Score=69.25  Aligned_cols=24  Identities=42%  Similarity=0.623  Sum_probs=22.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|++|+||||+||||+.+.|+..+
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~  135 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARIL  135 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCcc
Confidence            589999999999999999999887

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.

>PRK06217 hypothetical protein; Validated

Probab=97.09  E-value=0.00026  Score=65.87  Aligned_cols=30  Identities=17%  Similarity=0.303  Sum_probs=26.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .|+|.|+||+||||+++.|+..+|.+++.+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~   32 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDT   32 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEc
Confidence            489999999999999999999998876544

>PRK14528 adenylate kinase; Provisional

Probab=97.07  E-value=0.0003  Score=65.86  Aligned_cols=29  Identities=31%  Similarity=0.700  Sum_probs=25.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ++++|.||||+|||++++.|+..+|.+++
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~~~~~i   30 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERLSIPQI   30 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCee
Confidence            35899999999999999999999886654

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.07  E-value=0.00057  Score=63.19  Aligned_cols=70  Identities=19%  Similarity=0.252  Sum_probs=44.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHH------------------HHHHHHHHhhhhhccCceEE
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA------------------VTKIHEIFDWAKKSKKGLLL  450 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~------------------~~~l~~lf~~A~~~~~~~iL  450 (466)
                      .+|++||||+|||++|..++..++.+++.+.-+.+.+.....                  ...+..++...  ...+.+|
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~~~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~--~~~~~~V   80 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGLQVLYIATAQPFDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRAD--AAPGRCV   80 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCCCcEeCcCCCCChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhh--cCCCCEE
Confidence            489999999999999999999988776666554432211100                  11233443321  1236789


Q ss_pred             Eecccccccc
Q 012305          451 FIDEADAFLC  460 (466)
Q Consensus       451 flDEid~l~~  460 (466)
                      +||-+..+..
T Consensus        81 lID~Lt~~~~   90 (170)
T PRK05800         81 LVDCLTTWVT   90 (170)
T ss_pred             EehhHHHHHH
Confidence            9998887753

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.06  E-value=0.00032  Score=74.37  Aligned_cols=64  Identities=17%  Similarity=0.318  Sum_probs=44.3

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      .+++++-.+..-+..|..++..+.. ..+..+.+-+||+||+||||||+++.|+..+|+.+..-+
T Consensus        79 ~t~eeLAVHkkKI~eVk~WL~~~~~-~~~~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~  142 (634)
T KOG1970|consen   79 RTLEELAVHKKKISEVKQWLKQVAE-FTPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWS  142 (634)
T ss_pred             ccHHHHhhhHHhHHHHHHHHHHHHH-hccCCCceEEEEeCCCCCCchhHHHHHHHhhCceeeeec
Confidence            3456676666666666655442222 222344456899999999999999999999998876544

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.04  E-value=0.00077  Score=64.65  Aligned_cols=34  Identities=29%  Similarity=0.547  Sum_probs=27.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      ..++|+||||||||+++..++...   +.+++.+++.
T Consensus        24 ~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         24 TITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            357899999999999999998655   6677777665

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.04  E-value=0.00027  Score=65.82  Aligned_cols=26  Identities=46%  Similarity=0.954  Sum_probs=23.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      .|+|.||||+||||+|+.|+..++.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~   27 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLP   27 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCc
Confidence            48999999999999999999996543

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.04  E-value=0.00031  Score=62.85  Aligned_cols=26  Identities=27%  Similarity=0.652  Sum_probs=23.2

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      ++|+|+||+|||++++.|+..++..+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~   27 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPF   27 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEE
Confidence            68999999999999999999987654

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.03  E-value=0.00048  Score=71.47  Aligned_cols=72  Identities=24%  Similarity=0.353  Sum_probs=47.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc--------hh-------HHHHHHHHHHhhhhhccCceE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL--------GA-------QAVTKIHEIFDWAKKSKKGLL  449 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~--------~~-------e~~~~l~~lf~~A~~~~~~~i  449 (466)
                      .-+||+||||+|||+|+..++...   +.+++++++.+....        +.       .....+..++..+...+ +.+
T Consensus        83 slvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~~-~~l  161 (372)
T cd01121          83 SVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIEELK-PDL  161 (372)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhcC-CcE
Confidence            458899999999999999998765   346666665432210        00       01123445555555444 789


Q ss_pred             EEecccccccc
Q 012305          450 LFIDEADAFLC  460 (466)
Q Consensus       450 LflDEid~l~~  460 (466)
                      |+||+|..|..
T Consensus       162 VVIDSIq~l~~  172 (372)
T cd01121         162 VIIDSIQTVYS  172 (372)
T ss_pred             EEEcchHHhhc
Confidence            99999988753

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.

>PRK13946 shikimate kinase; Provisional

Probab=97.02  E-value=0.00037  Score=64.99  Aligned_cols=32  Identities=31%  Similarity=0.520  Sum_probs=28.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      ++|+|.|+||||||++++.|+..+|.+|+..+
T Consensus        11 ~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D   42 (184)
T PRK13946         11 RTVVLVGLMGAGKSTVGRRLATMLGLPFLDAD   42 (184)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCeECcC
Confidence            57999999999999999999999998876543

>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=97.00  E-value=0.00084  Score=66.37  Aligned_cols=24  Identities=42%  Similarity=0.618  Sum_probs=21.7

Q ss_pred             cccccccCCCCCCchHHHHHHHHh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .+.|.|+|++|+|||++|..+++.
T Consensus        19 ~~~v~I~G~~G~GKT~LA~~~~~~   42 (287)
T PF00931_consen   19 VRVVAIVGMGGIGKTTLARQVARD   42 (287)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHCH
T ss_pred             eEEEEEEcCCcCCcceeeeecccc
Confidence            356999999999999999999987

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.

>PRK13764 ATPase; Provisional

Probab=97.00  E-value=0.00052  Score=75.04  Aligned_cols=25  Identities=32%  Similarity=0.579  Sum_probs=23.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .++|++|||||||||++++|+..+.
T Consensus       258 ~~ILIsG~TGSGKTTll~AL~~~i~  282 (602)
T PRK13764        258 EGILIAGAPGAGKSTFAQALAEFYA  282 (602)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4799999999999999999998884

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.00  E-value=0.0005  Score=71.20  Aligned_cols=24  Identities=33%  Similarity=0.588  Sum_probs=21.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++++.||.|||||++.++|...+
T Consensus        23 ~~~fv~G~~GtGKs~l~~~i~~~~   46 (364)
T PF05970_consen   23 LNFFVTGPAGTGKSFLIKAIIDYL   46 (364)
T ss_pred             cEEEEEcCCCCChhHHHHHHHHHh
Confidence            468899999999999999998877

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.00  E-value=0.0011  Score=63.58  Aligned_cols=22  Identities=27%  Similarity=0.542  Sum_probs=19.9

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      +.++|+||+|+|||++.+.++.
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            5699999999999999999973

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

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=97.00  E-value=0.00093  Score=68.32  Aligned_cols=69  Identities=17%  Similarity=0.227  Sum_probs=43.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-----------c------hhHHHHHHHHHHhhhhhccCceEE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-----------L------GAQAVTKIHEIFDWAKKSKKGLLL  450 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-----------~------~~e~~~~l~~lf~~A~~~~~~~iL  450 (466)
                      +|+|++||||+|||++.++|........-.++..+...           +      .+...-....++..+.+.+ ++.|
T Consensus       161 ~nili~G~tgSGKTTll~aL~~~ip~~~ri~tiEd~~El~l~~~~n~~~~~~~~~~~~~~~~~~~~ll~~~LR~~-PD~I  239 (332)
T PRK13900        161 KNIIISGGTSTGKTTFTNAALREIPAIERLITVEDAREIVLSNHPNRVHLLASKGGQGRAKVTTQDLIEACLRLR-PDRI  239 (332)
T ss_pred             CcEEEECCCCCCHHHHHHHHHhhCCCCCeEEEecCCCccccccCCCEEEEEecCCCCCcCcCcHHHHHHHHhccC-CCeE
Confidence            46999999999999999999988843211111111100           0      0011123456777766666 7899


Q ss_pred             Eeccccc
Q 012305          451 FIDEADA  457 (466)
Q Consensus       451 flDEid~  457 (466)
                      +++|+-.
T Consensus       240 ivGEiR~  246 (332)
T PRK13900        240 IVGELRG  246 (332)
T ss_pred             EEEecCC
Confidence            9999863

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=97.00  E-value=0.00071  Score=61.62  Aligned_cols=35  Identities=29%  Similarity=0.611  Sum_probs=28.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      .|+|+|.||+|||++|++|...+   |.+++.++++.+
T Consensus         4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~l   41 (156)
T PF01583_consen    4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNL   41 (156)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcch
Confidence            48899999999999999999888   677777765543

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 ....

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.97  E-value=0.00043  Score=64.00  Aligned_cols=28  Identities=29%  Similarity=0.501  Sum_probs=24.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      -++|.||||+||||+++.|+..+|..++
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~g~~~~   32 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKYGFTHL   32 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            4789999999999999999999876543

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.97  E-value=0.00075  Score=66.81  Aligned_cols=68  Identities=13%  Similarity=0.188  Sum_probs=40.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC---cchhhcCC-C-----cc--cchhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL---DYAMMTGG-D-----VA--PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~---~~~~v~~~-~-----l~--~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                      .++|.||+|+||||+.+++...+..   .++.+..+ +     +.  ....+.......++..+-+.. +++|+|+||..
T Consensus        82 lilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~~~~q~~v~~~~~~~~~~~l~~~lR~~-PD~i~vgEiR~  160 (264)
T cd01129          82 IILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIPGINQVQVNEKAGLTFARGLRAILRQD-PDIIMVGEIRD  160 (264)
T ss_pred             EEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCCCceEEEeCCcCCcCHHHHHHHHhccC-CCEEEeccCCC
Confidence            5999999999999999999777632   22222111 0     00  011111112344455555445 89999999954

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.

>PRK08233 hypothetical protein; Provisional

Probab=96.97  E-value=0.001  Score=61.12  Aligned_cols=24  Identities=21%  Similarity=0.289  Sum_probs=21.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      -|.|.|+||+||||+|..|+..++
T Consensus         5 iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          5 IITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            367889999999999999999885

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.97  E-value=0.00067  Score=71.79  Aligned_cols=88  Identities=18%  Similarity=0.242  Sum_probs=54.7

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch-hhcCCCcccc--------
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA-MMTGGDVAPL--------  426 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~-~v~~~~l~~~--------  426 (466)
                      +|+++...+.....+..++         ..|+.-+|++||+|+|||++.-++-..++.+.. +++..|...+        
T Consensus       236 ~l~~Lg~~~~~~~~~~~~~---------~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~~~gI~Q~  306 (500)
T COG2804         236 DLEKLGMSPFQLARLLRLL---------NRPQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQLPGINQV  306 (500)
T ss_pred             CHHHhCCCHHHHHHHHHHH---------hCCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeeecCCccee
Confidence            3455555565555555442         335556899999999999999999888865443 4555554322        


Q ss_pred             ------hhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305          427 ------GAQAVTKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       427 ------~~e~~~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                            |..-...++.+.+     ..|+||++.||-.
T Consensus       307 qVN~k~gltfa~~LRa~LR-----qDPDvImVGEIRD  338 (500)
T COG2804         307 QVNPKIGLTFARALRAILR-----QDPDVIMVGEIRD  338 (500)
T ss_pred             ecccccCCCHHHHHHHHhc-----cCCCeEEEeccCC
Confidence                  1122223333332     3389999999964

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=96.96  E-value=0.00034  Score=67.03  Aligned_cols=22  Identities=23%  Similarity=0.650  Sum_probs=19.8

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ++++|+||+|||++++.+....
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~~   22 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKDR   22 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHhc
Confidence            4789999999999999998884

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>PRK06696 uridine kinase; Validated

Probab=96.96  E-value=0.00075  Score=64.89  Aligned_cols=36  Identities=25%  Similarity=0.248  Sum_probs=29.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      .-|.|.|+||+||||+|+.|+..+   |.+++.++.+++
T Consensus        23 ~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf   61 (223)
T PRK06696         23 LRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDF   61 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeccccc
Confidence            357899999999999999999998   666776665554

>PF13245 AAA_19: Part of AAA domain

Probab=96.96  E-value=0.00052  Score=54.82  Aligned_cols=22  Identities=50%  Similarity=0.773  Sum_probs=16.5

Q ss_pred             ccccCCCCCCch-HHHHHHHHhh
Q 012305          390 MLFYGPPGTGKT-MVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT-~lA~alA~~l  411 (466)
                      +++.|||||||| +++..++...
T Consensus        13 ~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   13 FVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            566999999999 5556665554

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.94  E-value=0.00045  Score=63.82  Aligned_cols=32  Identities=28%  Similarity=0.668  Sum_probs=27.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      .+|+|.||+|+|||++++.|+..++.+|+..+
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~l~~~~vd~D   36 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   36 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHHcCCcEEECC
Confidence            46999999999999999999999988765543

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.93  E-value=0.00093  Score=71.07  Aligned_cols=72  Identities=25%  Similarity=0.361  Sum_probs=48.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc--------hh-------HHHHHHHHHHhhhhhccCceE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL--------GA-------QAVTKIHEIFDWAKKSKKGLL  449 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~--------~~-------e~~~~l~~lf~~A~~~~~~~i  449 (466)
                      ..+||+||||+|||+|+..++...   +.+++++++.+....        +.       .....+..++......+ +.+
T Consensus        81 s~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~~-~~l  159 (446)
T PRK11823         81 SVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEEK-PDL  159 (446)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhhC-CCE
Confidence            458899999999999999998765   566677766543211        00       00123445555555444 789


Q ss_pred             EEecccccccc
Q 012305          450 LFIDEADAFLC  460 (466)
Q Consensus       450 LflDEid~l~~  460 (466)
                      ||||.|..+..
T Consensus       160 VVIDSIq~l~~  170 (446)
T PRK11823        160 VVIDSIQTMYS  170 (446)
T ss_pred             EEEechhhhcc
Confidence            99999998764

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=96.93  E-value=0.00048  Score=63.05  Aligned_cols=30  Identities=27%  Similarity=0.478  Sum_probs=26.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +++|+|+||||||++++.|+..+|.+|+..
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg~~~~d~   33 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALGYRFVDT   33 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEEc
Confidence            588999999999999999999999887643

>PRK06547 hypothetical protein; Provisional

Probab=96.93  E-value=0.00055  Score=63.40  Aligned_cols=32  Identities=28%  Similarity=0.548  Sum_probs=26.6

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      ...|+|+|+||||||++++.|+..++.+++.+
T Consensus        15 ~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~   46 (172)
T PRK06547         15 MITVLIDGRSGSGKTTLAGALAARTGFQLVHL   46 (172)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCCeecc
Confidence            34688899999999999999999987665543

>TIGR02012 tigrfam_recA protein RecA

Probab=96.92  E-value=0.00076  Score=68.47  Aligned_cols=76  Identities=21%  Similarity=0.288  Sum_probs=44.0

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------ch----------hHH-HHHHHHHHhhhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LG----------AQA-VTKIHEIFDWAK  442 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~----------~e~-~~~l~~lf~~A~  442 (466)
                      +.|. +.++||||||||||+||..++...   |..++.+++.....      ++          ... ...+..+....+
T Consensus        51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~  130 (321)
T TIGR02012        51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVR  130 (321)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            4554 458899999999999988876554   45555554322110      00          001 111222222222


Q ss_pred             hccCceEEEecccccccc
Q 012305          443 KSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       443 ~~~~~~iLflDEid~l~~  460 (466)
                       ....++||||-|.+|.+
T Consensus       131 -~~~~~lIVIDSv~al~~  147 (321)
T TIGR02012       131 -SGAVDIIVVDSVAALVP  147 (321)
T ss_pred             -ccCCcEEEEcchhhhcc
Confidence             33478999999999875

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.

>PLN02674 adenylate kinase

Probab=96.92  E-value=0.00038  Score=68.03  Aligned_cols=35  Identities=29%  Similarity=0.522  Sum_probs=27.9

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV  423 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l  423 (466)
                      ..+++|.||||+||||+++.|+..+|..  .++.+++
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~~~~--his~Gdl   65 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEYCLC--HLATGDM   65 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHcCCc--EEchhHH
Confidence            3569999999999999999999999854  4444443

>PRK02496 adk adenylate kinase; Provisional

Probab=96.92  E-value=0.00048  Score=63.95  Aligned_cols=28  Identities=32%  Similarity=0.581  Sum_probs=24.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .++|+||||+|||++++.|+..+|.+++
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~~~~i   30 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLHIPHI   30 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            4889999999999999999999876544

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

Probab=96.92  E-value=0.00078  Score=68.45  Aligned_cols=77  Identities=26%  Similarity=0.316  Sum_probs=44.5

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------ch----------hHHHHHHHHHHhhhhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LG----------AQAVTKIHEIFDWAKK  443 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~----------~e~~~~l~~lf~~A~~  443 (466)
                      +.|. +-+++|||||||||+||-.++...   |..++.++.....+      ++          ..+......+.+..-+
T Consensus        51 Glp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~  130 (325)
T cd00983          51 GYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVR  130 (325)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHh
Confidence            4554 457799999999999999887554   55555554322100      00          0011111222222222


Q ss_pred             ccCceEEEecccccccc
Q 012305          444 SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~  460 (466)
                      ....++||||-+.++.+
T Consensus       131 s~~~~lIVIDSvaal~~  147 (325)
T cd00983         131 SGAVDLIVVDSVAALVP  147 (325)
T ss_pred             ccCCCEEEEcchHhhcc
Confidence            34478999999998875

RecA couples ATP hydrolysis to DNA strand exchange.

>PLN02200 adenylate kinase family protein

Probab=96.91  E-value=0.00057  Score=66.47  Aligned_cols=34  Identities=26%  Similarity=0.514  Sum_probs=27.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV  423 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l  423 (466)
                      ..++|+||||||||++|+.|+..+|..  .++.+++
T Consensus        44 ~ii~I~G~PGSGKsT~a~~La~~~g~~--his~gdl   77 (234)
T PLN02200         44 FITFVLGGPGSGKGTQCEKIVETFGFK--HLSAGDL   77 (234)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCe--EEEccHH
Confidence            468899999999999999999998764  4555444

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.91  E-value=0.00094  Score=68.54  Aligned_cols=69  Identities=17%  Similarity=0.257  Sum_probs=42.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------ch------hHHHHHHHHHHhhhhhccCceEEE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LG------AQAVTKIHEIFDWAKKSKKGLLLF  451 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~------~e~~~~l~~lf~~A~~~~~~~iLf  451 (466)
                      .|+|++||+|+||||++++|....+..--.++..+...          +.      +...-....++..+-+.. ++.||
T Consensus       163 ~nilI~G~tGSGKTTll~aLl~~i~~~~rivtiEd~~El~l~~~~~v~l~~~~~~~~~~~~t~~~ll~~~LR~~-pD~Ii  241 (344)
T PRK13851        163 LTMLLCGPTGSGKTTMSKTLISAIPPQERLITIEDTLELVIPHENHVRLLYSKNGAGLGAVTAEHLLQASLRMR-PDRIL  241 (344)
T ss_pred             CeEEEECCCCccHHHHHHHHHcccCCCCCEEEECCCccccCCCCCEEEEEeeccccCcCccCHHHHHHHHhcCC-CCeEE
Confidence            46999999999999999999988743211222111110          00      001123456666666555 78999


Q ss_pred             eccccc
Q 012305          452 IDEADA  457 (466)
Q Consensus       452 lDEid~  457 (466)
                      +.|+-.
T Consensus       242 vGEiR~  247 (344)
T PRK13851        242 LGEMRD  247 (344)
T ss_pred             EEeeCc
Confidence            998753

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.90  E-value=0.00076  Score=72.40  Aligned_cols=69  Identities=25%  Similarity=0.379  Sum_probs=42.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCccc------------ch-----hHHHHHHHHHHhhhhhcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAP------------LG-----AQAVTKIHEIFDWAKKSK  445 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~------------~~-----~e~~~~l~~lf~~A~~~~  445 (466)
                      ..++|+||+|+|||+++..|+..+     +..+..++.+....            ++     ......+..++.   ...
T Consensus       351 ~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~---~l~  427 (559)
T PRK12727        351 GVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLE---RLR  427 (559)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHH---Hhc
Confidence            468899999999999999998754     24555555433110            00     011122333333   333


Q ss_pred             CceEEEeccccccc
Q 012305          446 KGLLLFIDEADAFL  459 (466)
Q Consensus       446 ~~~iLflDEid~l~  459 (466)
                      .+++||||..+...
T Consensus       428 ~~DLVLIDTaG~s~  441 (559)
T PRK12727        428 DYKLVLIDTAGMGQ  441 (559)
T ss_pred             cCCEEEecCCCcch
Confidence            47899999998653

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.89  E-value=0.0013  Score=63.65  Aligned_cols=32  Identities=22%  Similarity=0.397  Sum_probs=22.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      ..++++||||||||+++..++..+   |..++.++
T Consensus        25 ~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         25 SLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            458999999999999976554433   44444444

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.89  E-value=0.0013  Score=60.77  Aligned_cols=36  Identities=28%  Similarity=0.550  Sum_probs=31.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      ..|.|+|.+|+||||+|.+|...+   |+.++.++|+.+
T Consensus        24 ~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnv   62 (197)
T COG0529          24 AVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNV   62 (197)
T ss_pred             eEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhH
Confidence            458899999999999999999888   788888887665

>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=0.00049  Score=59.11  Aligned_cols=22  Identities=41%  Similarity=0.706  Sum_probs=20.6

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      |+|.|+|||||||+++.|+..+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5799999999999999999996

...

>TIGR01351 adk adenylate kinases

Probab=96.88  E-value=0.00055  Score=65.11  Aligned_cols=27  Identities=44%  Similarity=0.785  Sum_probs=24.2

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      |+|+||||+|||++|+.|+..+|..++
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~i   28 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHI   28 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCee
Confidence            789999999999999999999886544

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.88  E-value=0.0012  Score=68.17  Aligned_cols=23  Identities=35%  Similarity=0.553  Sum_probs=21.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..||+||||||||++++.|++.+
T Consensus       135 R~LIvG~pGtGKTTLl~~la~~i  157 (380)
T PRK12608        135 RGLIVAPPRAGKTVLLQQIAAAV  157 (380)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998877

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.88  E-value=0.001  Score=67.35  Aligned_cols=69  Identities=17%  Similarity=0.237  Sum_probs=41.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------ch------hHHHHHHHHHHhhhhhccCceEEE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LG------AQAVTKIHEIFDWAKKSKKGLLLF  451 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~------~e~~~~l~~lf~~A~~~~~~~iLf  451 (466)
                      .+++|+||+|+|||++.++|...+....-.+...+...          +.      ....-.+..++..+-+.. +++|+
T Consensus       145 ~~ili~G~tGsGKTTll~al~~~~~~~~~iv~ied~~El~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~~-pd~ii  223 (308)
T TIGR02788       145 KNIIISGGTGSGKTTFLKSLVDEIPKDERIITIEDTREIFLPHPNYVHLFYSKGGQGLAKVTPKDLLQSCLRMR-PDRII  223 (308)
T ss_pred             CEEEEECCCCCCHHHHHHHHHccCCccccEEEEcCccccCCCCCCEEEEEecCCCCCcCccCHHHHHHHHhcCC-CCeEE
Confidence            46999999999999999999988732211111111100          00      000123455666555555 78999


Q ss_pred             eccccc
Q 012305          452 IDEADA  457 (466)
Q Consensus       452 lDEid~  457 (466)
                      +||+-.
T Consensus       224 ~gE~r~  229 (308)
T TIGR02788       224 LGELRG  229 (308)
T ss_pred             EeccCC
Confidence            999863

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.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.87  E-value=0.00053  Score=66.49  Aligned_cols=29  Identities=28%  Similarity=0.590  Sum_probs=25.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .++|+||||+||||+++.|+..+|.+++.
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g~~~is   36 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKENLKHIN   36 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEE
Confidence            48999999999999999999999865443

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

Probab=96.86  E-value=0.0025  Score=72.13  Aligned_cols=99  Identities=19%  Similarity=0.321  Sum_probs=65.3

Q ss_pred             CCCeeeC-cchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcc-
Q 012305          357 NGDIILH-PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVA-  424 (466)
Q Consensus       357 l~~vVg~-~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~-  424 (466)
                      ++.++|. ++-..++-+++..  .++      +|-+|.|.||+|||.++.-++...          +..++.++.+.+. 
T Consensus       185 ldPvigr~deeirRvi~iL~R--rtk------~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~a  256 (898)
T KOG1051|consen  185 LDPVIGRHDEEIRRVIEILSR--KTK------NNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVA  256 (898)
T ss_pred             CCCccCCchHHHHHHHHHHhc--cCC------CCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhccc
Confidence            5668886 4444444333221  112      368999999999999999998877          2223333333221 


Q ss_pred             --cchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          425 --PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       425 --~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                        ...++....++.+...+...+.+.||||||++-+.+...
T Consensus       257 Ga~~rge~E~rlk~l~k~v~~~~~gvILfigelh~lvg~g~  297 (898)
T KOG1051|consen  257 GAKRRGEFEERLKELLKEVESGGGGVILFLGELHWLVGSGS  297 (898)
T ss_pred             CcccchHHHHHHHHHHHHHhcCCCcEEEEecceeeeecCCC
Confidence              234456678888888777666789999999999886553

>TIGR00959 ffh signal recognition particle protein

Probab=96.85  E-value=0.0014  Score=69.09  Aligned_cols=72  Identities=19%  Similarity=0.248  Sum_probs=47.2

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcccc-----------------h----hHHHHHHHHHHhhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAPL-----------------G----AQAVTKIHEIFDWA  441 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~~-----------------~----~e~~~~l~~lf~~A  441 (466)
                      +..++|+||||+|||+++..||..+    |..++.++|+..-+.                 .    ..........+..+
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~~~  178 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYA  178 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHHHH
Confidence            4578999999999999988888764    567777777643210                 0    01112234455555


Q ss_pred             hhccCceEEEeccccccc
Q 012305          442 KKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       442 ~~~~~~~iLflDEid~l~  459 (466)
                      .... +++||||-.+.+.
T Consensus       179 ~~~~-~DvVIIDTaGr~~  195 (428)
T TIGR00959       179 KENG-FDVVIVDTAGRLQ  195 (428)
T ss_pred             HhcC-CCEEEEeCCCccc
Confidence            4333 7899999888654

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=96.85  E-value=0.00073  Score=69.58  Aligned_cols=23  Identities=39%  Similarity=0.603  Sum_probs=21.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+++.|.||||||.++-.++..+
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l   25 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKEL   25 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHh
Confidence            47889999999999999999887

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.83  E-value=0.0019  Score=72.33  Aligned_cols=73  Identities=23%  Similarity=0.291  Sum_probs=43.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh----C-CcchhhcCCCccc------------ch--hHHHHHHHHHHhhhhhccCce
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS----G-LDYAMMTGGDVAP------------LG--AQAVTKIHEIFDWAKKSKKGL  448 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l----~-~~~~~v~~~~l~~------------~~--~e~~~~l~~lf~~A~~~~~~~  448 (466)
                      ..++|+||+|+||||++..||..+    | ..+..++++..-.            ++  .........+++........+
T Consensus       186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D  265 (767)
T PRK14723        186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKH  265 (767)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCC
Confidence            468899999999999999998765    3 3455555443210            00  000111122333333334468


Q ss_pred             EEEecccccccc
Q 012305          449 LLFIDEADAFLC  460 (466)
Q Consensus       449 iLflDEid~l~~  460 (466)
                      +||||-++....
T Consensus       266 ~VLIDTAGRs~~  277 (767)
T PRK14723        266 LVLIDTVGMSQR  277 (767)
T ss_pred             EEEEeCCCCCcc
Confidence            999999986653

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=96.83  E-value=0.00071  Score=63.67  Aligned_cols=73  Identities=27%  Similarity=0.349  Sum_probs=33.9

Q ss_pred             ccccCCCCCCchHHHHHH-HHh-h--CCcchhhcCCCcc-----cchhHHHH-------------HHHHHHhhhhhccCc
Q 012305          390 MLFYGPPGTGKTMVAREI-ARK-S--GLDYAMMTGGDVA-----PLGAQAVT-------------KIHEIFDWAKKSKKG  447 (466)
Q Consensus       390 vLl~GppGTGKT~lA~al-A~~-l--~~~~~~v~~~~l~-----~~~~e~~~-------------~l~~lf~~A~~~~~~  447 (466)
                      .|++|.||+|||+.|-.. ... +  |.+++. |...+.     ........             ....+.+|.. .+.+
T Consensus         3 ~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t-ni~gL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~   80 (193)
T PF05707_consen    3 YLITGKPGSGKSYYAVSYVIIPALKKGRPVYT-NIPGLNIEKIQPVLGYDIPTRLIDLSDPDFEEDWDDPDDWRK-LPKG   80 (193)
T ss_dssp             EEEE--TTSSHHHHHHHHHHH-GGGS---EEE---TTB-S--EEEE--TTT-S-----S--SSSEEGGGHHHHTT-SGTT
T ss_pred             EEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE-ccCCcchhhhhhhccccccccccccccccchhhhhhhhhhcc-cCCC
Confidence            578999999999987555 322 2  444332 322111     11000000             1123444443 2358


Q ss_pred             eEEEeccccccccccCC
Q 012305          448 LLLFIDEADAFLCDNQD  464 (466)
Q Consensus       448 ~iLflDEid~l~~~r~~  464 (466)
                      ++|||||+..+++.|..
T Consensus        81 ~liviDEa~~~~~~r~~   97 (193)
T PF05707_consen   81 SLIVIDEAQNFFPSRSW   97 (193)
T ss_dssp             -EEEETTGGGTSB---T
T ss_pred             cEEEEECChhhcCCCcc
Confidence            99999999999988764

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=96.83  E-value=0.0018  Score=61.32  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      +.++|+||+|+|||++.+.|+..
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~   48 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVN   48 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHH
Confidence            35889999999999999999753

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

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.83  E-value=0.0018  Score=64.37  Aligned_cols=90  Identities=16%  Similarity=0.212  Sum_probs=52.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCcccchhHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAPLGAQAV  431 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~~~~e~~  431 (466)
                      ..+|+.+ |.|.+...+..            .|..-||.+||+|+||||+.-++-.+.+  .+.-+++..|...+...+.
T Consensus       105 i~~~e~L-glP~i~~~~~~------------~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIEDPIE~vh~sk  171 (353)
T COG2805         105 IPTLEEL-GLPPIVRELAE------------SPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIEDPIEYVHESK  171 (353)
T ss_pred             CCCHHHc-CCCHHHHHHHh------------CCCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEecCchHhhhcch
Confidence            3345555 55555554442            2333588999999999999888888774  3445666666543332221


Q ss_pred             H-------------HHHHHHhhhhhccCceEEEeccccc
Q 012305          432 T-------------KIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       432 ~-------------~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                      .             ......+.|-+.. |+|||+-|+-.
T Consensus       172 kslI~QREvG~dT~sF~~aLraALReD-PDVIlvGEmRD  209 (353)
T COG2805         172 KSLINQREVGRDTLSFANALRAALRED-PDVILVGEMRD  209 (353)
T ss_pred             HhhhhHHHhcccHHHHHHHHHHHhhcC-CCEEEEecccc
Confidence            1             1122223333334 79999988754

>PRK14527 adenylate kinase; Provisional

Probab=96.82  E-value=0.00069  Score=63.43  Aligned_cols=28  Identities=39%  Similarity=0.780  Sum_probs=24.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      .-++|+||||+|||++++.|+..++...
T Consensus         7 ~~i~i~G~pGsGKsT~a~~La~~~~~~~   34 (191)
T PRK14527          7 KVVIFLGPPGAGKGTQAERLAQELGLKK   34 (191)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCC
Confidence            3589999999999999999999887643

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.81  E-value=0.00063  Score=64.96  Aligned_cols=28  Identities=39%  Similarity=0.697  Sum_probs=24.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .|+++||||+|||++++.|+..+|..++
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~~~~i   29 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYGIPHI   29 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            3899999999999999999999985443

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=96.79  E-value=0.00097  Score=66.72  Aligned_cols=78  Identities=17%  Similarity=0.129  Sum_probs=48.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCc-----chhhcC---CCc---ccchh---HHHHHHHHHHhhhhh---ccCceEE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLD-----YAMMTG---GDV---APLGA---QAVTKIHEIFDWAKK---SKKGLLL  450 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~-----~~~v~~---~~l---~~~~~---e~~~~l~~lf~~A~~---~~~~~iL  450 (466)
                      ..+||+||+|+||+.+|..+|..+-+.     ...+..   +|+   .+.+.   -++..++.+...+..   .+++.|+
T Consensus        20 HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~kv~   99 (290)
T PRK05917         20 SAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPYKIY   99 (290)
T ss_pred             eeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCceEE
Confidence            469999999999999999999887221     111111   222   11111   124455555544432   2446899


Q ss_pred             EeccccccccccCCC
Q 012305          451 FIDEADAFLCDNQDF  465 (466)
Q Consensus       451 flDEid~l~~~r~~~  465 (466)
                      +||++|.|...-+|+
T Consensus       100 ii~~ad~mt~~AaNa  114 (290)
T PRK05917        100 IIHEADRMTLDAISA  114 (290)
T ss_pred             EEechhhcCHHHHHH
Confidence            999999998765543

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.78  E-value=0.0025  Score=64.25  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=21.8

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ...+.|+||||+|||+++..++..+
T Consensus        34 ~~~i~i~G~~G~GKttl~~~l~~~~   58 (300)
T TIGR00750        34 AHRVGITGTPGAGKSTLLEALGMEL   58 (300)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3568899999999999999998776

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.78  E-value=0.002  Score=62.29  Aligned_cols=36  Identities=28%  Similarity=0.509  Sum_probs=25.5

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      +.|. ..++++||||||||+++..++...   |.+++.++
T Consensus        21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         21 GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            3443 468899999999999999996543   44444443

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.76  E-value=0.0014  Score=60.53  Aligned_cols=32  Identities=22%  Similarity=0.318  Sum_probs=26.1

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhcCC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGG  421 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~  421 (466)
                      +|++|+||+|||++|..++...+.+++++.-.
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~   33 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPVTYIATA   33 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEEEcc
Confidence            68999999999999999988777666655443

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.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.75  E-value=0.0022  Score=59.52  Aligned_cols=36  Identities=25%  Similarity=0.494  Sum_probs=27.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      .-++|+|+||+|||++++.|...+   |..++.+++.++
T Consensus        19 ~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~~d~~   57 (184)
T TIGR00455        19 VVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNV   57 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECChHH
Confidence            468899999999999999999887   334455555444

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=96.75  E-value=0.0014  Score=69.47  Aligned_cols=69  Identities=28%  Similarity=0.385  Sum_probs=42.5

Q ss_pred             cccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCcc-------cchhHHHHHHHHHHhhhhhccCceEEEecc
Q 012305          385 APFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVA-------PLGAQAVTKIHEIFDWAKKSKKGLLLFIDE  454 (466)
Q Consensus       385 ~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~-------~~~~e~~~~l~~lf~~A~~~~~~~iLflDE  454 (466)
                      +|+--+-+.||||||||+|++.|.+.+-.. +-.+.|+--.       -+..+....++.+++.++-.. -.+|+||-
T Consensus        67 PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiTvvsgK~RRiTflEcp~Dl~~miDvaKIaD-LVlLlIdg  143 (1077)
T COG5192          67 PPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVVSGKTRRITFLECPSDLHQMIDVAKIAD-LVLLLIDG  143 (1077)
T ss_pred             CCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceEEeecceeEEEEEeChHHHHHHHhHHHhhh-eeEEEecc
Confidence            343445589999999999999998776322 2222222100       012234467888888877544 56777774

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.71  E-value=0.0039  Score=66.61  Aligned_cols=35  Identities=29%  Similarity=0.516  Sum_probs=27.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh----C-CcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS----G-LDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l----~-~~~~~v~~~~  422 (466)
                      ..++|+||+|+||||++..||..+    | ..+..++++.
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt  296 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDS  296 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCc
Confidence            458899999999999999999766    3 3566666654

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.70  E-value=0.00082  Score=63.57  Aligned_cols=22  Identities=45%  Similarity=0.693  Sum_probs=16.5

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++.||||||||+++..+...+
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            8899999999998766665444

>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=96.70  E-value=0.0019  Score=61.00  Aligned_cols=37  Identities=22%  Similarity=0.452  Sum_probs=28.2

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh-CCcchhhcCCCc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS-GLDYAMMTGGDV  423 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l-~~~~~~v~~~~l  423 (466)
                      |.-++|.|+||+|||+++..+...+ +..++.|+.+++
T Consensus        15 P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~   52 (199)
T PF06414_consen   15 PTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEF   52 (199)
T ss_dssp             -EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGG
T ss_pred             CEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHH
Confidence            3558888999999999999999888 777788877765

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.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.67  E-value=0.0029  Score=57.82  Aligned_cols=28  Identities=29%  Similarity=0.444  Sum_probs=22.0

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAM  417 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~  417 (466)
                      +.+|+++|+|||++|-.++-..   |..+..
T Consensus         5 i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~   35 (159)
T cd00561           5 IQVYTGNGKGKTTAALGLALRALGHGYRVGV   35 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence            6788999999999999886555   555554

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PRK04182 cytidylate kinase; Provisional

Probab=96.67  E-value=0.001  Score=60.97  Aligned_cols=29  Identities=48%  Similarity=0.702  Sum_probs=26.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|+|+|+||||||++++.|+..+|++|+.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~~~id   30 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGLKHVS   30 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence            37899999999999999999999988765

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.66  E-value=0.002  Score=67.59  Aligned_cols=68  Identities=15%  Similarity=0.239  Sum_probs=45.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                      .++++||-+||||++.+.+...+...++.++..|+..........+..+......  ....||||||..+
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l~d~~~~~~~~~~~--~~~yifLDEIq~v  106 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIELLDLLRAYIELKER--EKSYIFLDEIQNV  106 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhHHHHHHHHHHhhcc--CCceEEEecccCc
Confidence            6899999999999999888888755566666666544333332222333222221  2479999999875

>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=96.65  E-value=0.00091  Score=60.09  Aligned_cols=25  Identities=40%  Similarity=0.752  Sum_probs=22.0

Q ss_pred             ccCCCCCCchHHHHHHHHhhCCcch
Q 012305          392 FYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       392 l~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      +.||||+|||++|+.||..+|..++
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~~i   25 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLVHI   25 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSEEE
T ss_pred             CcCCCCCChHHHHHHHHHhcCccee
Confidence            5799999999999999999976543

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 ....

>PTZ00202 tuzin; Provisional

Probab=96.65  E-value=0.0096  Score=62.62  Aligned_cols=60  Identities=17%  Similarity=0.283  Sum_probs=44.5

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      ....+++|.......|..++......     .++-++|+||+|||||++++.+...++...+.++
T Consensus       259 a~~~~FVGReaEla~Lr~VL~~~d~~-----~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vN  318 (550)
T PTZ00202        259 AVIRQFVSREAEESWVRQVLRRLDTA-----HPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVD  318 (550)
T ss_pred             CCccCCCCcHHHHHHHHHHHhccCCC-----CceEEEEECCCCCCHHHHHHHHHhcCCceEEEEC
Confidence            34578999999888888776543221     1245789999999999999999988875544444

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.65  E-value=0.002  Score=57.16  Aligned_cols=27  Identities=26%  Similarity=0.475  Sum_probs=24.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      ..++|.|+.|+|||++++.+++.+|.+
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            358899999999999999999999754

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.

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=96.63  E-value=0.0038  Score=58.96  Aligned_cols=20  Identities=25%  Similarity=0.547  Sum_probs=19.0

Q ss_pred             cccccCCCCCCchHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIA  408 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA  408 (466)
                      .++|+||+|+|||++.+.|+
T Consensus        30 ~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          30 VLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             EEEEECCCCCChHHHHHHHH
Confidence            59999999999999999998

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

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.61  E-value=0.00085  Score=67.14  Aligned_cols=23  Identities=48%  Similarity=0.676  Sum_probs=21.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|+|||||||||+|+.|+..+
T Consensus         4 liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          4 IILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHC
Confidence            57889999999999999999988

>PRK01184 hypothetical protein; Provisional

Probab=96.60  E-value=0.0011  Score=61.49  Aligned_cols=28  Identities=32%  Similarity=0.536  Sum_probs=23.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|+|+||||+||||+++ ++..+|.+++.
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~~~g~~~i~   30 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAREMGIPVVV   30 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHHHcCCcEEE
Confidence            47899999999999997 77888876544

>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=96.59  E-value=0.0013  Score=51.26  Aligned_cols=22  Identities=32%  Similarity=0.596  Sum_probs=20.5

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.|.|+||+|||++++.|+..+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999986

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.

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=96.59  E-value=0.0031  Score=59.60  Aligned_cols=22  Identities=36%  Similarity=0.484  Sum_probs=19.8

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      ..++|+||+|+|||++.+.|+.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            3589999999999999999983

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.58  E-value=0.0017  Score=67.33  Aligned_cols=25  Identities=32%  Similarity=0.518  Sum_probs=20.6

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.|+||+|+||||+.-.||..+
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~  227 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARY  227 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHH
Confidence            4679999999999999877776655

>PRK14526 adenylate kinase; Provisional

Probab=96.57  E-value=0.0013  Score=63.05  Aligned_cols=27  Identities=30%  Similarity=0.674  Sum_probs=23.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      +++|+||||||||++++.|+..++..+
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~~~~~~~   28 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSNELNYYH   28 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCce
Confidence            488999999999999999999887543

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.57  E-value=0.00093  Score=60.75  Aligned_cols=26  Identities=31%  Similarity=0.567  Sum_probs=20.4

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      |.|+|+||||||||++.|+.. |.+++
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            789999999999999999988 76644

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.57  E-value=0.0013  Score=59.79  Aligned_cols=28  Identities=43%  Similarity=0.680  Sum_probs=25.2

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      |.|+|+||+|||++++.|+..+|.+++.
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~~~   30 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKLIS   30 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCceec
Confidence            7899999999999999999999877654

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.

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.55  E-value=0.0018  Score=67.20  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=21.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+|++||||+||||+.+++..+.
T Consensus       151 lilI~G~TGSGKTT~l~al~~~i  173 (372)
T TIGR02525       151 LGLICGETGSGKSTLAASIYQHC  173 (372)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998776

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).

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=96.55  E-value=0.0014  Score=73.68  Aligned_cols=71  Identities=24%  Similarity=0.412  Sum_probs=41.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---C--CcchhhcCCCc-----ccchhHHHHHHHHHHhhhhh---------ccCceE
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---G--LDYAMMTGGDV-----APLGAQAVTKIHEIFDWAKK---------SKKGLL  449 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~--~~~~~v~~~~l-----~~~~~e~~~~l~~lf~~A~~---------~~~~~i  449 (466)
                      .++|+|+||||||+++++|...+   +  ..++.+....-     ....+.....++.++.+...         ....++
T Consensus       340 ~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~~a~Tih~lL~~~~~~~~~~~~~~~~~~~l  419 (720)
T TIGR01448       340 VVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHRLLGYGPDTFRHNHLEDPIDCDL  419 (720)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCCccccHHHHhhccCCccchhhhhccccCCE
Confidence            58999999999999999997655   3  23222211100     00001112345666654221         123589


Q ss_pred             EEeccccccc
Q 012305          450 LFIDEADAFL  459 (466)
Q Consensus       450 LflDEid~l~  459 (466)
                      |+|||+..+.
T Consensus       420 lIvDEaSMvd  429 (720)
T TIGR01448       420 LIVDESSMMD  429 (720)
T ss_pred             EEEeccccCC
Confidence            9999998764

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.54  E-value=0.0027  Score=59.81  Aligned_cols=35  Identities=26%  Similarity=0.489  Sum_probs=27.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~  422 (466)
                      ..+.|+|+||+|||++++.|+..+   |...+.+++.+
T Consensus        25 ~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~   62 (198)
T PRK03846         25 VVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDN   62 (198)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEe
Confidence            468899999999999999999977   34455555543

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.54  E-value=0.0025  Score=62.88  Aligned_cols=37  Identities=22%  Similarity=0.273  Sum_probs=26.4

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      +.|. ..+|++||||||||+++..++...   |.+++.++.
T Consensus        32 Gip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~   72 (259)
T TIGR03878        32 GIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTV   72 (259)
T ss_pred             CeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            4444 458889999999999999886543   555555544

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

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.52  E-value=0.0014  Score=60.32  Aligned_cols=35  Identities=34%  Similarity=0.578  Sum_probs=27.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~  422 (466)
                      ..++|+|+||+|||++++.|+..+   |.++..++++.
T Consensus         5 ~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D~   42 (175)
T PRK00889          5 VTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDA   42 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcc
Confidence            358899999999999999999887   44555565543

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.52  E-value=0.0023  Score=66.09  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=21.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++++||+|+||||+.+++.+.+
T Consensus       135 glilI~GpTGSGKTTtL~aLl~~i  158 (358)
T TIGR02524       135 GIVFITGATGSGKSTLLAAIIREL  158 (358)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            469999999999999999998876

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.

>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase

Probab=96.51  E-value=0.0018  Score=66.46  Aligned_cols=68  Identities=16%  Similarity=0.213  Sum_probs=42.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc----------ccch-------hHHHHHHHHHHhhhhhccCceEE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV----------APLG-------AQAVTKIHEIFDWAKKSKKGLLL  450 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l----------~~~~-------~e~~~~l~~lf~~A~~~~~~~iL  450 (466)
                      ++++|.|++|+|||++.+++...+....-.+...+.          ..+.       +...-.+..++..+-+.+ ++.|
T Consensus       179 ~~ili~G~tGsGKTTll~al~~~i~~~~riv~iEd~~El~~~~~~~~~l~~r~~~~~g~~~~t~~~ll~~aLR~~-PD~I  257 (340)
T TIGR03819       179 LAFLISGGTGSGKTTLLSALLALVAPDERIVLVEDAAELRPDHPHVVRLEARPANVEGAGAVTLTDLVRQALRMR-PDRI  257 (340)
T ss_pred             CeEEEECCCCCCHHHHHHHHHccCCCCCcEEEECCcceecCCCCCeeeEEeccccccCcCccCHHHHHHHHhccC-CCeE
Confidence            469999999999999999998877322111111111          0110       011123456666666666 7899


Q ss_pred             Eecccc
Q 012305          451 FIDEAD  456 (466)
Q Consensus       451 flDEid  456 (466)
                      ++.||-
T Consensus       258 ivGEiR  263 (340)
T TIGR03819       258 VVGEVR  263 (340)
T ss_pred             EEeCcC
Confidence            999985

Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.48  E-value=0.0043  Score=61.62  Aligned_cols=68  Identities=16%  Similarity=0.336  Sum_probs=34.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcc-----cchhHHH----HHHHHHHhhhhhccCceEEEecccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVA-----PLGAQAV----TKIHEIFDWAKKSKKGLLLFIDEAD  456 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~-----~~~~e~~----~~l~~lf~~A~~~~~~~iLflDEid  456 (466)
                      -|+|+|.||+|||++|+.|...+   +..+..++..++.     +......    +.+...+..+-  ....|||||..-
T Consensus         3 Liil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~l--s~~~iVI~Dd~n   80 (270)
T PF08433_consen    3 LIILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERAL--SKDTIVILDDNN   80 (270)
T ss_dssp             EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHH--TT-SEEEE-S--
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhh--ccCeEEEEeCCc
Confidence            37899999999999999998876   4555554432221     1111122    33333333332  235799999765


Q ss_pred             cc
Q 012305          457 AF  458 (466)
Q Consensus       457 ~l  458 (466)
                      .+
T Consensus        81 Yi   82 (270)
T PF08433_consen   81 YI   82 (270)
T ss_dssp             -S
T ss_pred             hH
Confidence            43

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.47  E-value=0.005  Score=57.85  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+|++||++|.|||+.|-.++-..
T Consensus        23 g~v~v~~g~GkGKtt~a~g~a~ra   46 (191)
T PRK05986         23 GLLIVHTGNGKGKSTAAFGMALRA   46 (191)
T ss_pred             CeEEEECCCCCChHHHHHHHHHHH
Confidence            469999999999999999886554

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=96.46  E-value=0.002  Score=61.36  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=18.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.+.||+|||||++|-+.|-++
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            48889999999999999988766

; GO: 0005524 ATP binding; PDB: 3B85_A.

>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=96.46  E-value=0.0016  Score=60.03  Aligned_cols=23  Identities=30%  Similarity=0.742  Sum_probs=20.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      |++|+|+||+||||+++.+...+
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            58999999999999999998887

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.

>PRK14529 adenylate kinase; Provisional

Probab=96.44  E-value=0.0018  Score=62.50  Aligned_cols=28  Identities=32%  Similarity=0.584  Sum_probs=25.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      +++|.||||+||||+++.|+..++.+++
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~~~~i   29 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYDLAHI   29 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCCCc
Confidence            4889999999999999999999987654

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.43  E-value=0.0052  Score=59.08  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .-+.|+||||||||+++..++..
T Consensus        20 ~i~~i~G~~GsGKT~l~~~l~~~   42 (235)
T cd01123          20 SITEIFGEFGSGKTQLCHQLAVT   42 (235)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999754

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 .

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.43  E-value=0.0014  Score=61.16  Aligned_cols=27  Identities=19%  Similarity=0.457  Sum_probs=23.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      .++|.||+|+||||+++.|+..++.+|
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~~~~~   30 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQREQTQL   30 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCeE
Confidence            488999999999999999998876553

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=96.41  E-value=0.0026  Score=62.52  Aligned_cols=79  Identities=9%  Similarity=-0.040  Sum_probs=46.1

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhhCCc-----------chhhc---CCCccc---ch-hHHHHHHHHHHhhhhh----
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKSGLD-----------YAMMT---GGDVAP---LG-AQAVTKIHEIFDWAKK----  443 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l~~~-----------~~~v~---~~~l~~---~~-~e~~~~l~~lf~~A~~----  443 (466)
                      ++..+||+||+|+||..+|..+|..+-..           ...+.   .+|+-.   .+ .-.+..++.+.+....    
T Consensus         6 ~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~e   85 (261)
T PRK05818          6 KTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVE   85 (261)
T ss_pred             CCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCchh
Confidence            34569999999999999999998877110           01111   222211   10 0112334444433221    


Q ss_pred             ccCceEEEeccccccccccCC
Q 012305          444 SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+.+.|++||++|.|...-.|
T Consensus        86 ~~~~KV~II~~ae~m~~~AaN  106 (261)
T PRK05818         86 SNGKKIYIIYGIEKLNKQSAN  106 (261)
T ss_pred             cCCCEEEEeccHhhhCHHHHH
Confidence            234689999999999765443

>PRK09354 recA recombinase A; Provisional

Probab=96.41  E-value=0.0039  Score=63.98  Aligned_cols=77  Identities=26%  Similarity=0.311  Sum_probs=43.2

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------chh----------HHHHHHHHHHhhhhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LGA----------QAVTKIHEIFDWAKK  443 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~~----------e~~~~l~~lf~~A~~  443 (466)
                      +.|. +-++||||||||||+|+-.++...   |..++.++......      +|.          .+......+.+..-+
T Consensus        56 Gip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~  135 (349)
T PRK09354         56 GLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVR  135 (349)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            4554 457799999999999998876544   44444444322100      000          011111122222222


Q ss_pred             ccCceEEEecccccccc
Q 012305          444 SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~  460 (466)
                      ....++||||=|-+|.+
T Consensus       136 s~~~~lIVIDSvaaL~~  152 (349)
T PRK09354        136 SGAVDLIVVDSVAALVP  152 (349)
T ss_pred             cCCCCEEEEeChhhhcc
Confidence            34478999999998875

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

Probab=96.39  E-value=0.0036  Score=59.79  Aligned_cols=28  Identities=29%  Similarity=0.444  Sum_probs=22.1

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.|. .-+.|+||||||||+++..++...
T Consensus        15 G~~~g~v~~I~G~~GsGKT~l~~~ia~~~   43 (226)
T cd01393          15 GIPTGRITEIFGEFGSGKTQLCLQLAVEA   43 (226)
T ss_pred             CCcCCcEEEEeCCCCCChhHHHHHHHHHh
Confidence            3343 357899999999999999997654

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.37  E-value=0.0048  Score=63.06  Aligned_cols=33  Identities=21%  Similarity=0.358  Sum_probs=25.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      .|-|+||||+|||||+..|...+   |.++..++.+
T Consensus        58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~D   93 (332)
T PRK09435         58 RIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAVD   93 (332)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeC
Confidence            57899999999999999987776   5555555443

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=96.37  E-value=0.002  Score=73.13  Aligned_cols=71  Identities=25%  Similarity=0.387  Sum_probs=48.9

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc--chh------HHHHHHHHHH---hhhh-hccCceEEEeccccc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP--LGA------QAVTKIHEIF---DWAK-KSKKGLLLFIDEADA  457 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~--~~~------e~~~~l~~lf---~~A~-~~~~~~iLflDEid~  457 (466)
                      +|++||||+|||+.+..+|..+|+.++.+|.++.-.  .+.      .+...+.+.|   .... ......||++||+|.
T Consensus       360 ~l~~G~pGigKT~~~h~~~k~~g~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~  439 (871)
T KOG1968|consen  360 LLLSGPPGIGKTTAAHKAAKELGFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDG  439 (871)
T ss_pred             HHhcCCCCCCchhhHhhhhhhcccceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEecccc
Confidence            689999999999999999999999999999887521  000      0111223333   1111 123346999999999


Q ss_pred             ccc
Q 012305          458 FLC  460 (466)
Q Consensus       458 l~~  460 (466)
                      ++.
T Consensus       440 ~~~  442 (871)
T KOG1968|consen  440 MFG  442 (871)
T ss_pred             ccc
Confidence            986

>PLN02459 probable adenylate kinase

Probab=96.37  E-value=0.0019  Score=63.64  Aligned_cols=27  Identities=33%  Similarity=0.578  Sum_probs=24.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      +++|.||||+|||+++..|+..+|..+
T Consensus        31 ~ii~~G~PGsGK~T~a~~la~~~~~~~   57 (261)
T PLN02459         31 NWVFLGCPGVGKGTYASRLSKLLGVPH   57 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcE
Confidence            488899999999999999999987653

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=96.37  E-value=0.0035  Score=67.33  Aligned_cols=92  Identities=16%  Similarity=0.224  Sum_probs=50.3

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCcccc--------
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVAPL--------  426 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~~~--------  426 (466)
                      .|+++-..++....+..++.         .+..-+||+||+|+||||+..++...+..+ .-.++..|...+        
T Consensus       220 ~l~~Lg~~~~~~~~l~~~~~---------~~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~~~~~~q~  290 (486)
T TIGR02533       220 DLETLGMSPELLSRFERLIR---------RPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQIEGIGQI  290 (486)
T ss_pred             CHHHcCCCHHHHHHHHHHHh---------cCCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeeecCCCceE
Confidence            45556455666666655421         122248999999999999999887776422 222333222110        


Q ss_pred             --hhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305          427 --GAQAVTKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       427 --~~e~~~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                        ..........+...+-+.. +++|++.||-.
T Consensus       291 ~v~~~~g~~f~~~lr~~LR~d-PDvI~vGEiRd  322 (486)
T TIGR02533       291 QVNPKIGLTFAAGLRAILRQD-PDIIMVGEIRD  322 (486)
T ss_pred             EEccccCccHHHHHHHHHhcC-CCEEEEeCCCC
Confidence              0000011223333333344 79999999854

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.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.36  E-value=0.0059  Score=56.96  Aligned_cols=19  Identities=26%  Similarity=0.538  Sum_probs=18.0

Q ss_pred             ccccCCCCCCchHHHHHHH
Q 012305          390 MLFYGPPGTGKTMVAREIA  408 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA  408 (466)
                      ++|+||.|+|||++.+.++
T Consensus         2 ~~ltG~N~~GKst~l~~i~   20 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVG   20 (185)
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            6899999999999999997

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.35  E-value=0.0019  Score=61.10  Aligned_cols=27  Identities=37%  Similarity=0.535  Sum_probs=24.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      -++++|+||+|||++++.|+..+|..+
T Consensus         5 ~i~i~G~~G~GKst~a~~l~~~~~~~~   31 (197)
T PRK12339          5 IHFIGGIPGVGKTSISGYIARHRAIDI   31 (197)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            588999999999999999999987654

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.35  E-value=0.0022  Score=59.04  Aligned_cols=25  Identities=24%  Similarity=0.401  Sum_probs=22.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..++|+|+||+|||++++.|+..+.
T Consensus         8 ~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          8 YVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4689999999999999999998884

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.33  E-value=0.0048  Score=64.68  Aligned_cols=27  Identities=19%  Similarity=0.332  Sum_probs=24.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      +.|+|+|++|||||||++.|+..+|..
T Consensus       220 ~~IvI~G~~gsGKTTL~~~La~~~g~~  246 (399)
T PRK08099        220 RTVAILGGESSGKSTLVNKLANIFNTT  246 (399)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            579999999999999999999998765

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.32  E-value=0.0022  Score=60.75  Aligned_cols=35  Identities=29%  Similarity=0.320  Sum_probs=26.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC-CcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG-LDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~-~~~~~v~~~~  422 (466)
                      ..|.|.||||||||||++.|+..++ ..+..++.++
T Consensus         7 ~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~D~   42 (209)
T PRK05480          7 IIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQDS   42 (209)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeCCc
Confidence            3588999999999999999999883 3344444443

>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=96.32  E-value=0.0018  Score=61.59  Aligned_cols=31  Identities=39%  Similarity=0.580  Sum_probs=24.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      -++|+||||||||.+|-.+|+.+|.+++..+
T Consensus         3 v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~D   33 (233)
T PF01745_consen    3 VYLIVGPTGTGKTALAIALAQKTGAPVISLD   33 (233)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHHH--EEEEE-
T ss_pred             EEEEECCCCCChhHHHHHHHHHhCCCEEEec
Confidence            4789999999999999999999988876654

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PRK10436 hypothetical protein; Provisional

Probab=96.32  E-value=0.0038  Score=66.55  Aligned_cols=92  Identities=14%  Similarity=0.205  Sum_probs=50.8

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCcccch-------
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVAPLG-------  427 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~~~~-------  427 (466)
                      +|+++-..+.....+..++         ..|...+|++||+|+||||+..++...++.+ .-.++..|...+.       
T Consensus       196 ~L~~LG~~~~~~~~l~~~~---------~~~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~l~gi~Q~  266 (462)
T PRK10436        196 DLETLGMTPAQLAQFRQAL---------QQPQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIPLAGINQT  266 (462)
T ss_pred             CHHHcCcCHHHHHHHHHHH---------HhcCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCccccCCCcceE
Confidence            4555544455555555442         1233459999999999999998877766322 1123333322111       


Q ss_pred             ---hHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305          428 ---AQAVTKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       428 ---~e~~~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                         .........++..+-+.. +++|+|.||-.
T Consensus       267 ~v~~~~g~~f~~~lr~~LR~d-PDvI~vGEIRD  298 (462)
T PRK10436        267 QIHPKAGLTFQRVLRALLRQD-PDVIMVGEIRD  298 (462)
T ss_pred             eeCCccCcCHHHHHHHHhcCC-CCEEEECCCCC
Confidence               011112333444444344 79999999854

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.31  E-value=0.0029  Score=56.65  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=21.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|.||+|+|||+|.+.|+...
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCC
Confidence            458899999999999999998876

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.29  E-value=0.0031  Score=60.52  Aligned_cols=35  Identities=31%  Similarity=0.369  Sum_probs=26.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~  422 (466)
                      ..++++||||||||+++..++...   |.+++.+++..
T Consensus        21 ~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~   58 (229)
T TIGR03881        21 FFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEE   58 (229)
T ss_pred             eEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccC
Confidence            468999999999999999876533   55666666543

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.29  E-value=0.0041  Score=56.77  Aligned_cols=24  Identities=17%  Similarity=0.290  Sum_probs=21.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|.||+|+|||+|.+.|+...
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998876

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PLN02199 shikimate kinase

Probab=96.28  E-value=0.0025  Score=63.83  Aligned_cols=31  Identities=29%  Similarity=0.476  Sum_probs=27.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      ++|+|+|.+|||||++++.|+..+|++|+..
T Consensus       103 ~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDt  133 (303)
T PLN02199        103 RSMYLVGMMGSGKTTVGKLMSKVLGYTFFDC  133 (303)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCCEEeh
Confidence            4799999999999999999999999887643

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.26  E-value=0.0024  Score=58.85  Aligned_cols=24  Identities=21%  Similarity=0.365  Sum_probs=21.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .++|+||||+|||++++.|+..++
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            378999999999999999998774

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.

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=96.26  E-value=0.0014  Score=76.76  Aligned_cols=71  Identities=24%  Similarity=0.447  Sum_probs=47.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----chhHHHHHHHHHHhh-----hhhccCceEEEecccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----LGAQAVTKIHEIFDW-----AKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----~~~e~~~~l~~lf~~-----A~~~~~~~iLflDEid~l  458 (466)
                      +++||-|.||+|||+++.+||+..|...+.||.++-..    +|.+....-.+-|.|     ....+.|+-|+|||+.-.
T Consensus      1544 kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQTdL~DLfGsd~Pve~~Gef~w~dapfL~amr~G~WVlLDEiNLa 1623 (4600)
T COG5271        1544 KPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFGSDLPVEEGGEFRWMDAPFLHAMRDGGWVLLDEINLA 1623 (4600)
T ss_pred             CceeecCCCCccHHHHHHHHHHHhcCceEEeeccccchHHHHhCCCCCcccCceeEecccHHHHHhhcCCEEEeehhhhh
Confidence            45999999999999999999999999988888654321    111111111122333     122345889999998653

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=96.25  E-value=0.0031  Score=62.05  Aligned_cols=40  Identities=30%  Similarity=0.462  Sum_probs=30.5

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      +.|. +.+|++|+||||||+|+..++...   |.+++.++....
T Consensus        19 G~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~   62 (260)
T COG0467          19 GLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEES   62 (260)
T ss_pred             CCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCC
Confidence            3343 568999999999999998886655   677777776554

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.24  E-value=0.0035  Score=58.32  Aligned_cols=23  Identities=35%  Similarity=0.489  Sum_probs=21.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            58899999999999999999876

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK13808 adenylate kinase; Provisional

Probab=96.24  E-value=0.0025  Score=64.95  Aligned_cols=29  Identities=28%  Similarity=0.621  Sum_probs=25.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|+|+||||+|||+++..|+..+|..++.
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~ygl~~is   30 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQYGIVQLS   30 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            48999999999999999999999765443

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.23  E-value=0.0063  Score=60.43  Aligned_cols=73  Identities=16%  Similarity=0.265  Sum_probs=46.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcc--c---------------chhHHHHHHHHHHhhhhhccCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVA--P---------------LGAQAVTKIHEIFDWAKKSKKG  447 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~--~---------------~~~e~~~~l~~lf~~A~~~~~~  447 (466)
                      ..++|+||+|+|||+++..|+..+   +..+..++++...  .               ........+...+..+......
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~  155 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV  155 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCC
Confidence            469999999999999999998776   3444445443321  0               0001223344445544433447


Q ss_pred             eEEEecccccccc
Q 012305          448 LLLFIDEADAFLC  460 (466)
Q Consensus       448 ~iLflDEid~l~~  460 (466)
                      ++||||..+....
T Consensus       156 D~ViIDt~Gr~~~  168 (270)
T PRK06731        156 DYILIDTAGKNYR  168 (270)
T ss_pred             CEEEEECCCCCcC
Confidence            9999999988753

>PF14516 AAA_35: AAA-like domain

Probab=96.23  E-value=0.0052  Score=62.85  Aligned_cols=73  Identities=22%  Similarity=0.257  Sum_probs=48.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchh--------------------------------HHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGA--------------------------------QAVT  432 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~--------------------------------e~~~  432 (466)
                      ..+.++||..+|||++...+...+   |+.++.+++..+.....                                .+..
T Consensus        32 ~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~  111 (331)
T PF14516_consen   32 SYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDEKLDEYWDEEIGSKI  111 (331)
T ss_pred             CEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCChhHHHHHHHhcCChh
Confidence            358999999999999999887666   67777777655422000                                0111


Q ss_pred             HHHHHHhh--hhhccCceEEEecccccccc
Q 012305          433 KIHEIFDW--AKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       433 ~l~~lf~~--A~~~~~~~iLflDEid~l~~  460 (466)
                      .....|+.  ......+.||||||||.++.
T Consensus       112 ~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~  141 (331)
T PF14516_consen  112 SCTEYFEEYLLKQIDKPLVLFIDEIDRLFE  141 (331)
T ss_pred             hHHHHHHHHHHhcCCCCEEEEEechhhhcc
Confidence            22333332  23345589999999999875

>PRK07667 uridine kinase; Provisional

Probab=96.23  E-value=0.0041  Score=58.50  Aligned_cols=34  Identities=18%  Similarity=0.301  Sum_probs=27.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD  422 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~  422 (466)
                      -|.|.|+||+|||++++.|+..+   |.++..++.++
T Consensus        19 iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd   55 (193)
T PRK07667         19 ILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD   55 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence            47799999999999999999887   34555565555

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.22  E-value=0.0022  Score=59.63  Aligned_cols=34  Identities=26%  Similarity=0.509  Sum_probs=26.2

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      |.|.|+||||||++|+.|+..+   |.++..++.+++
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf   38 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDY   38 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhc
Confidence            6789999999999999999987   344555544443

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.22  E-value=0.008  Score=63.27  Aligned_cols=24  Identities=29%  Similarity=0.541  Sum_probs=21.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|+||||++..|+..+
T Consensus       192 ~vi~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        192 GVYALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            458899999999999999998754

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

Probab=96.21  E-value=0.0089  Score=61.29  Aligned_cols=74  Identities=23%  Similarity=0.340  Sum_probs=48.1

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc----------------c-----chh--HHHHHHHHHHhh--
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA----------------P-----LGA--QAVTKIHEIFDW--  440 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~----------------~-----~~~--e~~~~l~~lf~~--  440 (466)
                      .+.+|.|||.+|||||.+.+.+-+.++.+.+.++|-+-.                +     ..+  +.......+|..  
T Consensus        29 ~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~  108 (438)
T KOG2543|consen   29 IPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQLADKDGDKVEGDAENFSDFIYLLVQWP  108 (438)
T ss_pred             cceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHHHHHHhccCCCchhhhhhHHHHHHHHHHHHHhhH
Confidence            345689999999999999999999998777666653321                1     011  222333333333  


Q ss_pred             -hhhccCceEEEeccccccc
Q 012305          441 -AKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       441 -A~~~~~~~iLflDEid~l~  459 (466)
                       +.+......||||.+|.+-
T Consensus       109 ~~t~~d~~~~liLDnad~lr  128 (438)
T KOG2543|consen  109 AATNRDQKVFLILDNADALR  128 (438)
T ss_pred             HhhccCceEEEEEcCHHhhh
Confidence             2222236889999999874

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.16  E-value=0.0088  Score=55.40  Aligned_cols=71  Identities=21%  Similarity=0.275  Sum_probs=42.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhh---cC----CCc----------c------cc----hhHHHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMM---TG----GDV----------A------PL----GAQAVTKIHEIF  438 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v---~~----~~l----------~------~~----~~e~~~~l~~lf  438 (466)
                      -+.+|+++|.|||+.|-.++-..   |.+++.+   .+    +..          .      .+    ..+........+
T Consensus         7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~   86 (173)
T TIGR00708         7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAAW   86 (173)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHHH
Confidence            37788999999999999886655   5555332   11    110          0      00    001122344555


Q ss_pred             hhhhh---ccCceEEEeccccccc
Q 012305          439 DWAKK---SKKGLLLFIDEADAFL  459 (466)
Q Consensus       439 ~~A~~---~~~~~iLflDEid~l~  459 (466)
                      +.++.   .+.+++|+||||-..+
T Consensus        87 ~~a~~~l~~~~~DlvVLDEi~~A~  110 (173)
T TIGR00708        87 QHAKEMLADPELDLVLLDELTYAL  110 (173)
T ss_pred             HHHHHHHhcCCCCEEEehhhHHHH
Confidence            55554   4568999999997543

Alternate name: corrinoid adenosyltransferase.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.16  E-value=0.0029  Score=59.84  Aligned_cols=23  Identities=39%  Similarity=0.712  Sum_probs=21.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -++|+|+||+|||++|+-|++.+
T Consensus         3 LiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           3 LIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             eEEEecCCCCCchHHHHHHHHHH
Confidence            47899999999999999999998

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.15  E-value=0.0029  Score=59.40  Aligned_cols=22  Identities=41%  Similarity=0.530  Sum_probs=20.4

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.|.||+||||||+++.|+..+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999987

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.

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.15  E-value=0.0061  Score=55.00  Aligned_cols=24  Identities=33%  Similarity=0.522  Sum_probs=21.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|.||+|+|||+|.++|+..+
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~   49 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLL   49 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999999876

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01394 radB RadB

Probab=96.14  E-value=0.0071  Score=57.60  Aligned_cols=33  Identities=39%  Similarity=0.632  Sum_probs=25.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      ..++++||||||||+++..++...   |.+++.++.
T Consensus        20 ~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~   55 (218)
T cd01394          20 TVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT   55 (218)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence            347899999999999999998765   455555544

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

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.13  E-value=0.004  Score=60.49  Aligned_cols=35  Identities=23%  Similarity=0.391  Sum_probs=27.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~  422 (466)
                      ..+|++||||||||+++..++...   |.+++.++...
T Consensus        22 s~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee   59 (237)
T TIGR03877        22 NVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE   59 (237)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC
Confidence            568999999999999998765432   66777776654

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.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.12  E-value=0.0092  Score=56.78  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=19.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      +.++|+||+|+|||++.+.++..
T Consensus        30 ~~~~l~G~n~~GKstll~~i~~~   52 (204)
T cd03282          30 RFHIITGPNMSGKSTYLKQIALL   52 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999999643

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

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=96.10  E-value=0.0056  Score=67.09  Aligned_cols=92  Identities=13%  Similarity=0.167  Sum_probs=50.4

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCcccc--------
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVAPL--------  426 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~~~--------  426 (466)
                      .|+++-..+.....+..+..         .+...|||+||+|+||||+..++.+.++.+ .-.++..|...+        
T Consensus       294 ~l~~lg~~~~~~~~l~~~~~---------~~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~~~~~~q~  364 (564)
T TIGR02538       294 DIDKLGFEPDQKALFLEAIH---------KPQGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEINLPGINQV  364 (564)
T ss_pred             CHHHcCCCHHHHHHHHHHHH---------hcCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceecCCCceEE
Confidence            34555445555555554321         122358999999999999998887777422 112222222110        


Q ss_pred             --hhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305          427 --GAQAVTKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       427 --~~e~~~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                        ..+.......++..+-+.. +++|++.||-.
T Consensus       365 ~v~~~~g~~~~~~l~~~LR~d-PDvI~vGEiRd  396 (564)
T TIGR02538       365 NVNPKIGLTFAAALRSFLRQD-PDIIMVGEIRD  396 (564)
T ss_pred             EeccccCCCHHHHHHHHhccC-CCEEEeCCCCC
Confidence              1111112334444444444 79999999864

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.10  E-value=0.0055  Score=59.13  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=22.4

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhC
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +.-+.|.||+|+|||||++.|+..+.
T Consensus        33 ~~iigi~G~~GsGKTTl~~~L~~~l~   58 (229)
T PRK09270         33 RTIVGIAGPPGAGKSTLAEFLEALLQ   58 (229)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            34577899999999999999998873

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.10  E-value=0.0087  Score=57.74  Aligned_cols=22  Identities=27%  Similarity=0.360  Sum_probs=19.8

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      ..++|+||+|+|||++.+.++.
T Consensus        32 ~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          32 YCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999977

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

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=96.09  E-value=0.0087  Score=65.55  Aligned_cols=50  Identities=16%  Similarity=0.236  Sum_probs=33.0

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      ......+++.+.|...   . ..+. . ....|+|+|+||||||++++.|+..++.
T Consensus       369 P~~f~rpeV~~iL~~~---~-~~r~-~-~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        369 PEWFSFPEVVAELRRT---Y-PPRH-K-QGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             ChhhcHHHHHHHHHHH---h-cccc-C-CCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            3444556666655443   1 1111 1 1236889999999999999999998864

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=96.08  E-value=0.008  Score=51.16  Aligned_cols=21  Identities=24%  Similarity=0.509  Sum_probs=19.5

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|.|+||+|||+|..+|.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999874

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.08  E-value=0.0039  Score=58.71  Aligned_cols=25  Identities=20%  Similarity=0.533  Sum_probs=22.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..++|+||||||||++++.|+..++
T Consensus         6 ~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          6 LLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCc
Confidence            4589999999999999999999875

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=96.07  E-value=0.0033  Score=70.98  Aligned_cols=70  Identities=21%  Similarity=0.277  Sum_probs=39.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------chhHHHHHHHHH-Hhhhh---hccCceEEEeccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LGAQAVTKIHEI-FDWAK---KSKKGLLLFIDEA  455 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~~e~~~~l~~l-f~~A~---~~~~~~iLflDEi  455 (466)
                      .++|.|+||||||++++++...+   |+.++.+......-      .+.. ...++.+ ..+..   ...+..+|||||+
T Consensus       370 ~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~~g~~-a~Ti~~~~~~~~~~~~~~~~~~llIvDEa  448 (744)
T TIGR02768       370 IAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAESGIE-SRTLASLEYAWANGRDLLSDKDVLVIDEA  448 (744)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhccCCc-eeeHHHHHhhhccCcccCCCCcEEEEECc
Confidence            47899999999999999997554   55544332111110      1111 1123333 22211   1234689999999


Q ss_pred             cccc
Q 012305          456 DAFL  459 (466)
Q Consensus       456 d~l~  459 (466)
                      ..+.
T Consensus       449 sMv~  452 (744)
T TIGR02768       449 GMVG  452 (744)
T ss_pred             ccCC
Confidence            8764

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

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

Probab=96.06  E-value=0.003  Score=60.64  Aligned_cols=37  Identities=30%  Similarity=0.442  Sum_probs=24.9

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh----CCcchhhcC
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTG  420 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~  420 (466)
                      +.|. ..+|++||||||||+++..++...    |.+++.++.
T Consensus        15 Gip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~   56 (226)
T PF06745_consen   15 GIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF   56 (226)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES
T ss_pred             CCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe
Confidence            3444 468899999999999998775333    556555553

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 ....

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=96.06  E-value=0.0056  Score=55.97  Aligned_cols=67  Identities=15%  Similarity=0.217  Sum_probs=42.3

Q ss_pred             cCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          393 YGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       393 ~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .+.+||||||++.+|++-+|- +-.+..+++...  ....-+..+.+.+.... ..+||+|==.++...|.
T Consensus         5 IAtiGCGKTTva~aL~~LFg~-wgHvQnDnI~~k--~~~~f~~~~l~~L~~~~-~~vViaDRNNh~~reR~   71 (168)
T PF08303_consen    5 IATIGCGKTTVALALSNLFGE-WGHVQNDNITGK--RKPKFIKAVLELLAKDT-HPVVIADRNNHQKRERK   71 (168)
T ss_pred             ecCCCcCHHHHHHHHHHHcCC-CCccccCCCCCC--CHHHHHHHHHHHHhhCC-CCEEEEeCCCchHHHHH
Confidence            589999999999999999974 556666666432  22223334444442222 56888885555544443

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>TIGR00416 sms DNA repair protein RadA

Probab=96.05  E-value=0.0066  Score=64.75  Aligned_cols=72  Identities=19%  Similarity=0.289  Sum_probs=45.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--------chhH-------HHHHHHHHHhhhhhccCceE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--------LGAQ-------AVTKIHEIFDWAKKSKKGLL  449 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--------~~~e-------~~~~l~~lf~~A~~~~~~~i  449 (466)
                      ..+||+|+||+|||+|+..++...   +.+++++++.+...        ++..       ....+..+...+...+ +.+
T Consensus        95 svilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~qi~~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~~-~~~  173 (454)
T TIGR00416        95 SLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEPNLYVLSETNWEQICANIEEEN-PQA  173 (454)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHHHHHHHHHcCCChHHeEEcCCCCHHHHHHHHHhcC-CcE
Confidence            458899999999999999987665   45666666543211        0000       0122344444454444 789


Q ss_pred             EEecccccccc
Q 012305          450 LFIDEADAFLC  460 (466)
Q Consensus       450 LflDEid~l~~  460 (466)
                      ||||-|..+..
T Consensus       174 vVIDSIq~l~~  184 (454)
T TIGR00416       174 CVIDSIQTLYS  184 (454)
T ss_pred             EEEecchhhcc
Confidence            99999988753

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)).

>PRK12338 hypothetical protein; Provisional

Probab=96.04  E-value=0.0037  Score=63.34  Aligned_cols=28  Identities=29%  Similarity=0.425  Sum_probs=25.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      ..+++.|+||||||++|+.||..+|..+
T Consensus         5 ~ii~i~G~sGsGKST~a~~la~~l~~~~   32 (319)
T PRK12338          5 YVILIGSASGIGKSTIASELARTLNIKH   32 (319)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHCCCeE
Confidence            4688999999999999999999998754

>PRK08356 hypothetical protein; Provisional

Probab=96.03  E-value=0.0038  Score=58.73  Aligned_cols=31  Identities=26%  Similarity=0.277  Sum_probs=23.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD  422 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~  422 (466)
                      .++|+||||+||||+|+.|.. .|.+  .++.++
T Consensus         7 ~i~~~G~~gsGK~t~a~~l~~-~g~~--~is~~~   37 (195)
T PRK08356          7 IVGVVGKIAAGKTTVAKFFEE-KGFC--RVSCSD   37 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCc--EEeCCC
Confidence            478999999999999999964 5554  444444

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.03  E-value=0.014  Score=60.88  Aligned_cols=75  Identities=23%  Similarity=0.332  Sum_probs=55.0

Q ss_pred             cccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-----------------ch----hHHHHHHHHHHhh
Q 012305          385 APFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-----------------LG----AQAVTKIHEIFDW  440 (466)
Q Consensus       385 ~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-----------------~~----~e~~~~l~~lf~~  440 (466)
                      .|+..|||+|--|+||||+|..||.++   |+.+..+.|+..-|                 ++    .+.+...+..++.
T Consensus        98 ~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~  177 (451)
T COG0541          98 KPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEK  177 (451)
T ss_pred             CCCeEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHH
Confidence            456779999999999999999999998   66666666554311                 11    1234455777788


Q ss_pred             hhhccCceEEEecccccccc
Q 012305          441 AKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       441 A~~~~~~~iLflDEid~l~~  460 (466)
                      ++... +++|++|-++.+.-
T Consensus       178 ak~~~-~DvvIvDTAGRl~i  196 (451)
T COG0541         178 AKEEG-YDVVIVDTAGRLHI  196 (451)
T ss_pred             HHHcC-CCEEEEeCCCcccc
Confidence            88655 79999999988753

>PTZ00121 MAEBL; Provisional

Probab=96.01  E-value=0.21  Score=58.51  Aligned_cols=19  Identities=11%  Similarity=0.034  Sum_probs=9.5

Q ss_pred             cCCCCCCchH-HHHHHHHhh
Q 012305          393 YGPPGTGKTM-VAREIARKS  411 (466)
Q Consensus       393 ~GppGTGKT~-lA~alA~~l  411 (466)
                      +|.---.+|- |+.+|...+
T Consensus      1963 sgtCS~eerk~LCCSISdYC 1982 (2084)
T PTZ00121       1963 SGNCSDEERKELCCSISDFC 1982 (2084)
T ss_pred             CCCCChhhhhchhhhHHHHH
Confidence            5554444443 555555443

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.01  E-value=0.0046  Score=57.98  Aligned_cols=25  Identities=12%  Similarity=0.286  Sum_probs=22.0

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ++-++|+||||+|||++++.|....
T Consensus         4 ~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          4 PKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhcC
Confidence            3458999999999999999998776

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.00  E-value=0.0034  Score=57.79  Aligned_cols=24  Identities=21%  Similarity=0.542  Sum_probs=21.5

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      ++|+||+|+|||++++.|+...+.
T Consensus         4 i~l~G~~GsGKsTl~~~L~~~~~~   27 (180)
T TIGR03263         4 IVISGPSGVGKSTLVKALLEEDPN   27 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHccCcc
Confidence            789999999999999999987643

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.

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=95.99  E-value=0.0045  Score=64.53  Aligned_cols=43  Identities=28%  Similarity=0.429  Sum_probs=32.7

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +++|.-+.+.++++|..-        .     .++|+.||||.||||||.+||.++
T Consensus       245 ~ledY~L~dkl~eRL~er--------a-----eGILIAG~PGaGKsTFaqAlAefy  287 (604)
T COG1855         245 SLEDYGLSDKLKERLEER--------A-----EGILIAGAPGAGKSTFAQALAEFY  287 (604)
T ss_pred             chhhcCCCHHHHHHHHhh--------h-----cceEEecCCCCChhHHHHHHHHHH
Confidence            444555566666666532        1     369999999999999999999988

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.96  E-value=0.012  Score=58.92  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+-|.|+||+|||+|...+.+.+
T Consensus       106 ~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463        106 VLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            35688999999999999998876

>PLN02165 adenylate isopentenyltransferase

Probab=95.95  E-value=0.0046  Score=62.97  Aligned_cols=26  Identities=19%  Similarity=0.440  Sum_probs=23.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      .++|.||||+|||+|+..||..++..
T Consensus        45 iivIiGPTGSGKStLA~~LA~~l~~e   70 (334)
T PLN02165         45 VVVIMGATGSGKSRLSVDLATRFPSE   70 (334)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHcCCc
Confidence            58999999999999999999998754

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=95.91  E-value=0.0048  Score=67.76  Aligned_cols=23  Identities=35%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|+|+||||||+++..|...+
T Consensus       162 ~~vitGgpGTGKTt~v~~ll~~l  184 (586)
T TIGR01447       162 FSLITGGPGTGKTTTVARLLLAL  184 (586)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHH
Confidence            48899999999999988875544

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=95.90  E-value=0.0088  Score=69.09  Aligned_cols=69  Identities=22%  Similarity=0.231  Sum_probs=39.2

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------chhHHHHHHHHHHh-hhh---hccCceEEEecccc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LGAQAVTKIHEIFD-WAK---KSKKGLLLFIDEAD  456 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~~e~~~~l~~lf~-~A~---~~~~~~iLflDEid  456 (466)
                      ++|.|+||||||++.+.+...+   |+.++.+......-      .|.. ...++.++. |..   ...+..||||||+.
T Consensus       365 ~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~tGi~-a~TI~sll~~~~~~~~~l~~~~vlIVDEAS  443 (988)
T PRK13889        365 GVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGGSGIA-SRTIASLEHGWGQGRDLLTSRDVLVIDEAG  443 (988)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhccCcc-hhhHHHHHhhhcccccccccCcEEEEECcc
Confidence            6799999999999988775543   55544332211110      1111 233444432 111   12345799999998


Q ss_pred             ccc
Q 012305          457 AFL  459 (466)
Q Consensus       457 ~l~  459 (466)
                      .+.
T Consensus       444 Mv~  446 (988)
T PRK13889        444 MVG  446 (988)
T ss_pred             cCC
Confidence            764

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.89  E-value=0.007  Score=61.02  Aligned_cols=75  Identities=7%  Similarity=-0.053  Sum_probs=44.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcc-hhhcCCCcc----cc---hh-HHHHHHHHHHhhhhhc----cCceEEEecc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDY-AMMTGGDVA----PL---GA-QAVTKIHEIFDWAKKS----KKGLLLFIDE  454 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~-~~v~~~~l~----~~---~~-e~~~~l~~lf~~A~~~----~~~~iLflDE  454 (466)
                      ..+||||+.|+||+.+++.++..+-+.. -.+..++.+    .+   |. -....++.+.+.....    +.+.|++||+
T Consensus        19 haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~~~~~~~~~~~~KvvII~~   98 (299)
T PRK07132         19 HSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINKLYFSSFVQSQKKILIIKN   98 (299)
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHHhccCCcccCCceEEEEec
Confidence            4688999999999999999988872110 001111100    00   11 1234555555544332    2578999999


Q ss_pred             cccccccc
Q 012305          455 ADAFLCDN  462 (466)
Q Consensus       455 id~l~~~r  462 (466)
                      +|.|...-
T Consensus        99 ~e~m~~~a  106 (299)
T PRK07132         99 IEKTSNSL  106 (299)
T ss_pred             ccccCHHH
Confidence            99986543

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=95.89  E-value=0.0034  Score=67.62  Aligned_cols=68  Identities=25%  Similarity=0.226  Sum_probs=41.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCCC--cc---cchhHHHH----HHHHHHhhhhhccCceEEEeccccccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD--VA---PLGAQAVT----KIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~--l~---~~~~e~~~----~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      ||||+|.|||||+-+.+.+++-+...++...-|.  ++   +...+.++    .-.+.+-.|.    ++|-+|||.|.|.
T Consensus       484 nvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~KdPvtrEWTLEaGALVLAD----kGvClIDEFDKMn  559 (854)
T KOG0477|consen  484 NVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRKDPVTREWTLEAGALVLAD----KGVCLIDEFDKMN  559 (854)
T ss_pred             eEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEeeCCccceeeeccCeEEEcc----CceEEeehhhhhc
Confidence            8999999999999999999988755433322111  10   00111111    1122233333    6788999999996


Q ss_pred             c
Q 012305          460 C  460 (466)
Q Consensus       460 ~  460 (466)
                      .
T Consensus       560 d  560 (854)
T KOG0477|consen  560 D  560 (854)
T ss_pred             c
Confidence            3

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.88  E-value=0.0044  Score=55.08  Aligned_cols=24  Identities=21%  Similarity=0.531  Sum_probs=21.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      ++|+||+|+|||++++.|+..+..
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~~~   25 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEFDP   25 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCc
Confidence            678999999999999999998643

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.

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.85  E-value=0.0054  Score=56.91  Aligned_cols=25  Identities=24%  Similarity=0.499  Sum_probs=22.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      .++|+||+|+|||++++.|+..++.
T Consensus         5 ~i~l~G~sGsGKSTl~~~la~~l~~   29 (176)
T PRK09825          5 SYILMGVSGSGKSLIGSKIAALFSA   29 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCC
Confidence            4889999999999999999998865

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.84  E-value=0.0047  Score=57.99  Aligned_cols=23  Identities=35%  Similarity=0.602  Sum_probs=21.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhhC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      |.|.||||+||||||+.|+..++
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            56899999999999999999996

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 ....

>TIGR00235 udk uridine kinase

Probab=95.83  E-value=0.0052  Score=58.27  Aligned_cols=24  Identities=42%  Similarity=0.520  Sum_probs=21.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      -+.|.||+|+||||+++.|+..++
T Consensus         8 vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         8 IIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            477899999999999999998775

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=95.82  E-value=0.015  Score=57.08  Aligned_cols=25  Identities=24%  Similarity=0.302  Sum_probs=21.7

Q ss_pred             ccccccccCCCCCCchHHHHHHHHh
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      +..+|+|.|.+|+|||+++.+|.+.
T Consensus        30 ~~~~IllvG~tGvGKSSliNaLlg~   54 (249)
T cd01853          30 FSLTILVLGKTGVGKSSTINSIFGE   54 (249)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCC
Confidence            3457999999999999999999764

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>PRK04328 hypothetical protein; Provisional

Probab=95.82  E-value=0.0063  Score=59.63  Aligned_cols=35  Identities=23%  Similarity=0.399  Sum_probs=26.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~  422 (466)
                      ..+|++||||||||+|+..++...   |.+.+.++...
T Consensus        24 s~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee   61 (249)
T PRK04328         24 NVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEE   61 (249)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeC
Confidence            568899999999999988775442   56666666544

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=95.81  E-value=0.014  Score=55.93  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.5

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      +-++|+||+|+|||++.+.++.
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            3588999999999999999964

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam

>PRK13975 thymidylate kinase; Provisional

Probab=95.81  E-value=0.0057  Score=57.07  Aligned_cols=26  Identities=35%  Similarity=0.396  Sum_probs=23.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      -++|.|++|+||||+++.|+..++..
T Consensus         4 ~I~ieG~~GsGKtT~~~~L~~~l~~~   29 (196)
T PRK13975          4 FIVFEGIDGSGKTTQAKLLAEKLNAF   29 (196)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            47899999999999999999999753

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=95.79  E-value=0.0097  Score=69.57  Aligned_cols=69  Identities=20%  Similarity=0.389  Sum_probs=43.1

Q ss_pred             cccccccCCCCCCchHH-HHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhh------cc----CceEEEeccc
Q 012305          387 FRNMLFYGPPGTGKTMV-AREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKK------SK----KGLLLFIDEA  455 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~l-A~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~------~~----~~~iLflDEi  455 (466)
                      .|+++++||||+|||++ ..+|-..+...|+.+|.+.-.... ...+.++.-..+...      ++    ...|||+|||
T Consensus      1494 ~R~~i~cGppGSgK~mlM~~sLrs~~~~ev~~~Nfs~~t~T~-s~ls~Ler~t~yy~~tg~~~l~PK~~vK~lVLFcDeI 1572 (3164)
T COG5245        1494 LRSYIYCGPPGSGKEMLMCPSLRSELITEVKYFNFSTCTMTP-SKLSVLERETEYYPNTGVVRLYPKPVVKDLVLFCDEI 1572 (3164)
T ss_pred             cceEEEECCCCCccchhcchhhhhhhheeeeEEeeccccCCH-HHHHHHHhhceeeccCCeEEEccCcchhheEEEeecc
Confidence            35699999999999995 677777777788777765432211 112222222222221      11    2389999999


Q ss_pred             c
Q 012305          456 D  456 (466)
Q Consensus       456 d  456 (466)
                      .
T Consensus      1573 n 1573 (3164)
T COG5245        1573 N 1573 (3164)
T ss_pred             C
Confidence            8

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=95.79  E-value=0.0051  Score=57.04  Aligned_cols=25  Identities=28%  Similarity=0.446  Sum_probs=21.8

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      |.|+|+||+|||++++.|+. +|.++
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~   26 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPV   26 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCE
Confidence            67899999999999999998 66543

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=95.74  E-value=0.0056  Score=61.52  Aligned_cols=28  Identities=29%  Similarity=0.459  Sum_probs=25.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      -.++|.|+||||||++|..||..+|.++
T Consensus        93 ~iIlI~G~sgsGKStlA~~La~~l~~~~  120 (301)
T PRK04220         93 IIILIGGASGVGTSTIAFELASRLGIRS  120 (301)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            3589999999999999999999998774

>TIGR00017 cmk cytidylate kinase

Probab=95.73  E-value=0.006  Score=58.63  Aligned_cols=28  Identities=39%  Similarity=0.686  Sum_probs=24.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .+.|.||+|||||++++.|+..++.+++
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~~~~~~~   31 (217)
T TIGR00017         4 IIAIDGPSGAGKSTVAKAVAEKLGYAYL   31 (217)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcee
Confidence            4778999999999999999999986544

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.

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=95.73  E-value=0.013  Score=58.86  Aligned_cols=79  Identities=18%  Similarity=0.168  Sum_probs=46.4

Q ss_pred             cccccccccCCCCCCchHHHHHHHHhhCCc-------------chhhc---CCCcccchhH----HHHHHHHHHhhhhh-
Q 012305          385 APFRNMLFYGPPGTGKTMVAREIARKSGLD-------------YAMMT---GGDVAPLGAQ----AVTKIHEIFDWAKK-  443 (466)
Q Consensus       385 ~p~~~vLl~GppGTGKT~lA~alA~~l~~~-------------~~~v~---~~~l~~~~~e----~~~~l~~lf~~A~~-  443 (466)
                      ..+..+||+||  +||+++|..+|..+-..             .-.+.   -+|+.....+    ....++.+...+.. 
T Consensus        22 rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~I~idqIR~l~~~~~~~   99 (290)
T PRK07276         22 RLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQVIKTDTIRELVKNFSQS   99 (290)
T ss_pred             CcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCcCCHHHHHHHHHHHhhC
Confidence            34457999996  68999999998877210             01121   2332111111    23455555544432 


Q ss_pred             --ccCceEEEeccccccccccCCC
Q 012305          444 --SKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       444 --~~~~~iLflDEid~l~~~r~~~  465 (466)
                        .+++.|+|||++|.|...-.|+
T Consensus       100 p~~~~~kV~II~~ad~m~~~AaNa  123 (290)
T PRK07276        100 GYEGKQQVFIIKDADKMHVNAANS  123 (290)
T ss_pred             cccCCcEEEEeehhhhcCHHHHHH
Confidence              3346899999999998665443

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=95.72  E-value=0.0061  Score=57.26  Aligned_cols=23  Identities=26%  Similarity=0.297  Sum_probs=20.8

Q ss_pred             ccccCCCCCCchHHHHHHHHhhC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      |.+.|+||||||++|+.|+..++
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~~   24 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRILP   24 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            56889999999999999999883

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.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.71  E-value=0.0044  Score=63.57  Aligned_cols=22  Identities=41%  Similarity=0.611  Sum_probs=20.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.|.||+||||||+.++||..-
T Consensus        34 ~~lLGPSGcGKTTlLR~IAGfe   55 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAGFE   55 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6699999999999999999876

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=95.71  E-value=0.002  Score=70.54  Aligned_cols=71  Identities=11%  Similarity=0.083  Sum_probs=46.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC--cchhhcCCCccc--chhH-HHH--------HHHHHHhhhhhccCceEEEecc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL--DYAMMTGGDVAP--LGAQ-AVT--------KIHEIFDWAKKSKKGLLLFIDE  454 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~--~~~~v~~~~l~~--~~~e-~~~--------~l~~lf~~A~~~~~~~iLflDE  454 (466)
                      .+|||.|++||||+++++.++.-+..  +|..+..+.-..  +|+- ...        ...+++..|.    ++||||||
T Consensus        26 gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~~pGlla~Ah----~GvL~lDe  101 (584)
T PRK13406         26 GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAATLRAGRPVAQRGLLAEAD----GGVLVLAM  101 (584)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCchHHhHhhcCCcCCCCCceeecc----CCEEEecC
Confidence            57999999999999999999998854  776654332111  1211 000        1134444443    68999999


Q ss_pred             cccccccc
Q 012305          455 ADAFLCDN  462 (466)
Q Consensus       455 id~l~~~r  462 (466)
                      +..|.++-
T Consensus       102 ~n~~~~~~  109 (584)
T PRK13406        102 AERLEPGT  109 (584)
T ss_pred             cccCCHHH
Confidence            99887653

>PRK11545 gntK gluconate kinase 1; Provisional

Probab=95.70  E-value=0.0062  Score=55.74  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=19.8

Q ss_pred             cCCCCCCchHHHHHHHHhhCCc
Q 012305          393 YGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       393 ~GppGTGKT~lA~alA~~l~~~  414 (466)
                      .||||||||++++.|+..+|..
T Consensus         1 ~G~sGsGKSTla~~la~~l~~~   22 (163)
T PRK11545          1 MGVSGSGKSAVASEVAHQLHAA   22 (163)
T ss_pred             CCCCCCcHHHHHHHHHHHhCCe
Confidence            4999999999999999999753

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=95.67  E-value=0.0052  Score=59.90  Aligned_cols=30  Identities=27%  Similarity=0.457  Sum_probs=21.9

Q ss_pred             ccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          392 FYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       392 l~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      +.||||+||||+++.+...+   |.+++.+|-+
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNLD   33 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNLD   33 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE--
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceEEEcc
Confidence            47999999999999999888   5566666643

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK10536 hypothetical protein; Provisional

Probab=95.66  E-value=0.008  Score=59.11  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=20.2

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .++++||+|||||++|.+++..
T Consensus        76 lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         76 LIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999885

>PF00488 MutS_V: MutS domain V C-terminus

Probab=95.62  E-value=0.016  Score=56.37  Aligned_cols=67  Identities=22%  Similarity=0.356  Sum_probs=38.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh-----CCc--------------chhhcCCCcccch----hHHHHHHHHHHhhhhhc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS-----GLD--------------YAMMTGGDVAPLG----AQAVTKIHEIFDWAKKS  444 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l-----~~~--------------~~~v~~~~l~~~~----~e~~~~l~~lf~~A~~~  444 (466)
                      +.++|+||+.+|||++.|.++-..     |..              |..+...+-...+    ......+..+++.+.  
T Consensus        44 ~~~iiTGpN~sGKSt~lk~i~~~~ilaq~G~~VPA~~~~i~~~d~I~t~~~~~d~~~~~~S~F~~E~~~~~~il~~~~--  121 (235)
T PF00488_consen   44 RIIIITGPNMSGKSTFLKQIGLIVILAQIGCFVPAESAEIPIFDRIFTRIGDDDSIESGLSTFMAEMKRLSSILRNAT--  121 (235)
T ss_dssp             SEEEEESSTTSSHHHHHHHHHHHHHHHTTT--BSSSEEEEE--SEEEEEES---SSTTSSSHHHHHHHHHHHHHHH----
T ss_pred             eEEEEeCCCccchhhHHHHHHHHhhhhhcCceeeecccccccccEEEeecccccccccccccHHHhHHHHHhhhhhcc--
Confidence            458999999999999999996544     321              1111121111111    122345566666543  


Q ss_pred             cCceEEEeccccc
Q 012305          445 KKGLLLFIDEADA  457 (466)
Q Consensus       445 ~~~~iLflDEid~  457 (466)
                       ..++|+|||+..
T Consensus       122 -~~sLvliDE~g~  133 (235)
T PF00488_consen  122 -EKSLVLIDELGR  133 (235)
T ss_dssp             -TTEEEEEESTTT
T ss_pred             -cceeeecccccC
Confidence             378999999975

; InterPro: IPR000432 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the C-terminal domain found in proteins in the MutS family of DNA mismatch repair proteins. The C-terminal region of MutS is comprised of the ATPase domain and the HTH (helix-turn-helix) domain, the latter being involved in dimer contacts. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. ; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B ....

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.61  E-value=0.0069  Score=62.04  Aligned_cols=35  Identities=29%  Similarity=0.507  Sum_probs=29.0

Q ss_pred             ccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVA  424 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~  424 (466)
                      +.|+|+||+||||+++.|+..+    |..+..++++++.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i   40 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDII   40 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccccc
Confidence            5789999999999999998665    5677778777764

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.

>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=95.60  E-value=0.0074  Score=55.86  Aligned_cols=29  Identities=28%  Similarity=0.531  Sum_probs=24.2

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMM  418 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v  418 (466)
                      |.|.||+|+||||+++.|+..+   |..++.+
T Consensus         3 I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~   34 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAERLEARGYEVVLT   34 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            6789999999999999999988   5555443

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=95.59  E-value=0.012  Score=57.69  Aligned_cols=23  Identities=30%  Similarity=0.598  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|=|+||||.||++|...|...+
T Consensus        31 ~iGiTG~PGaGKSTli~~l~~~~   53 (266)
T PF03308_consen   31 VIGITGPPGAGKSTLIDALIREL   53 (266)
T ss_dssp             EEEEEE-TTSSHHHHHHHHHHHH
T ss_pred             EEEeeCCCCCcHHHHHHHHHHHH
Confidence            46689999999999999998877

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PRK00023 cmk cytidylate kinase; Provisional

Probab=95.58  E-value=0.0078  Score=58.15  Aligned_cols=28  Identities=39%  Similarity=0.695  Sum_probs=24.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .+.|.||||||||++++.|+..+|.+|+
T Consensus         6 ~i~i~g~~gsGksti~~~la~~~~~~~~   33 (225)
T PRK00023          6 VIAIDGPAGSGKGTVAKILAKKLGFHYL   33 (225)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCcc
Confidence            5789999999999999999999987653

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=95.55  E-value=0.01  Score=47.68  Aligned_cols=30  Identities=27%  Similarity=0.434  Sum_probs=24.5

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      ++++|.+|+|||+++..++..+   |.+++.++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~   34 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID   34 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence            5788999999999999999887   56555444

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=95.55  E-value=0.0076  Score=56.90  Aligned_cols=28  Identities=21%  Similarity=0.361  Sum_probs=24.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .+.++|++|+|||++++.|+..+|.+++
T Consensus         3 ~i~itG~~gsGKst~~~~l~~~~g~~~i   30 (195)
T PRK14730          3 RIGLTGGIASGKSTVGNYLAQQKGIPIL   30 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCCeEe
Confidence            3789999999999999999998776543

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=95.55  E-value=0.00096  Score=68.21  Aligned_cols=68  Identities=22%  Similarity=0.292  Sum_probs=37.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC-----ccc-chhHH----HHHHHHHHhhhhhccCceEEEeccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-----VAP-LGAQA----VTKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~-----l~~-~~~e~----~~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                      -|+||+|.||||||.+.+.++..+...+ .++|..     +.. ...+.    ...-.+.+-.|.    ++|++|||+|.
T Consensus        58 ihiLlvGdpg~gKS~ll~~~~~~~pr~v-~~~g~~~s~~gLta~~~~d~~~~~~~leaGalvlad----~GiccIDe~dk  132 (331)
T PF00493_consen   58 IHILLVGDPGTGKSQLLKYVAKLAPRSV-YTSGKGSSAAGLTASVSRDPVTGEWVLEAGALVLAD----GGICCIDEFDK  132 (331)
T ss_dssp             --EEEECSCHHCHHHHHHCCCCT-SSEE-EEECCGSTCCCCCEEECCCGGTSSECEEE-HHHHCT----TSEEEECTTTT
T ss_pred             cceeeccchhhhHHHHHHHHHhhCCceE-EECCCCcccCCccceeccccccceeEEeCCchhccc----Cceeeeccccc
Confidence            4899999999999999998876654332 222211     111 00000    000123333333    78999999999


Q ss_pred             ccc
Q 012305          458 FLC  460 (466)
Q Consensus       458 l~~  460 (466)
                      +..
T Consensus       133 ~~~  135 (331)
T PF00493_consen  133 MKE  135 (331)
T ss_dssp             --C
T ss_pred             ccc
Confidence            865

; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.54  E-value=0.014  Score=62.84  Aligned_cols=74  Identities=19%  Similarity=0.139  Sum_probs=45.5

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--------ch---------------------hHH
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--------LG---------------------AQA  430 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--------~~---------------------~e~  430 (466)
                      +.|. ..+|+.||||||||+|+-.++...   |.+++++++.....        +|                     ...
T Consensus       259 G~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~~  338 (484)
T TIGR02655       259 GFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAGL  338 (484)
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCCh
Confidence            3444 458899999999999998887655   44555554333210        00                     011


Q ss_pred             HHHHHHHHhhhhhccCceEEEecccccc
Q 012305          431 VTKIHEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       431 ~~~l~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                      ...+..+.+.....+ +.+|+||=+..|
T Consensus       339 ~~~~~~i~~~i~~~~-~~~vvIDsi~~~  365 (484)
T TIGR02655       339 EDHLQIIKSEIADFK-PARIAIDSLSAL  365 (484)
T ss_pred             HHHHHHHHHHHHHcC-CCEEEEcCHHHH
Confidence            334555555555444 678899988765

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.

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=95.52  E-value=0.01  Score=53.65  Aligned_cols=37  Identities=27%  Similarity=0.713  Sum_probs=29.5

Q ss_pred             cccc-cccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305          385 APFR-NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV  423 (466)
Q Consensus       385 ~p~~-~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l  423 (466)
                      .|++ .+++.|++||||||++++|...++.+|+.  |+|+
T Consensus         9 ~~~k~~i~vmGvsGsGKSTigk~L~~~l~~~F~d--gDd~   46 (191)
T KOG3354|consen    9 GPFKYVIVVMGVSGSGKSTIGKALSEELGLKFID--GDDL   46 (191)
T ss_pred             CCCceeEEEEecCCCChhhHHHHHHHHhCCcccc--cccC
Confidence            4454 57788999999999999999999987653  4444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	466
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		8e-09
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		8e-09
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		8e-09
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		8e-09
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		1e-08
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		1e-08
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		2e-07
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		3e-07
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		4e-07
3vfd_A	389	Human Spastin Aaa Domain Length = 389		9e-07
3eie_A	322	Crystal Structure Of S.Cerevisiae Vps4 In The So4-B		1e-06
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		1e-06
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		2e-06
2rko_A	331	Crystal Structure Of The Vps4p-Dimer Length = 331		5e-06
2ce7_A	476	Edta Treated Length = 476		6e-06
2qp9_X	355	Crystal Structure Of S.Cerevisiae Vps4 Length = 355		7e-06
3eih_A	340	Crystal Structure Of S.Cerevisiae Vps4 In The Prese		7e-06
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		8e-06
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		2e-05
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		2e-05
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		3e-05
3d8b_A	357	Crystal Structure Of Human Fidgetin-Like Protein 1		5e-05
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		8e-05
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		9e-05
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		9e-05
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		1e-04
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		2e-04
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		2e-04
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		2e-04
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		2e-04
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		3e-04
1ixr_C	312	Ruva-Ruvb Complex Length = 312		7e-04

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 58.5 bits (140), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 49/74 (66%), Gaps = 2/74 (2%)
Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 444
           P R +L YGPPGTGKT++AR +A ++G  + ++ G ++ + L  ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296
Query: 445 KKGLLLFIDEADAF 458
               ++FIDE DA 
Sbjct: 297 APA-IIFIDELDAI 309

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 58.5 bits (140), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 50/78 (64%), Gaps = 2/78 (2%)
Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDW 440
           I   P R +L YGPPGTGKT++AR +A ++G  + ++ G ++ + L  ++ + + + F+ 
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEE 292
Query: 441 AKKSKKGLLLFIDEADAF 458
           A+K+    ++FIDE DA 
Sbjct: 293 AEKNAPA-IIFIDELDAI 309

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score = 58.5 bits (140), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 49/74 (66%), Gaps = 2/74 (2%)
Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 444
           P R +L YGPPGTGKT++AR +A ++G  + ++ G ++ + L  ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296
Query: 445 KKGLLLFIDEADAF 458
               ++FIDE DA 
Sbjct: 297 APA-IIFIDELDAI 309

>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 = 58.5 bits (140), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 49/74 (66%), Gaps = 2/74 (2%)
Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDWAKKS 444
           P R +L YGPPGTGKT++AR +A ++G  + ++ G ++ + L  ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296
Query: 445 KKGLLLFIDEADAF 458
               ++FIDE DA 
Sbjct: 297 APA-IIFIDELDAI 309

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 50/78 (64%), Gaps = 2/78 (2%)
Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDW 440
           I   P R +L YGPPGTGKT++AR +A ++G  + ++ G ++ + L  ++ + + + F+ 
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEE 292
Query: 441 AKKSKKGLLLFIDEADAF 458
           A+K+    ++FIDE DA 
Sbjct: 293 AEKNAPA-IIFIDELDAI 309

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 50/78 (64%), Gaps = 2/78 (2%)
Query: 382 IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-APLGAQAVTKIHEIFDW 440
           I   P R +L YGPPGTGKT++AR +A ++G  + ++ G ++ + L  ++ + + + F+ 
Sbjct: 233 IGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEE 292
Query: 441 AKKSKKGLLLFIDEADAF 458
           A+K+    ++FIDE DA 
Sbjct: 293 AEKNAPA-IIFIDELDAI 309

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 26/73 (35%), Positives = 43/73 (58%), Gaps = 2/73 (2%)
Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKS 444
           P + +L YGPPGTGKT+ AR +A ++   +  + G + V     +    + E+F+ A ++
Sbjct: 242 PPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVRELFEMA-RT 300
Query: 445 KKGLLLFIDEADA 457
           KK  ++F DE DA
Sbjct: 301 KKACIIFFDEIDA 313

>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP Length = 301

Iteration: 1
 Score = 53.1 bits (126), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 29/98 (29%), Positives = 53/98 (54%), Gaps = 7/98 (7%)
Query: 366 LQRRIQHLAKATAN-----TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG 420
           ++R +Q L +          K    P + +LFYGPPG GKT++A+ IA +   ++  + G
Sbjct: 23  VKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKG 82
Query: 421 GDVAPLG-AQAVTKIHEIFDWAKKSKKGLLLFIDEADA 457
            ++  +   ++   + EIFD A+++   +L F DE D+
Sbjct: 83  PELLTMWFGESEANVREIFDKARQAAPCVLFF-DELDS 119

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score = 52.8 bits (125), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 28/85 (32%), Positives = 47/85 (55%), Gaps = 2/85 (2%)
Query: 381 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFD 439
           K+   P + +L YGPPGTGKT++A+ +A ++   +  + G + V     +  + + +IF 
Sbjct: 45  KVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFK 104
Query: 440 WAKKSKKGLLLFIDEADAFLCDNQD 464
            AK+ K   ++FIDE DA      D
Sbjct: 105 LAKE-KAPSIIFIDEIDAIAAKRTD 128

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score = 51.6 bits (122), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 39/141 (27%), Positives = 73/141 (51%), Gaps = 20/141 (14%)
Query: 328 SGLLSQAMNKVIRNKTSA---GTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQ 384
           S L +  MN+++ N T+      AG   A +   +I++ PSL+  +    +A        
Sbjct: 95  SNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRA-------- 146
Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK----IHEIFDW 440
            P R +L +GPPG GKTM+A+ +A +S   +  ++    A L ++ V +    +  +F  
Sbjct: 147 -PARGLLLFGPPGNGKTMLAKAVAAESNATFFNISA---ASLTSKYVGEGEKLVRALFAV 202
Query: 441 AKKSKKGLLLFIDEADAFLCD 461
           A++ +   ++FID+ D+ LC+
Sbjct: 203 ARELQPS-IIFIDQVDSLLCE 222

>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound State Length = 322

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/134 (26%), Positives = 72/134 (53%), Gaps = 16/134 (11%)
Query: 326 PWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQA 385
           P++ +LS+  N  ++ +  AG  G  EA+K   + ++ P    +  HL K       ++ 
Sbjct: 4   PFTAILSEKPN--VKWEDVAGLEGAKEALK---EAVILPV---KFPHLFKG------NRK 49
Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKS 444
           P   +L YGPPGTGK+ +A+ +A ++   +  ++  D V+    ++   + ++F  A+++
Sbjct: 50  PTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMAREN 109
Query: 445 KKGLLLFIDEADAF 458
           K   ++FID+ DA 
Sbjct: 110 KPS-IIFIDQVDAL 122

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 43/74 (58%), Gaps = 2/74 (2%)
Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG-GDVAPLGAQAVTKIHEIFDWAKKS 444
           P + +L YGPPGTGKT++A+ +A   G ++      G V     ++   I E+F +AK+ 
Sbjct: 214 PPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEH 273
Query: 445 KKGLLLFIDEADAF 458
           +   ++F+DE DA 
Sbjct: 274 EP-CIIFMDEVDAI 286

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 47/72 (65%), Gaps = 4/72 (5%)
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL--GAQAVTKIHEIFDWAKKSK 445
           + +L  GPPGTGKT++A+ IA ++ + +  ++G D   +  G  A +++ ++F+ AKK+ 
Sbjct: 46  KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGA-SRVRDMFEQAKKAA 104
Query: 446 KGLLLFIDEADA 457
              ++FIDE DA
Sbjct: 105 P-CIIFIDEIDA 115

>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer Length = 331

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 37/131 (28%), Positives = 69/131 (52%), Gaps = 16/131 (12%)
Query: 329 GLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFR 388
           G LS+  N  ++ +  AG  G  EA+K   + ++ P    +  HL K       ++ P  
Sbjct: 16  GSLSEKPN--VKWEDVAGLEGAKEALK---EAVILPV---KFPHLFKG------NRKPTS 61
Query: 389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKKG 447
            +L YGPPGTGK+ +A+ +A ++   +  ++  D V+    ++   + ++F  A+++K  
Sbjct: 62  GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPS 121
Query: 448 LLLFIDEADAF 458
            ++FIDE DA 
Sbjct: 122 -IIFIDEVDAL 131

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score = 48.9 bits (115), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 29/94 (30%), Positives = 52/94 (55%), Gaps = 4/94 (4%)
Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425
           L+  ++ L   +   +I     + +L  GPPGTGKT++AR +A ++ + +  ++G D   
Sbjct: 28  LKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVE 87
Query: 426 L--GAQAVTKIHEIFDWAKKSKKGLLLFIDEADA 457
           L  G  A  ++ ++F  A K+    ++FIDE DA
Sbjct: 88  LFVGVGA-ARVRDLFAQA-KAHAPCIVFIDEIDA 119

>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4 Length = 355

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 36/132 (27%), Positives = 70/132 (53%), Gaps = 16/132 (12%)
Query: 328 SGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF 387
           S +LS+  N  ++ +  AG  G  EA+K   + ++ P    +  HL K       ++ P 
Sbjct: 39  SAILSEKPN--VKWEDVAGLEGAKEALK---EAVILPV---KFPHLFKG------NRKPT 84
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 446
             +L YGPPGTGK+ +A+ +A ++   +  ++  D V+    ++   + ++F  A+++K 
Sbjct: 85  SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKP 144
Query: 447 GLLLFIDEADAF 458
             ++FID+ DA 
Sbjct: 145 S-IIFIDQVDAL 155

>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of Atpgammas Length = 340

Iteration: 1
 Score = 48.5 bits (114), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 36/132 (27%), Positives = 70/132 (53%), Gaps = 16/132 (12%)
Query: 328 SGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPF 387
           S +LS+  N  ++ +  AG  G  EA+K   + ++ P    +  HL K       ++ P 
Sbjct: 24  SAILSEKPN--VKWEDVAGLEGAKEALK---EAVILPV---KFPHLFKG------NRKPT 69
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 446
             +L YGPPGTGK+ +A+ +A ++   +  ++  D V+    ++   + ++F  A+++K 
Sbjct: 70  SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKP 129
Query: 447 GLLLFIDEADAF 458
             ++FID+ DA 
Sbjct: 130 S-IIFIDQVDAL 140

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score = 48.5 bits (114), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 26/87 (29%), Positives = 46/87 (52%), Gaps = 2/87 (2%)
Query: 373 LAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAV 431
           L +A    +I   P R +L YGPPGTGKTM+ + +A  +   +  + G + V     +  
Sbjct: 192 LVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGP 251
Query: 432 TKIHEIFDWAKKSKKGLLLFIDEADAF 458
             + ++F  A+++    ++FIDE D+ 
Sbjct: 252 RMVRDVFRLARENAPS-IIFIDEVDSI 277

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 44/72 (61%), Gaps = 3/72 (4%)
Query: 390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGA-QAVTKIHEIFDWAKKSKKGL 448
           +L  GPPG GKT++A+ +A +SGL++  + G ++  +   ++   + ++F  AK S    
Sbjct: 47  VLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAP-C 105
Query: 449 LLFIDEADAFLC 460
           ++F DE DA LC
Sbjct: 106 VIFFDEVDA-LC 116

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 44/75 (58%), Gaps = 8/75 (10%)
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD----VAPLGAQAVTKIHEIFDWAKK 443
           + +L  GPPGTGKT++A+ +A ++ + +  M G         LGA   +++ ++F+ AKK
Sbjct: 45  KGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGA---SRVRDLFETAKK 101
Query: 444 SKKGLLLFIDEADAF 458
                ++FIDE DA 
Sbjct: 102 QAPS-IIFIDEIDAI 115

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/94 (29%), Positives = 51/94 (54%), Gaps = 4/94 (4%)
Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP 425
           L+  ++ L   +   +I     + +L  GPPGTG T++AR +A ++ + +  ++G D   
Sbjct: 28  LKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVPFFHISGSDFVE 87
Query: 426 L--GAQAVTKIHEIFDWAKKSKKGLLLFIDEADA 457
           L  G  A  ++ ++F  A K+    ++FIDE DA
Sbjct: 88  LFVGVGA-ARVRDLFAQA-KAHAPCIVFIDEIDA 119

>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In Complex With Adp Length = 357

Iteration: 1
 Score = 45.8 bits (107), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 22/80 (27%), Positives = 40/80 (50%)
Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKS 444
            P + +L +GPPGTGKT++ + IA +SG  +  ++   +         K+        + 
Sbjct: 115 GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARC 174
Query: 445 KKGLLLFIDEADAFLCDNQD 464
           ++  ++FIDE D+ L    D
Sbjct: 175 QQPAVIFIDEIDSLLSQRGD 194

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score = 45.1 bits (105), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 32/105 (30%), Positives = 51/105 (48%), Gaps = 16/105 (15%)
Query: 366 LQRRIQHLAKATANTKIHQAPFRNM--------LFYGPPGTGKTMVAREIARKSGLDYAM 417
           L ++I+ L +A          F++M        L YGPPGTGKT++AR  A ++   +  
Sbjct: 186 LDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLK 245
Query: 418 MTGGDVAPL----GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAF 458
           +    +  +    GA+ V    + F  AK+ K   ++FIDE DA 
Sbjct: 246 LAAPQLVQMYIGEGAKLV---RDAFALAKE-KAPTIIFIDELDAI 286

>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form Length = 444

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 23/77 (29%), Positives = 47/77 (61%), Gaps = 4/77 (5%)
Query: 386 PFRNMLFYGPPGTGKTMVAREIARKS--GLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKK 443
           P+R +L +GPPGTGK+ +A+ +A ++     +++ +   V+    ++   +  +F  A++
Sbjct: 166 PWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARE 225
Query: 444 SKKGLLLFIDEADAFLC 460
           +K   ++FIDE D+ LC
Sbjct: 226 NKPS-IIFIDEIDS-LC 240

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 446
           + ++ YGPPGTGKT++AR +A  +   +  ++G + V     +    + E+F  A++   
Sbjct: 183 KGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAP 242
Query: 447 GLLLFIDEADAF 458
             ++F+DE D+ 
Sbjct: 243 S-IIFMDEIDSI 253

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 446
           +  L  GPPG GKT++A+ +A ++ + +  M G + V  +G     ++  +F  A +++ 
Sbjct: 40  KGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEA-RARA 98
Query: 447 GLLLFIDEADA 457
             +++IDE DA
Sbjct: 99  PCIVYIDEIDA 109

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 446
           + +L  GPPG GKT +AR +A ++ + +   +G D V         ++ ++F+ AK+   
Sbjct: 65  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 124
Query: 447 GLLLFIDEADA 457
             ++FIDE DA
Sbjct: 125 -CIVFIDEIDA 134

>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b Length = 322

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 48/79 (60%), Gaps = 4/79 (5%)
Query: 384 QAPFRNMLFYGPPGTGKTMVAREIARKS--GLDYAMMTGGDVAPLGAQAVTKIHEIFDWA 441
           + P+R +L +GPPGTGK+ +A+ +A ++     +++ +   V+    ++   +  +F  A
Sbjct: 42  RTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLA 101
Query: 442 KKSKKGLLLFIDEADAFLC 460
           +++K   ++FIDE D+ LC
Sbjct: 102 RENKPS-IIFIDEIDS-LC 118

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 446
           + +L  GPPG GKT +AR +A ++ + +   +G D V         ++ ++F+ AK+   
Sbjct: 74  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 133
Query: 447 GLLLFIDEADA 457
             ++FIDE DA
Sbjct: 134 -CIVFIDEIDA 143

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 446
           + +L  GPPG GKT +AR +A ++ + +   +G D V         ++ ++F+ AK+   
Sbjct: 74  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 133
Query: 447 GLLLFIDEADA 457
             ++FIDE DA
Sbjct: 134 -CIVFIDEIDA 143

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKSKK 446
           + +L  GPPG GKT +AR +A ++ + +   +G D V         ++ ++F+ AK+   
Sbjct: 50  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 109
Query: 447 GLLLFIDEADA 457
             ++FIDE DA
Sbjct: 110 -CIVFIDEIDA 119

>pdb|1IXR|C Chain C, Ruva-Ruvb Complex Length = 312

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 38/74 (51%), Gaps = 7/74 (9%)
Query: 381 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDW 440
           K  + P  ++L +GPPG GKT +A  IA + G++  + +G  +   G  A          
Sbjct: 32  KARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAI-------L 84
Query: 441 AKKSKKGLLLFIDE 454
           A   ++G +LFIDE
Sbjct: 85  ANSLEEGDILFIDE 98

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	466
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	2e-10
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	4e-10
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	7e-10
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	9e-06
2zuo_A	861	MVP, major vault protein; repeat domains, protein-	4e-04
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-08
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	7e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	5e-08
3pvs_A	447	Replication-associated recombination protein A; ma	1e-07
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	2e-07
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	2e-07
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	6e-07
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	6e-07
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	6e-07
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	7e-07
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	7e-07
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	9e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-05
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-04
2chg_A	226	Replication factor C small subunit; DNA-binding pr	2e-06
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	3e-06
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	4e-06
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	4e-06
2chq_A	319	Replication factor C small subunit; DNA-binding pr	5e-06
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	5e-06
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	5e-06
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	2e-05
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	3e-05
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	4e-05
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	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
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	1e-04
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	1e-04
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	2e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-04
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	3e-04
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	4e-04
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	6e-04
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	6e-04
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	8e-04

>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 = 60.5 bits (147), Expect = 2e-10
 Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 3/76 (3%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD--VAPLGAQAVTKIHEIFDWAKK 443
           P  ++L  GPP +GKT +A +IA +S   +  +   D  +          + +IFD A K
Sbjct: 63  PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK 122

Query: 444 SKKGLLLFIDEADAFL 459
           S+    + +D+ +  L
Sbjct: 123 SQLS-CVVVDDIERLL 137

>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 = 61.0 bits (148), Expect = 4e-10
 Identities = 27/73 (36%), Positives = 49/73 (67%), Gaps = 2/73 (2%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAPLGAQAVTKIHEIFDWAKKS 444
           P R +L YGPPGTGKT++AR +A ++G  + ++ G + ++ L  ++ + + + F+ A+K+
Sbjct: 237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKN 296

Query: 445 KKGLLLFIDEADA 457
               ++FIDE DA
Sbjct: 297 APA-IIFIDELDA 308

>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 = 60.6 bits (146), Expect = 7e-10
 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 = 47.1 bits (111), Expect = 9e-06
 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 = 42.1 bits (98), Expect = 4e-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 = 55.6 bits (133), Expect = 3e-08
 Identities = 58/429 (13%), Positives = 129/429 (30%), Gaps = 126/429 (29%)

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-QHLAKATANTKIHQAPFR--NMLFYGPPGTGKTMVAR 405
             +          L P+  R++   L+    +  I   P    +++++    +   +V  
Sbjct: 363 --LNV--------LEPAEYRKMFDRLSVFPPSAHI---PTILLSLIWFDVIKSDVMVVVN 409

Query: 406 EIARKSGLD 414
           ++ + S ++
Sbjct: 410 KLHKYSLVE 418

>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 = 49.1 bits (116), Expect = 3e-06
 Identities = 29/166 (17%), Positives = 62/166 (37%), Gaps = 30/166 (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-----PFRNMLFYGPPGTGKTMVAREIARKSGLDYAM 417
               K+ QA     P +N+L  G  G+GKT VA ++     +   M
Sbjct: 138 ---LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score = 53.3 bits (128), Expect = 5e-08
 Identities = 22/99 (22%), Positives = 42/99 (42%), Gaps = 11/99 (11%)

Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV-- 423
           + + + H+ K        + P   +  +G  G GK+     + RK G++  MM+ G++  
Sbjct: 16  MDKLVVHITKNFLKLPNIKVP-LILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELES 74

Query: 424 --APLGAQAVTKIHEIFDWAK---KSKKGLLLFIDEADA 457
             A   A+    I + +  A    +      LFI++ DA
Sbjct: 75  GNAGEPAKL---IRQRYREAAEIIRKGNMCCLFINDLDA 110

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 52.9 bits (128), Expect = 1e-07
 Identities = 28/85 (32%), Positives = 43/85 (50%), Gaps = 25/85 (29%)

Query: 390 MLFYGPPGTGKTMVAREIARKSGLDY----AMMTGGDVAPLGAQAVTKIHEIFDWAKKSK 445
           M+ +GPPGTGKT +A  IAR +  D     A+ +G          V +I E  + A++++
Sbjct: 53  MILWGPPGTGKTTLAEVIARYANADVERISAVTSG----------VKEIREAIERARQNR 102

Query: 446 ---KGLLLFIDEA--------DAFL 459
              +  +LF+DE         DAFL
Sbjct: 103 NAGRRTILFVDEVHRFNKSQQDAFL 127

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score = 51.5 bits (124), Expect = 2e-07
 Identities = 22/84 (26%), Positives = 41/84 (48%), Gaps = 16/84 (19%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK--------IHE 436
           AP + +L +GPPG GKT++AR +A +    +  ++   +        +K        +  
Sbjct: 52  APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASL-------TSKYVGDGEKLVRA 104

Query: 437 IFDWAKKSKKGLLLFIDEADAFLC 460
           +F  A+  +   ++FIDE D+ L 
Sbjct: 105 LFAVARHMQPS-IIFIDEVDSLLS 127

>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 = 51.6 bits (124), Expect = 2e-07
 Identities = 23/83 (27%), Positives = 44/83 (53%), Gaps = 16/83 (19%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK--------IHEI 437
           P   +L YGPPGTGK+ +A+ +A ++   +  ++  D+       V+K        + ++
Sbjct: 50  PTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL-------VSKWMGESEKLVKQL 102

Query: 438 FDWAKKSKKGLLLFIDEADAFLC 460
           F  A+++K   ++FID+ DA   
Sbjct: 103 FAMARENKPS-IIFIDQVDALTG 124

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score = 50.0 bits (120), Expect = 6e-07
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 16/80 (20%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG--------GDVAPLGAQAVTKIHEI 437
           P + +L YGPPGTGKT++A+ +A ++   +  + G        G+    GA  V    +I
Sbjct: 50  PPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGE----GASLV---KDI 102

Query: 438 FDWAKKSKKGLLLFIDEADA 457
           F  AK+ K   ++FIDE DA
Sbjct: 103 FKLAKE-KAPSIIFIDEIDA 121

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score = 49.6 bits (119), Expect = 6e-07
 Identities = 26/74 (35%), Positives = 47/74 (63%), Gaps = 8/74 (10%)

Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL----GAQAVTKIHEIFDWAKK 443
           + +L  GPPGTGKT++A+ IA ++ + +  ++G D   +    GA   +++ ++F+ AKK
Sbjct: 46  KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGA---SRVRDMFEQAKK 102

Query: 444 SKKGLLLFIDEADA 457
           +    ++FIDE DA
Sbjct: 103 AAP-CIIFIDEIDA 115

>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 = 50.5 bits (121), Expect = 6e-07
 Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 16/84 (19%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK--------IHE 436
            P + +L +GPPGTGKT++ + IA +SG  +  ++   +        +K        +  
Sbjct: 115 GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSL-------TSKWVGEGEKMVRA 167

Query: 437 IFDWAKKSKKGLLLFIDEADAFLC 460
           +F  A+  +   ++FIDE D+ L 
Sbjct: 168 LFAVARCQQPA-VIFIDEIDSLLS 190

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score = 50.2 bits (120), Expect = 7e-07
 Identities = 24/84 (28%), Positives = 44/84 (52%), Gaps = 16/84 (19%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK--------IHE 436
           AP R +L +GPPG GKTM+A+ +A +S   +  ++   +        +K        +  
Sbjct: 146 APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASL-------TSKYVGEGEKLVRA 198

Query: 437 IFDWAKKSKKGLLLFIDEADAFLC 460
           +F  A++ +   ++FID+ D+ LC
Sbjct: 199 LFAVARELQPS-IIFIDQVDSLLC 221

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score = 49.2 bits (118), Expect = 7e-07
 Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 8/74 (10%)

Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL----GAQAVTKIHEIFDWAKK 443
           + +L  GPPG GKT +AR +A ++ + +   +G D   +    GA    ++ ++F+ AK+
Sbjct: 50  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGA---ARVRDLFETAKR 106

Query: 444 SKKGLLLFIDEADA 457
                ++FIDE DA
Sbjct: 107 HAP-CIVFIDEIDA 119

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score = 49.3 bits (118), Expect = 9e-07
 Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 8/74 (10%)

Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL----GAQAVTKIHEIFDWAKK 443
           + +L  GPPG GKT +AR +A ++ + +   +G D   +    GA    ++ ++F+ AK+
Sbjct: 74  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGA---ARVRDLFETAKR 130

Query: 444 SKKGLLLFIDEADA 457
                ++FIDE DA
Sbjct: 131 HAP-CIVFIDEIDA 143

>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 = 49.8 bits (119), Expect = 1e-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 = 44.1 bits (104), Expect = 9e-05
 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 = 42.5 bits (100), Expect = 3e-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

>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 = 48.0 bits (115), Expect = 3e-06
 Identities = 26/80 (32%), Positives = 44/80 (55%), Gaps = 16/80 (20%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK--------IHEI 437
           P + +LFYGPPG GKT++A+ IA +   ++       ++  G + +T         + EI
Sbjct: 48  PSKGVLFYGPPGCGKTLLAKAIANECQANF-------ISIKGPELLTMWFGESEANVREI 100

Query: 438 FDWAKKSKKGLLLFIDEADA 457
           FD A+++    +LF DE D+
Sbjct: 101 FDKARQAAP-CVLFFDELDS 119

>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

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score = 47.2 bits (113), Expect = 4e-06
 Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 16/80 (20%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK--------IHEI 437
               +L  GPPG GKT++A+ +A +SGL++       ++  G + +          + ++
Sbjct: 43  TPAGVLLAGPPGCGKTLLAKAVANESGLNF-------ISVKGPELLNMYVGESERAVRQV 95

Query: 438 FDWAKKSKKGLLLFIDEADA 457
           F  AK S    ++F DE DA
Sbjct: 96  FQRAKNSAP-CVIFFDEVDA 114

>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

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A* Length = 268

 Score = 46.9 bits (112), Expect = 5e-06
 Identities = 26/74 (35%), Positives = 43/74 (58%), Gaps = 8/74 (10%)

Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL----GAQAVTKIHEIFDWAKK 443
           + +L  GPPGTGKT++A+ +A ++ + +  M G     +    GA  V    ++F+ AKK
Sbjct: 45  KGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRV---RDLFETAKK 101

Query: 444 SKKGLLLFIDEADA 457
            +   ++FIDE DA
Sbjct: 102 -QAPSIIFIDEIDA 114

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score = 47.4 bits (113), Expect = 5e-06
 Identities = 22/86 (25%), Positives = 44/86 (51%), Gaps = 19/86 (22%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSGLD--YAMMTGGDVAPLGAQAVTK--------I 434
            P+R +L +GPPGTGK+ +A+ +A ++     +++          +  V+K        +
Sbjct: 43  TPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSIS--------SSDLVSKWLGESEKLV 94

Query: 435 HEIFDWAKKSKKGLLLFIDEADAFLC 460
             +F  A+++K   ++FIDE D+   
Sbjct: 95  KNLFQLARENKPS-IIFIDEIDSLCG 119

>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 = 46.0 bits (109), Expect = 2e-05
 Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 16/85 (18%)

Query: 387 FRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAV-TKIHE------IFD 439
           FR  + YGPPG GKT  A  +A++ G D       DV       +   +        +  
Sbjct: 77  FRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDV--RSKTLLNAGVKNALDNMSVVG 134

Query: 440 WAKKSKKGL-------LLFIDEADA 457
           + K +++         ++ +DE D 
Sbjct: 135 YFKHNEEAQNLNGKHFVIIMDEVDG 159

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score = 44.5 bits (106), Expect = 3e-05
 Identities = 22/74 (29%), Positives = 39/74 (52%), Gaps = 8/74 (10%)

Query: 388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPL----GAQAVTKIHEIFDWAKK 443
           +  L  GPPG GKT++A+ +A ++ + +  M G +   +    GA  V     +F  A+ 
Sbjct: 40  KGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARV---RSLFKEARA 96

Query: 444 SKKGLLLFIDEADA 457
            +   +++IDE DA
Sbjct: 97  -RAPCIVYIDEIDA 109

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A* Length = 355

 Score = 44.8 bits (106), Expect = 4e-05
 Identities = 23/83 (27%), Positives = 44/83 (53%), Gaps = 16/83 (19%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK--------IHEI 437
           P   +L YGPPGTGK+ +A+ +A ++   +  ++  D+       V+K        + ++
Sbjct: 83  PTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL-------VSKWMGESEKLVKQL 135

Query: 438 FDWAKKSKKGLLLFIDEADAFLC 460
           F  A+++K   ++FID+ DA   
Sbjct: 136 FAMARENKPS-IIFIDQVDALTG 157

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 44.4 bits (104), Expect = 4e-05
 Identities = 25/80 (31%), Positives = 32/80 (40%), Gaps = 12/80 (15%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARK-------SGLDYAMMTGGDVAPLG-AQAVTKIHEI 437
           P  +M F G PGTGKT VA ++A                +T  D+          K  E+
Sbjct: 66  PTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEV 125

Query: 438 FDWAKKSKKGLLLFIDEADA 457
              A     G +LFIDEA  
Sbjct: 126 LKRA----MGGVLFIDEAYY 141

>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

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score = 43.4 bits (103), Expect = 1e-04
 Identities = 28/78 (35%), Positives = 41/78 (52%), Gaps = 16/78 (20%)

Query: 388 RNMLFYGPPGTGKTMVAREIARK--------SGLDYAMMTGGDVAPLGAQAVTKIHEIFD 439
           + +L  GPPG GKT +AR +A +        SG D+  M  G    +GA  V    ++F+
Sbjct: 65  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVG----VGAARV---RDLFE 117

Query: 440 WAKKSKKGLLLFIDEADA 457
            AK+     ++FIDE DA
Sbjct: 118 TAKRHAP-CIVFIDEIDA 134

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E* Length = 476

 Score = 42.9 bits (102), Expect = 1e-04
 Identities = 28/78 (35%), Positives = 41/78 (52%), Gaps = 16/78 (20%)

Query: 388 RNMLFYGPPGTGKTMVAREIARK--------SGLDYAMMTGGDVAPLGAQAVTKIHEIFD 439
           + +L  GPPGTGKT++AR +A +        SG D+  +  G    +GA  V    ++F 
Sbjct: 50  KGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVG----VGAARV---RDLFA 102

Query: 440 WAKKSKKGLLLFIDEADA 457
            AK      ++FIDE DA
Sbjct: 103 QAKAHAP-CIVFIDEIDA 119

>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 = 42.0 bits (99), Expect = 2e-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 = 42.4 bits (100), Expect = 3e-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

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444

 Score = 42.2 bits (99), Expect = 3e-04
 Identities = 23/84 (27%), Positives = 44/84 (52%), Gaps = 17/84 (20%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAM-MTGGDVAPLGAQAVTK--------IHE 436
           P+R +L +GPPGTGK+ +A+ +A ++       ++  D+       V+K        +  
Sbjct: 166 PWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL-------VSKWLGESEKLVKN 218

Query: 437 IFDWAKKSKKGLLLFIDEADAFLC 460
           +F  A+++K  ++ FIDE D+   
Sbjct: 219 LFQLARENKPSII-FIDEIDSLCG 241

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20 Length = 389

 Score = 41.3 bits (96), Expect = 4e-04
 Identities = 14/100 (14%), Positives = 28/100 (28%), Gaps = 22/100 (22%)

Query: 389 NMLFYGPPGTGKTMVAREIAR----KSGLDYAMM------------------TGGDVAPL 426
                G PGTGKT+  R++      K+   +  +                          
Sbjct: 46  RATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRR 105

Query: 427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI 466
           G      +  + +  ++    + L +D+A     D     
Sbjct: 106 GLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTF 145

>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 = 41.1 bits (95), Expect = 6e-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

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 386

 Score = 40.8 bits (95), Expect = 6e-04
 Identities = 19/103 (18%), Positives = 32/103 (31%), Gaps = 25/103 (24%)

Query: 389 NMLFYGPPGTGKTMVAREIARK------SGLDYAMM------------------TGGDVA 424
           N+  YG  GTGKT V + +  K          +  +                      V 
Sbjct: 47  NIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVP 106

Query: 425 PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC-DNQDFI 466
             G         +    +     +++ +DE DAF+   N D +
Sbjct: 107 FTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDIL 149

>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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	466
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.86
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.76
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.73
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.73
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.72
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.71
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.64
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.61
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.59
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.59
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.59
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.56
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.55
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.54
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.54
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.54
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.53
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.52
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.52
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.51
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.51
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.51
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.49
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.46
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.45
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.43
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.41
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.38
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.35
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.34
3co5_A	143	Putative two-component system transcriptional RES	99.34
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.34
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.33
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.31
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.3
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.29
3pvs_A	447	Replication-associated recombination protein A; ma	99.27
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.27
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.27
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.26
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.26
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.25
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.23
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.23
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.22
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.21
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.2
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.19
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.18
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.18
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.18
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.13
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.12
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.05
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.05
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.04
3bos_A	242	Putative DNA replication factor; P-loop containing	99.0
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.0
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.97
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.97
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.96
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.94
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.93
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.93
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.92
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.92
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.92
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.91
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.9
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.88
2r44_A	331	Uncharacterized protein; putative ATPase, structur	98.87
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.86
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	98.86
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.86
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.85
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.85
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.84
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	98.84
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.77
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.72
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.66
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	98.63
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.62
2qgz_A	308	Helicase loader, putative primosome component; str	98.62
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.56
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.53
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.46
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	98.46
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.32
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	98.31
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	98.27
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.19
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.13
2fna_A	357	Conserved hypothetical protein; structural genomic	98.02
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	97.95
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.89
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.76
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.6
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.57
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.55
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.53
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.51
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.5
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	97.48
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.46
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.45
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.44
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.44
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.42
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.39
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.32
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.32
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.32
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.32
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.32
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.31
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.28
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.27
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.27
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.27
1via_A	175	Shikimate kinase; structural genomics, transferase	97.26
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.25
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.24
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.21
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.2
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.19
3f8t_A	506	Predicted ATPase involved in replication control,	97.19
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.19
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.18
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.17
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.16
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.15
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.13
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.13
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.11
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.11
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.09
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.08
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.07
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.04
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.04
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.04
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.03
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.02
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.02
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.02
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.02
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.0
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.0
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.0
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.99
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.98
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.98
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	96.97
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.95
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.95
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.94
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.94
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.94
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.92
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.92
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.91
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.89
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.89
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.89
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.89
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.88
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.86
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.84
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.81
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.81
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.8
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.79
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.76
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.74
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.74
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.74
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.72
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.7
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.7
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.68
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.68
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.67
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.67
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.65
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.65
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.64
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.63
3io5_A	333	Recombination and repair protein; storage dimer, i	96.6
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.6
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.59
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.57
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.56
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.51
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.49
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.49
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.49
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.48
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.48
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.47
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.45
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.44
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.4
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.4
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.4
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	96.4
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.39
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.33
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.32
2ged_A	193	SR-beta, signal recognition particle receptor beta	96.3
2xxa_A	433	Signal recognition particle protein; protein trans	96.29
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.29
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.25
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.22
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	96.2
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.18
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.17
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.16
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.15
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.14
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	96.14
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.12
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.11
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.11
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.1
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.07
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.06
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.06
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.05
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.04
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.03
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.01
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.92
3b6e_A	216	Interferon-induced helicase C domain-containing P;	95.91
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.9
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.89
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.87
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.85
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.83
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.81
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.78
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.77
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.77
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	95.74
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.71
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.7
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.69
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.64
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.59
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	95.59
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.54
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.51
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.44
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.41
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.4
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.37
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.35
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.35
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.3
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.3
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.29
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.28
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.26
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.26
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.25
3ice_A	422	Transcription termination factor RHO; transcriptio	95.25
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.23
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.2
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.19
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.18
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.15
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.14
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	95.1
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.07
2og2_A	359	Putative signal recognition particle receptor; nuc	95.03
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.03
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.02
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.01
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.0
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	95.0
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	94.99
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.97
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.95
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	94.94
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.93
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	94.92
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	94.91
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	94.89
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.88
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.84
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	94.83
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	94.78
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.77
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.75
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	94.71
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.66
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	94.61
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	94.57
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	94.56
3bor_A	237	Human initiation factor 4A-II; translation initiat	94.55
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	94.54
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	94.51
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	94.47
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.47
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.45
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.44
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	94.42
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.41
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.38
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.31
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	94.29
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	94.28
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.26
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.26
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	94.25
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.25
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	94.25
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.23
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	94.22
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	94.21
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	94.2
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	94.18
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.12
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.03
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.98
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.97
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	93.96
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.93
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.9
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.89
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	93.89
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	93.87
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.86
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	93.85
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	93.85
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.85
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	93.83
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	93.82
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	93.81
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.76
3rc3_A	677	ATP-dependent RNA helicase SUPV3L1, mitochondrial;	93.76
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.72
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.72
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	93.71
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.69
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.66
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	93.66
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	93.66
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.61
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	93.61
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.6
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	93.6
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	93.57
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	93.57
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.5
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.5
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.48
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.48
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	93.45
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	93.44
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	93.43
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.43
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.42
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.39
1g6h_A	257	High-affinity branched-chain amino acid transport	93.38
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	93.37
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.37
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.37
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.35
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.33
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.32
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.32
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.31
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.24
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.24
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.24
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	93.23
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	93.22
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	93.22
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.2
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.2
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.19
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.18
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.18
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	93.17
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	93.17
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	93.16
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.15
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.15
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.13
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.12
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.1
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.08
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.08
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.08
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.07
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	93.06
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.06
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.06
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.01
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.01
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.0
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.97
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	92.95
2ghi_A	260	Transport protein; multidrug resistance protein, M	92.93
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.93
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	92.9
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	92.87
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	92.86
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	92.85
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.84
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.83
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	92.82
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.82
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.82
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.81
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	92.8
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.8
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	92.8
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	92.78
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.76
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	92.76
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	92.76
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.75
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.75
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	92.74
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	92.73
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	92.68
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	92.67
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.66
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	92.65
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.63
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	92.62
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.61
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	92.61
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	92.59
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.58
3l0o_A	427	Transcription termination factor RHO; helicase, RH	92.54
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	92.53
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.5
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	92.47
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.46
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.43
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.42
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.41
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	92.41
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	92.38
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.37
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.35
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.34
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	92.24
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	92.21
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	92.21
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	92.19
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	92.18
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	92.15
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.14
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.12
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	92.07
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	92.05
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.04
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	92.02
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	92.02
1yks_A	440	Genome polyprotein [contains: flavivirin protease	92.0
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	91.99
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	91.98
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	91.97
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.95
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.93
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.93
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.93
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.92
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	91.91
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	91.91
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.89
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	91.89
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	91.88
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	91.88
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	91.88
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	91.86
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	91.86
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	91.85
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.84
1gku_B	1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	91.83
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.82
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	91.82
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	91.78
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	91.76
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	91.73
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	91.73
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.68
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	91.66
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	91.63
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	91.63
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	91.6
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	91.57
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	91.56
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	91.55
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	91.47

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.86  E-value=2.4e-22  Score=209.26  Aligned_cols=273  Identities=16%  Similarity=0.227  Sum_probs=125.8

Q ss_pred             hcccchhHHHHHhhcccHHHHhhcchhhhhhchhhhhhHHHHhhhhHHHHHHHHHhhHHHHhHhhhhhhhhhhhhhhhhc
Q 012305          149 QGLRNEDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEEQIQAQQRLTEKERAEIERETIRVKAMAEAEGR  228 (466)
Q Consensus       149 ~~a~~~d~l~r~r~q~E~e~~~~~~e~~~~~qees~~r~E~~r~~~~e~~~~~r~~~e~e~~~~~~~~~~~~~~~e~e~~  228 (466)
                      ...+++|+..++++.++...+...+++....+..+...++..++.+.+           ++..+....+.       +++
T Consensus        12 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~-------e~~   73 (437)
T 4b4t_L           12 LGETSGDNHTQQSHEQQPEQPQETEEHHEEEPSRVDPEQEAHNKALNQ-----------FKRKLLEHRRY-------DDQ   73 (437)
T ss_dssp             ------------------------------------------------------------------CHHH-------HHH
T ss_pred             hccccccchhhccccchhhhhHHhhhhhhhcchhcchhhHHHHHHHHH-----------HHHHHHHHHHH-------HHH
Confidence            446678888888888888888877776666666666667666666544           11111111111       111


Q ss_pred             ccccccc-hhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhh
Q 012305          229 AHEAKLT-EDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYV  307 (466)
Q Consensus       229 ~~~~~~~-~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v  307 (466)
                      .+..+.+ .++...-.      ....-+..|++....+|..+..+ .|+..++...+|.      .|.+    .+...+.
T Consensus        74 ~~~~~~~~~~l~~~~~------~~~~~~~~l~~~~~~vg~~~~~~-~~~~~iv~~~~g~------~~~v----~~~~~~~  136 (437)
T 4b4t_L           74 LKQRRQNIRDLEKLYD------KTENDIKALQSIGQLIGEVMKEL-SEEKYIVKASSGP------RYIV----GVRNSVD  136 (437)
T ss_dssp             HHHHHHHHHHHHHHHH------HHHHHHHHHHSCCEEEEEEEECS-SSSCEEEEETTSC------EEEE----CBCSSSC
T ss_pred             HHHHHHHHHHHHHHHH------HHHHHHHHhccCCceeeeheeee-cCCcEEEEECCCC------EEEE----ecccccC
Confidence            1111111 11211111      11123677888888888776664 4444443333221      1100    0111111


Q ss_pred             hhhhCCCccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHh-hcccc----c
Q 012305          308 NRILGQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----I  382 (466)
Q Consensus       308 ~~~lg~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~  382 (466)
                      ...+..+..|.-.. ..+.+...+.......     .........+..+|+||.|.++.++.|.+.+.. +.++.    .
T Consensus       137 ~~~l~~g~~v~~~~-~~~~~~~~l~~~~d~~-----~~~~~~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~  210 (437)
T 4b4t_L          137 RSKLKKGVRVTLDI-TTLTIMRILPRETDPL-----VYNMTSFEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRV  210 (437)
T ss_dssp             TTSCCTTCEEEECS-SSCSEEEECCCCSCCC-----CSSCEEEESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             HhhcCCCceeeEcc-cchhHHHhcCcccCch-----hheeeeccCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhC
Confidence            11122222211111 1111111110000000     001122235677899999999999999887765 54443    2


Q ss_pred             cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          383 HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       383 ~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      +..|+++||||||||||||++|++||+++|.+|+.++++++.. +.+++...++.+|..|+... ++||||||||.++++
T Consensus       211 g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk~~Gese~~ir~~F~~A~~~~-P~IifiDEiDai~~~  289 (437)
T 4b4t_L          211 GIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHE-PCIIFMDEVDAIGGR  289 (437)
T ss_dssp             CCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCSSSSHHHHHHHHHHHHHHHSC-SEEEEEECCCSSSCC
T ss_pred             CCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhccccchHHHHHHHHHHHHHHhcC-Cceeeeecccccccc
Confidence            3467799999999999999999999999999999999998865 77788999999999999766 899999999999988


Q ss_pred             cC
Q 012305          462 NQ  463 (466)
Q Consensus       462 r~  463 (466)
                      |.
T Consensus       290 R~  291 (437)
T 4b4t_L          290 RF  291 (437)
T ss_dssp             CS
T ss_pred             cc
Confidence            74

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.76  E-value=3.1e-19  Score=183.44  Aligned_cols=111  Identities=20%  Similarity=0.366  Sum_probs=97.0

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-  425 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-  425 (466)
                      .+..+|+||.|.++.++.|.+.+.. +.++.    .+..|+++||||||||||||++|++||++++.+|+.++++++.. 
T Consensus       142 ~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk  221 (405)
T 4b4t_J          142 VPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQK  221 (405)
T ss_dssp             SCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCS
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhcc
Confidence            4667899999999999999987665 55543    23467799999999999999999999999999999999998865 


Q ss_pred             chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.+++...++.+|..|+... ++||||||||+++++|.
T Consensus       222 ~vGese~~vr~lF~~Ar~~a-P~IIFiDEiDai~~~R~  258 (405)
T 4b4t_J          222 YIGEGSRMVRELFVMAREHA-PSIIFMDEIDSIGSTRV  258 (405)
T ss_dssp             STTHHHHHHHHHHHHHHHTC-SEEEEEESSSCCTTSCS
T ss_pred             ccchHHHHHHHHHHHHHHhC-CceEeeecchhhccCCC
Confidence            77889999999999999876 89999999999998875

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.73  E-value=1.4e-18  Score=180.72  Aligned_cols=114  Identities=21%  Similarity=0.320  Sum_probs=97.3

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHH-hhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAK-ATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA  424 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~-~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~  424 (466)
                      ...+..+|+||.|.+++++.|.+.+. .+.++.    .+..|+++||||||||||||++|++||++++.+|+.++++++.
T Consensus       173 ~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~  252 (434)
T 4b4t_M          173 DEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLV  252 (434)
T ss_dssp             ESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGC
T ss_pred             CCCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhh
Confidence            34677789999999999999987544 354442    2345679999999999999999999999999999999999986


Q ss_pred             c-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      . +.+++...++.+|..|+... ++||||||||.++++|.+
T Consensus       253 ~~~vGese~~ir~lF~~A~~~a-P~IifiDEiDal~~~R~~  292 (434)
T 4b4t_M          253 QMYIGEGAKLVRDAFALAKEKA-PTIIFIDELDAIGTKRFD  292 (434)
T ss_dssp             SSCSSHHHHHHHHHHHHHHHHC-SEEEEEECTHHHHCCCSS
T ss_pred             hcccchHHHHHHHHHHHHHhcC-CeEEeecchhhhhhccCC
Confidence            5 67788999999999999876 899999999999988753

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.73  E-value=2.1e-18  Score=178.03  Aligned_cols=112  Identities=22%  Similarity=0.358  Sum_probs=97.4

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP  425 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~  425 (466)
                      ..+..+|+||.|.+++++.|.+.+.. +.++.    .+..|+++||||||||||||++|++||++++.+|+.++++++..
T Consensus       175 ~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~s  254 (437)
T 4b4t_I          175 KSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQ  254 (437)
T ss_dssp             SSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCC
T ss_pred             cCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhh
Confidence            45677999999999999999987765 44443    22356799999999999999999999999999999999999865


Q ss_pred             -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       +.+++...++.+|..|+... ++||||||||+++++|.
T Consensus       255 k~vGesek~ir~lF~~Ar~~a-P~IIfiDEiDai~~~R~  292 (437)
T 4b4t_I          255 KYLGDGPRLCRQIFKVAGENA-PSIVFIDEIDAIGTKRY  292 (437)
T ss_dssp             SSSSHHHHHHHHHHHHHHHTC-SEEEEEEEESSSSCCCS
T ss_pred             ccCchHHHHHHHHHHHHHhcC-CcEEEEehhhhhcccCC
Confidence             77788999999999999876 89999999999998885

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.72  E-value=4.2e-18  Score=177.32  Aligned_cols=113  Identities=23%  Similarity=0.428  Sum_probs=97.3

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP  425 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~  425 (466)
                      ..+..+|+||.|.+++++.|.+.+.. +.++.    .+..|+++||||||||||||++|++||++++.+|+.++++++..
T Consensus       202 e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~s  281 (467)
T 4b4t_H          202 EKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQ  281 (467)
T ss_dssp             SSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhc
Confidence            35677999999999999999886654 44432    23467899999999999999999999999999999999999865


Q ss_pred             -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                       +.+++...++.+|..|+... ++||||||||.++.+|.+
T Consensus       282 k~vGesek~ir~lF~~Ar~~a-P~IIfiDEiDai~~~R~~  320 (467)
T 4b4t_H          282 KYVGEGARMVRELFEMARTKK-ACIIFFDEIDAVGGARFD  320 (467)
T ss_dssp             CSSSHHHHHHHHHHHHHHHTC-SEEEEEECCTTTSBCCSS
T ss_pred             ccCCHHHHHHHHHHHHHHhcC-CceEeecccccccccccC
Confidence             77788999999999999776 899999999999988753

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.71  E-value=6e-18  Score=175.83  Aligned_cols=112  Identities=22%  Similarity=0.396  Sum_probs=96.3

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP  425 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~  425 (466)
                      ..+..+|+||.|.+++++.|.+.+.. +.++.    .+..|+++||||||||||||++|++||+.++.+|+.++++++..
T Consensus       165 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~~  244 (428)
T 4b4t_K          165 EKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVH  244 (428)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTCC
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhhc
Confidence            45677899999999999999886654 44432    23467799999999999999999999999999999999998754


Q ss_pred             -chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                       +.+++...++.+|..|+... ++||||||+|.++++|.
T Consensus       245 ~~~Ge~e~~ir~lF~~A~~~a-P~IifiDEiD~i~~~R~  282 (428)
T 4b4t_K          245 KYLGEGPRMVRDVFRLARENA-PSIIFIDEVDSIATKRF  282 (428)
T ss_dssp             SSCSHHHHHHHHHHHHHHHTC-SEEEEEECTHHHHCSCS
T ss_pred             cccchhHHHHHHHHHHHHHcC-CCeeechhhhhhhcccc
Confidence             67788999999999999876 89999999999998874

>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=99.64  E-value=4.2e-16  Score=175.61  Aligned_cols=255  Identities=18%  Similarity=0.172  Sum_probs=160.4

Q ss_pred             hhHHHHHhhcccHHHHhhcchhhhhhchhhhhhHHHHhhhhHH---HHHHHHHhhHHHHhHhhhhhhhhhhhhhhhhccc
Q 012305          154 EDELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEE---QIQAQQRLTEKERAEIERETIRVKAMAEAEGRAH  230 (466)
Q Consensus       154 ~d~l~r~r~q~E~e~~~~~~e~~~~~qees~~r~E~~r~~~~e---~~~~~r~~~e~e~~~~~~~~~~~~~~~e~e~~~~  230 (466)
                      =++++|+.++.+.+...+.++    .+..+..|++.+++++..   ++.+++.+|+.++..+......+..+.+......
T Consensus       403 l~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  478 (854)
T 1qvr_A          403 IDALERKKLQLEIEREALKKE----KDPDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIE  478 (854)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSC----SSHHHHSCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhc----cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            467888888888888888777    344566777777777766   8888999999999998888888887777666555


Q ss_pred             ccccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhh
Q 012305          231 EAKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRI  310 (466)
Q Consensus       231 ~~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~  310 (466)
                      ....+.|+..      +.+.++..+..+......+...    -.+.+.+...++               ...+...|.+|
T Consensus       479 ~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~v~---------------~~~l~~~v~~~  533 (854)
T 1qvr_A          479 LAERQYDLNR------AAELRYGELPKLEAEVEALSEK----LRGARFVRLEVT---------------EEDIAEIVSRW  533 (854)
T ss_dssp             HHTTTTCHHH------HHHHHTTHHHHHHHHHHHHHHH----SSSCSSCCSEEC---------------HHHHHHHHHTT
T ss_pred             HHHhcccHHH------HHHHhhhhhHHHHHHHHHHHhh----hcccccccCCcC---------------HHHHHHHHHHH
Confidence            5566666654      2345555555554443322110    001111111222               33466778889


Q ss_pred             hCCCcccc-ccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccc-cccccccc
Q 012305          311 LGQPSLIR-ESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANT-KIHQAPFR  388 (466)
Q Consensus       311 lg~p~lvr-e~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~-~~~~~p~~  388 (466)
                      +|.|.... .....++   ..+..                     .-+.+|||++..+..+...+...... ..+..|..
T Consensus       534 ~~ip~~~~~~~~~~~l---~~l~~---------------------~l~~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~  589 (854)
T 1qvr_A          534 TGIPVSKLLEGEREKL---LRLEE---------------------ELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIG  589 (854)
T ss_dssp             SSCHHHHTTCCHHHHH---HSHHH---------------------HHHHHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSE
T ss_pred             hCCChHhhcHHHHHHH---HHHHH---------------------HHhcccCCcHHHHHHHHHHHHHHhcccCCCCCCce
Confidence            98875311 1110000   00000                     01245899999999998877665433 33345667


Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH-----------HHHHHHHHhhhhhccCceEEEecc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA-----------VTKIHEIFDWAKKSKKGLLLFIDE  454 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~-----------~~~l~~lf~~A~~~~~~~iLflDE  454 (466)
                      +|||+||||||||++|++|+..+   +.+|+.++|+.+......+           ......+....+ ..+++||||||
T Consensus       590 ~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~~s~l~g~~~~~~G~~~~g~l~~~~~-~~~~~vl~lDE  668 (854)
T 1qvr_A          590 SFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVR-RRPYSVILFDE  668 (854)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC--------------CHHHHHH-HCSSEEEEESS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhHHHHHcCCCCCCcCccccchHHHHHH-hCCCeEEEEec
Confidence            89999999999999999999999   7889999998765421000           001112223333 34589999999


Q ss_pred             cccccccc
Q 012305          455 ADAFLCDN  462 (466)
Q Consensus       455 id~l~~~r  462 (466)
                      ||.+.+..
T Consensus       669 i~~l~~~~  676 (854)
T 1qvr_A          669 IEKAHPDV  676 (854)
T ss_dssp             GGGSCHHH
T ss_pred             ccccCHHH
Confidence            99987653

>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=99.61  E-value=9.7e-16  Score=147.56  Aligned_cols=107  Identities=20%  Similarity=0.374  Sum_probs=83.4

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhcccccc----ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhH
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIH----QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQ  429 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~----~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e  429 (466)
                      ..|++++|.+.++..|..++..+......    ..+++++|||||||||||++|++|++.++.+|+.++|+++.. +++.
T Consensus         3 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~   82 (262)
T 2qz4_A            3 VSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGL   82 (262)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTH
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccCh
Confidence            46899999999999999988776554332    245578999999999999999999999999999999998754 5556


Q ss_pred             HHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          430 AVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       430 ~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      +...+..+|..+.... ++||||||||.+..++
T Consensus        83 ~~~~~~~~~~~a~~~~-~~vl~iDeid~l~~~~  114 (262)
T 2qz4_A           83 GAARVRSLFKEARARA-PCIVYIDEIDAVGKKR  114 (262)
T ss_dssp             HHHHHHHHHHHHHHTC-SEEEEEECC-------
T ss_pred             hHHHHHHHHHHHHhcC-CeEEEEeCcchhhccc
Confidence            6778889999888654 7999999999997654

>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=99.59  E-value=5.4e-16  Score=172.08  Aligned_cols=112  Identities=27%  Similarity=0.467  Sum_probs=96.0

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHh-hccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKA-TANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-  425 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-  425 (466)
                      .+..+|+||.|.++.++.|++++.. +.++..    +..|+++||||||||||||++|++||+.+|.+|+.++|+++.. 
T Consensus       198 ~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk  277 (806)
T 3cf2_A          198 LNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  277 (806)
T ss_dssp             SSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSS
T ss_pred             CCCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcc
Confidence            3556899999999999999987764 554432    2367899999999999999999999999999999999988754 


Q ss_pred             chhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      +.+++...++.+|..|+... ++||||||||.|+++|++
T Consensus       278 ~~gese~~lr~lF~~A~~~~-PsIIfIDEiDal~~~r~~  315 (806)
T 3cf2_A          278 LAGESESNLRKAFEEAEKNA-PAIIFIDELDAIAPKREK  315 (806)
T ss_dssp             CTTHHHHHHHHHHHHHTTSC-SEEEEEESGGGTCCTTTT
T ss_pred             cchHHHHHHHHHHHHHHHcC-CeEEEEehhcccccccCC
Confidence            67788999999999999766 899999999999988764

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.59  E-value=1.3e-15  Score=152.96  Aligned_cols=111  Identities=20%  Similarity=0.406  Sum_probs=89.5

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHh-hcccc---ccccccccccccCCCCCCchHHHHHHHHhh-CCcchhhcCCCccc-c
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKA-TANTK---IHQAPFRNMLFYGPPGTGKTMVAREIARKS-GLDYAMMTGGDVAP-L  426 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~---~~~~p~~~vLl~GppGTGKT~lA~alA~~l-~~~~~~v~~~~l~~-~  426 (466)
                      +...|++|+|.+.+++.|...+.. +..+.   ....|+++||||||||||||++|++||+.+ +.+|+.++++++.. +
T Consensus         7 ~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~~   86 (322)
T 1xwi_A            7 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKW   86 (322)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCSS
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhhh
Confidence            345789999999999999886643 22221   123566899999999999999999999999 89999999988754 4


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccCC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+++...++.+|..++... ++||||||||.+.++++.
T Consensus        87 ~g~~~~~~~~lf~~a~~~~-~~vl~iDEid~l~~~~~~  123 (322)
T 1xwi_A           87 LGESEKLVKNLFQLARENK-PSIIFIDEIDSLCGSRSE  123 (322)
T ss_dssp             CCSCHHHHHHHHHHHHHTS-SEEEEEETTTGGGCCSSS
T ss_pred             hhHHHHHHHHHHHHHHhcC-CcEEEeecHHHhcccccc
Confidence            4566778899999988655 799999999999877653

>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=99.59  E-value=6.2e-16  Score=154.96  Aligned_cols=111  Identities=21%  Similarity=0.374  Sum_probs=89.1

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhh-ccc---cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-cc
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKAT-ANT---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-PL  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~-~~~---~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-~~  426 (466)
                      .+...|++|+|.+.+++.|...+... ...   .....|+++||||||||||||++|++||+.++.+|+.++|+++. .+
T Consensus        12 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~   91 (322)
T 3eie_A           12 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKW   91 (322)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTTT
T ss_pred             CCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhcc
Confidence            34567899999999999998866432 111   22345678999999999999999999999999999999998764 35


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .++....++.+|..+.... ++||||||||.|.+++.
T Consensus        92 ~g~~~~~~~~~f~~a~~~~-~~vl~iDEid~l~~~~~  127 (322)
T 3eie_A           92 MGESEKLVKQLFAMARENK-PSIIFIDQVDALTGTRG  127 (322)
T ss_dssp             GGGHHHHHHHHHHHHHHTS-SEEEEEECGGGGSCC--
T ss_pred             cchHHHHHHHHHHHHHhcC-CeEEEechhhhhhccCC
Confidence            5677788899999998765 79999999999987663

>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=99.56  E-value=7.3e-16  Score=171.03  Aligned_cols=111  Identities=28%  Similarity=0.463  Sum_probs=90.5

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhh-ccc----cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKAT-ANT----KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-  425 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~-~~~----~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-  425 (466)
                      .+...|+++.|.+++++.|.+.+... .++    ..+..|+++||||||||||||++|++||.+++.+|+.++++++.. 
T Consensus       471 ~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~  550 (806)
T 3cf2_A          471 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM  550 (806)
T ss_dssp             CCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTT
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhcc
Confidence            35567899999999999998866542 222    123456789999999999999999999999999999999988654 


Q ss_pred             chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.+++...++.+|+.|+... ++||||||||+++++|+
T Consensus       551 ~vGese~~vr~lF~~Ar~~~-P~IifiDEiDsl~~~R~  587 (806)
T 3cf2_A          551 WFGESEANVREIFDKARQAA-PCVLFFDELDSIAKARG  587 (806)
T ss_dssp             TCSSCHHHHHHHHHHHHTTC-SEEEECSCGGGCC----
T ss_pred             ccchHHHHHHHHHHHHHHcC-CceeechhhhHHhhccC
Confidence            77788999999999999766 89999999999998875

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.55  E-value=4.6e-15  Score=143.29  Aligned_cols=110  Identities=24%  Similarity=0.389  Sum_probs=88.5

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      +...|++|+|.+.+++.+..++..+.+...    +..+++++|||||||||||+++++|++.++.+|+.++|.++.. +.
T Consensus         7 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~~~   86 (257)
T 1lv7_A            7 IKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFV   86 (257)
T ss_dssp             SCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCC
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHHhh
Confidence            355789999999999999988777655432    1234578999999999999999999999999999999998754 33


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.....+..+|..+.... +++|||||||.+.++++
T Consensus        87 ~~~~~~~~~~~~~a~~~~-~~il~iDeid~l~~~~~  121 (257)
T 1lv7_A           87 GVGASRVRDMFEQAKKAA-PCIIFIDEIDAVGRQRG  121 (257)
T ss_dssp             CCCHHHHHHHHHHHHTTC-SEEEEETTHHHHTCCCS
T ss_pred             hhhHHHHHHHHHHHHHcC-CeeehhhhhhhhccCCC
Confidence            344567888999887544 78999999999987665

>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=99.54  E-value=5.5e-15  Score=155.77  Aligned_cols=110  Identities=23%  Similarity=0.363  Sum_probs=90.8

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      +..+|++|+|.++.+..+..++..+.++.    .+..+++++||+||||||||+++++|+..++.+|+.++|+++.. +.
T Consensus        11 ~~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~   90 (476)
T 2ce7_A           11 KRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFV   90 (476)
T ss_dssp             CCCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCT
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHh
Confidence            45678999999999999999888766542    12345578999999999999999999999999999999988765 44


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.+...++.+|..+.... ++||||||||.+.++|+
T Consensus        91 g~~~~~~r~lf~~A~~~~-p~ILfIDEid~l~~~r~  125 (476)
T 2ce7_A           91 GVGAARVRDLFAQAKAHA-PCIVFIDEIDAVGRHRG  125 (476)
T ss_dssp             THHHHHHHHHHHHHHHTC-SEEEEEETGGGTCCC--
T ss_pred             cccHHHHHHHHHHHHhcC-CCEEEEechhhhhhhcc
Confidence            456677889999998655 79999999999988765

>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=99.54  E-value=2.5e-15  Score=152.85  Aligned_cols=111  Identities=21%  Similarity=0.377  Sum_probs=84.4

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhh-ccc---cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKAT-ANT---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~-~~~---~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      .+...|++|+|.+.+++.|...+... ..+   .....|+++||||||||||||++|++||+.++.+|+.++++++.. +
T Consensus        45 ~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~  124 (355)
T 2qp9_X           45 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKW  124 (355)
T ss_dssp             --CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhh
Confidence            34567899999999999998865432 221   123456689999999999999999999999999999999887643 4


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .++....++.+|..+.... ++||||||||.|.+.+.
T Consensus       125 ~g~~~~~~~~~f~~a~~~~-~~vl~iDEid~l~~~r~  160 (355)
T 2qp9_X          125 MGESEKLVKQLFAMARENK-PSIIFIDQVDALTGTRG  160 (355)
T ss_dssp             ---CHHHHHHHHHHHHHTS-SEEEEEECGGGGTC---
T ss_pred             cchHHHHHHHHHHHHHHcC-CeEEEEechHhhcccCC
Confidence            4556678889999887655 79999999999987653

>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=99.54  E-value=2.4e-15  Score=145.93  Aligned_cols=109  Identities=22%  Similarity=0.352  Sum_probs=84.5

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      +...|+++||++..++.+..++..+..+..    ...+++++|||||||||||++|++|+..++.+|+.++|+++.. +.
T Consensus         6 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~   85 (268)
T 2r62_A            6 PNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFV   85 (268)
T ss_dssp             CCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCS
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhc
Confidence            456789999999999999998776554332    2234578999999999999999999999999999999988754 22


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      +.+...+..+|..+.... ++||||||+|.|..++
T Consensus        86 ~~~~~~~~~~~~~a~~~~-~~vl~iDEid~l~~~~  119 (268)
T 2r62_A           86 GLGASRVRDLFETAKKQA-PSIIFIDEIDAIGKSR  119 (268)
T ss_dssp             SSCSSSSSTTHHHHHHSC-SCEEEESCGGGTTC--
T ss_pred             chHHHHHHHHHHHHHhcC-CeEEEEeChhhhcccc
Confidence            233345567788777544 7899999999997654

>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=99.53  E-value=6.4e-15  Score=154.69  Aligned_cols=110  Identities=20%  Similarity=0.262  Sum_probs=87.6

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCccc-c
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAP-L  426 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~-~  426 (466)
                      ...+...|+++||++.+++.+..++..+...   ..|++++|||||||||||++|+++|+.++  .+|+.++|+++.. +
T Consensus        29 ~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~---~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~~~  105 (456)
T 2c9o_A           29 SGLAKQAASGLVGQENAREACGVIVELIKSK---KMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTE  105 (456)
T ss_dssp             TSCBCSEETTEESCHHHHHHHHHHHHHHHTT---CCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCCSS
T ss_pred             ccChhhchhhccCHHHHHHHHHHHHHHHHhC---CCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHHHh
Confidence            3455667899999999999998877665442   34567899999999999999999999998  8999999988764 3


Q ss_pred             hhHHHHHHHHHHhhh---hhccCceEEEeccccccccccCC
Q 012305          427 GAQAVTKIHEIFDWA---KKSKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A---~~~~~~~iLflDEid~l~~~r~~  464 (466)
                      .+++.. +..+|..+   +... ++||||||||.++++|.+
T Consensus       106 ~~~~~~-~~~~f~~a~~~~~~~-~~il~iDEid~l~~~r~~  144 (456)
T 2c9o_A          106 IKKTEV-LMENFRRAIGLRIKE-TKEVYEGEVTELTPCETE  144 (456)
T ss_dssp             SCHHHH-HHHHHHHTEEEEEEE-EEEEEEEEEEEEEEC---
T ss_pred             hhhhHH-HHHHHHHHHhhhhcC-CcEEEEechhhcccccCC
Confidence            444444 88999988   5444 799999999999987753

>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=99.52  E-value=2.1e-15  Score=149.77  Aligned_cols=110  Identities=27%  Similarity=0.464  Sum_probs=86.5

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhh-cccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKAT-ANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~-~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      +..+|++|+|.+.+++.|..++... ..+.    ....+.+++|||||||||||++|++||..++.+|+.++|+++.. +
T Consensus        10 ~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~   89 (301)
T 3cf0_A           10 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW   89 (301)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHH
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhh
Confidence            4567899999999999998876542 2211    12245678999999999999999999999999999999887643 3


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .+++...++.+|..+.... ++||||||||.|...++
T Consensus        90 ~g~~~~~~~~~f~~a~~~~-p~il~iDEid~l~~~~~  125 (301)
T 3cf0_A           90 FGESEANVREIFDKARQAA-PCVLFFDELDSIAKARG  125 (301)
T ss_dssp             HTTCTTHHHHHHHHHHHTC-SEEEEECSTTHHHHHHT
T ss_pred             cCchHHHHHHHHHHHHhcC-CeEEEEEChHHHhhccC
Confidence            3445567889999987655 79999999999987653

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.52  E-value=9.9e-15  Score=149.95  Aligned_cols=110  Identities=24%  Similarity=0.463  Sum_probs=82.1

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhcc-c---cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATAN-T---KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~-~---~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      ....|++|||++.+++.|..++..... .   .....+.++||||||||||||++|++||..++.+|+.++|+++.. +.
T Consensus       110 ~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~  189 (389)
T 3vfd_A          110 TAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYV  189 (389)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC-----
T ss_pred             CCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhcccc
Confidence            345689999999999999876543221 1   112345679999999999999999999999999999999998764 44


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.....+..+|..+.... ++||||||||.|+.++.
T Consensus       190 g~~~~~~~~~~~~a~~~~-~~il~iDEid~l~~~~~  224 (389)
T 3vfd_A          190 GEGEKLVRALFAVARELQ-PSIIFIDQVDSLLCERR  224 (389)
T ss_dssp             --CHHHHHHHHHHHHHSS-SEEEEEETGGGGC----
T ss_pred             chHHHHHHHHHHHHHhcC-CeEEEEECchhhcccCC
Confidence            455677889999988665 78999999999976653

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.51  E-value=1.4e-14  Score=142.61  Aligned_cols=110  Identities=23%  Similarity=0.432  Sum_probs=85.7

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhh-cccc---ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKAT-ANTK---IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~-~~~~---~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      +...|++++|++..++.|...+... .+..   ....+.+++|||||||||||++|++|+..++.+|+.++|+++.. +.
T Consensus        16 ~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~~~   95 (297)
T 3b9p_A           16 AKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYV   95 (297)
T ss_dssp             SCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSSSC
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhccc
Confidence            4567899999999999998765431 1111   11235678999999999999999999999999999999988754 34


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.....++.+|..+.... ++||||||||.++..++
T Consensus        96 ~~~~~~~~~~~~~~~~~~-~~vl~iDEid~l~~~~~  130 (297)
T 3b9p_A           96 GDGEKLVRALFAVARHMQ-PSIIFIDEVDSLLSERS  130 (297)
T ss_dssp             SCHHHHHHHHHHHHHHTC-SEEEEEETGGGTSBCC-
T ss_pred             chHHHHHHHHHHHHHHcC-CcEEEeccHHHhccccc
Confidence            455667788888887655 79999999999987654

>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=99.51  E-value=9.3e-15  Score=153.05  Aligned_cols=110  Identities=20%  Similarity=0.402  Sum_probs=83.0

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHh-hcccc---ccccccccccccCCCCCCchHHHHHHHHhh-CCcchhhcCCCccc-c
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKA-TANTK---IHQAPFRNMLFYGPPGTGKTMVAREIARKS-GLDYAMMTGGDVAP-L  426 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~---~~~~p~~~vLl~GppGTGKT~lA~alA~~l-~~~~~~v~~~~l~~-~  426 (466)
                      +...|++|+|++.++..|...+.. +..+.   ....|+++||||||||||||++|++||..+ +.+|+.++++++.. +
T Consensus       129 ~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~~~  208 (444)
T 2zan_A          129 PNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKW  208 (444)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC------
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHhhh
Confidence            456789999999999999876532 22221   123466899999999999999999999999 89999999988754 4


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .+++...++.+|..+.... ++||||||||.+++.+.
T Consensus       209 ~g~~~~~~~~~f~~a~~~~-~~vl~iDEid~l~~~~~  244 (444)
T 2zan_A          209 LGESEKLVKNLFQLARENK-PSIIFIDEIDSLCGSRS  244 (444)
T ss_dssp             ---CCCTHHHHHHHHHHSC-SEEEEESCTTTTCCCSS
T ss_pred             cchHHHHHHHHHHHHHHcC-CeEEEEechHhhccCCC
Confidence            4455667889999887655 79999999999987654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.51  E-value=1.1e-14  Score=142.29  Aligned_cols=111  Identities=24%  Similarity=0.456  Sum_probs=87.9

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhh-cccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKAT-ANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-  425 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~-~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-  425 (466)
                      .+...|++++|.+..++.|...+... ....    ....+++++|||||||||||++|++|+..++.+|+.+++.++.. 
T Consensus        11 ~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~   90 (285)
T 3h4m_A           11 RPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKK   90 (285)
T ss_dssp             SCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCC
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHh
Confidence            44567899999999999998765442 2211    11245578999999999999999999999999999999988753 


Q ss_pred             chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          426 LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       426 ~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.+.....+..+|..+.... ++||||||||.+.+++.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~-~~vl~iDEid~l~~~~~  127 (285)
T 3h4m_A           91 FIGEGASLVKDIFKLAKEKA-PSIIFIDEIDAIAAKRT  127 (285)
T ss_dssp             STTHHHHHHHHHHHHHHHTC-SEEEEEETTHHHHBCCS
T ss_pred             ccchHHHHHHHHHHHHHHcC-CeEEEEECHHHhcccCc
Confidence            55566777889999888655 78999999999987654

>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=99.49  E-value=1.7e-14  Score=146.62  Aligned_cols=110  Identities=24%  Similarity=0.391  Sum_probs=86.9

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHh-hcccc---ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKA-TANTK---IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~-~~~~~---~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      +...|++|+|.+.+++.|...+.. +....   ....++++||||||||||||++|++||..++.+|+.++|+++.. +.
T Consensus        79 ~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~  158 (357)
T 3d8b_A           79 PPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWV  158 (357)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSST
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhcccc
Confidence            456789999999999999886653 22221   12345678999999999999999999999999999999988754 44


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      ++....++.+|..+.... ++||||||||.|.++++
T Consensus       159 g~~~~~~~~~~~~a~~~~-~~vl~iDEid~l~~~~~  193 (357)
T 3d8b_A          159 GEGEKMVRALFAVARCQQ-PAVIFIDEIDSLLSQRG  193 (357)
T ss_dssp             THHHHHHHHHHHHHHHTC-SEEEEEETHHHHTBC--
T ss_pred             chHHHHHHHHHHHHHhcC-CeEEEEeCchhhhccCC
Confidence            566677888998887655 79999999999977653

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.46  E-value=2.8e-14  Score=141.27  Aligned_cols=80  Identities=21%  Similarity=0.263  Sum_probs=59.4

Q ss_pred             ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhHHHHHHHHHHhhhh---hccCceEEEeccccccc
Q 012305          384 QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQAVTKIHEIFDWAK---KSKKGLLLFIDEADAFL  459 (466)
Q Consensus       384 ~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~  459 (466)
                      ..+++++|||||||||||++|++||+.+|.+|+.++|+++.. +.+.....++.+|..+.   +...++||||||||.++
T Consensus        33 ~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~  112 (293)
T 3t15_A           33 IKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGA  112 (293)
T ss_dssp             CCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC---
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechhhhc
Confidence            345689999999999999999999999999999999987643 55667778888998882   13348999999999998


Q ss_pred             cccC
Q 012305          460 CDNQ  463 (466)
Q Consensus       460 ~~r~  463 (466)
                      ++++
T Consensus       113 ~~~~  116 (293)
T 3t15_A          113 GRMG  116 (293)
T ss_dssp             ----
T ss_pred             CCCC
Confidence            7543

>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=99.45  E-value=3.2e-14  Score=150.65  Aligned_cols=109  Identities=28%  Similarity=0.496  Sum_probs=89.1

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhh-cccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKAT-ANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~-~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      ...|++++|.+..+..|..++... .+..    .+..++++||||||||||||++|++|+..++.+|+.++|+++.. +.
T Consensus       200 ~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~  279 (489)
T 3hu3_A          200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  279 (489)
T ss_dssp             CCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCT
T ss_pred             CCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhc
Confidence            457889999999999998876543 2111    11245578999999999999999999999999999999988754 55


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      ++....++++|..+.... ++||||||||.|.++++
T Consensus       280 g~~~~~~~~~f~~A~~~~-p~iLfLDEId~l~~~~~  314 (489)
T 3hu3_A          280 GESESNLRKAFEEAEKNA-PAIIFIDELDAIAPKRE  314 (489)
T ss_dssp             THHHHHHHHHHHHHHHTC-SEEEEEESHHHHCBCTT
T ss_pred             chhHHHHHHHHHHHHhcC-CcEEEecchhhhccccc
Confidence            677888999999998655 78999999999988765

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.43  E-value=1.2e-13  Score=146.43  Aligned_cols=110  Identities=22%  Similarity=0.362  Sum_probs=90.1

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      +..+|++|+|.++.+..+..++..+.++..    +..+++++|||||||||||+++++||..++.+|+.++|.++.. +.
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~  105 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV  105 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCT
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhh
Confidence            567899999999999999998887655422    2234578999999999999999999999999999999988764 34


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +.....++.+|+.+.... ++||||||||.+...++
T Consensus       106 g~~~~~v~~lfq~a~~~~-p~il~IDEId~l~~~r~  140 (499)
T 2dhr_A          106 GVGAARVRDLFETAKRHA-PCIVFIDEIDAVGRKRG  140 (499)
T ss_dssp             THHHHHHHHHTTTSSSSS-SCEEEEECGGGTCCCSS
T ss_pred             hhHHHHHHHHHHHHHhcC-CCEEEEehHHHHHHhhc
Confidence            455667889999887544 68999999999987654

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.41  E-value=5.8e-14  Score=124.35  Aligned_cols=88  Identities=16%  Similarity=0.286  Sum_probs=68.7

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHHHHHHH
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQAVTKIH  435 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~~~~l~  435 (466)
                      ++||.+..+..+...+..+.....      +|||+||||||||++|++|+..+   +.+|+ ++|+.+...     ....
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~------~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~-----~~~~   69 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDI------AVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNA-----PQLN   69 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCS------CEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTS-----SCHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCC------CEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcc-----hhhh
Confidence            578999999888877766644333      49999999999999999999987   77899 999876543     3455


Q ss_pred             HHHhhhhhccCceEEEecccccccccc
Q 012305          436 EIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       436 ~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ++|..+.    +++|||||||.+....
T Consensus        70 ~~~~~a~----~g~l~ldei~~l~~~~   92 (145)
T 3n70_A           70 DFIALAQ----GGTLVLSHPEHLTREQ   92 (145)
T ss_dssp             HHHHHHT----TSCEEEECGGGSCHHH
T ss_pred             cHHHHcC----CcEEEEcChHHCCHHH
Confidence            6777664    6899999999987654

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.38  E-value=3.2e-13  Score=132.56  Aligned_cols=109  Identities=24%  Similarity=0.401  Sum_probs=79.5

Q ss_pred             cccCCCCeeeCcchHHHHHHHH-Hhhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          353 AIKNNGDIILHPSLQRRIQHLA-KATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~-~~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      +..+|+||.|.+++++.|...+ ..+.+..    .+..++++++||||||||||+++++|+..++.+++.+++.++.. +
T Consensus         5 ~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~~   84 (274)
T 2x8a_A            5 PNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMY   84 (274)
T ss_dssp             -------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSST
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhhh
Confidence            3457899999999999998643 3333321    12344578999999999999999999999999999999988754 4


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      .++....+..+|..+.... ++++|+||+|.+...+
T Consensus        85 ~~~~~~~i~~vf~~a~~~~-p~i~~~Deid~~~~~r  119 (274)
T 2x8a_A           85 VGESERAVRQVFQRAKNSA-PCVIFFDEVDALCPRR  119 (274)
T ss_dssp             THHHHHHHHHHHHHHHHTC-SEEEEEETCTTTCC--
T ss_pred             hhHHHHHHHHHHHHHHhcC-CCeEeeehhhhhhccc
Confidence            4566678899999886544 7899999999987654

>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=99.35  E-value=2.7e-13  Score=137.73  Aligned_cols=104  Identities=17%  Similarity=0.316  Sum_probs=76.0

Q ss_pred             eeeCcchHHHHHHHHHhh-cccc------ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---chhH
Q 012305          360 IILHPSLQRRIQHLAKAT-ANTK------IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP---LGAQ  429 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~~-~~~~------~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~---~~~e  429 (466)
                      |||++.+++.|...+... ....      ....+..+|||+||||||||++|++||..++.+|+.++|+++..   .|..
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~~   96 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGED   96 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhccccccccc
Confidence            789999999988765321 1111      11135578999999999999999999999999999999988764   2222


Q ss_pred             HHHHHHHHHhhhh---hccCceEEEeccccccccccC
Q 012305          430 AVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       430 ~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~r~  463 (466)
                      ....+..+|..+.   ....++||||||||.+.+++.
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~  133 (363)
T 3hws_A           97 VENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSD  133 (363)
T ss_dssp             HTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSS
T ss_pred             HHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhccccc
Confidence            3456677776652   112378999999999987753

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.34  E-value=3.6e-13  Score=132.95  Aligned_cols=100  Identities=30%  Similarity=0.365  Sum_probs=75.3

Q ss_pred             CeeeCcchHHHHHHHHHhhcccc-------ccccccccccccCCCCCCchHHHHHHHHhhC-------CcchhhcCCCcc
Q 012305          359 DIILHPSLQRRIQHLAKATANTK-------IHQAPFRNMLFYGPPGTGKTMVAREIARKSG-------LDYAMMTGGDVA  424 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~-------~~~~p~~~vLl~GppGTGKT~lA~alA~~l~-------~~~~~v~~~~l~  424 (466)
                      +|||++.+++.|..++.......       ....+..++|||||||||||++|+++++.++       .+|+.+++.++.
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            69999999999988776543211       1134456899999999999999999999883       378888887764


Q ss_pred             c-chhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          425 P-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       425 ~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      . +.+.....+..+|..+.    ++||||||||.|++.+
T Consensus       112 ~~~~g~~~~~~~~~~~~~~----~~vl~iDEid~l~~~~  146 (309)
T 3syl_A          112 GQYIGHTAPKTKEVLKRAM----GGVLFIDEAYYLYRPD  146 (309)
T ss_dssp             CSSTTCHHHHHHHHHHHHT----TSEEEEETGGGSCCCC
T ss_pred             hhcccccHHHHHHHHHhcC----CCEEEEEChhhhccCC
Confidence            3 33445566778887763    6899999999987544

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.34  E-value=7.9e-14  Score=123.26  Aligned_cols=87  Identities=14%  Similarity=0.174  Sum_probs=67.0

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHH
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIF  438 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf  438 (466)
                      ++||.+..+..+...+..+....      .+|||+||||||||++|++|+..++ +|+.++|+++...      ...++|
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~------~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~------~~~~~~   71 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRT------SPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLID------MPMELL   71 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCS------SCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHH------CHHHHH
T ss_pred             CceeCCHHHHHHHHHHHHHhCCC------CcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChH------hhhhHH
Confidence            58899999998888776654332      3599999999999999999999988 9999999875421      146677


Q ss_pred             hhhhhccCceEEEecccccccccc
Q 012305          439 DWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       439 ~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      +.+.    +++|||||||.+..+.
T Consensus        72 ~~a~----~~~l~lDei~~l~~~~   91 (143)
T 3co5_A           72 QKAE----GGVLYVGDIAQYSRNI   91 (143)
T ss_dssp             HHTT----TSEEEEEECTTCCHHH
T ss_pred             HhCC----CCeEEEeChHHCCHHH
Confidence            7664    6899999999987643

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=99.34  E-value=1.4e-12  Score=126.94  Aligned_cols=102  Identities=26%  Similarity=0.362  Sum_probs=74.0

Q ss_pred             CCCeeeCcchHHHHHH----HHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc--cchhHH
Q 012305          357 NGDIILHPSLQRRIQH----LAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA--PLGAQA  430 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~----~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~--~~~~e~  430 (466)
                      ..++||.+...+.+..    +...+...  ...++.++|||||||||||++|++|+..++.+|+.+++++..  ......
T Consensus        32 ~~~~i~~~~~~~~i~~~~~~l~~~l~~~--~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~  109 (272)
T 1d2n_A           32 MNGIIKWGDPVTRVLDDGELLVQQTKNS--DRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAK  109 (272)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHC--SSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHH
T ss_pred             hcCCCCccHHHHHHHHHHHHHHHHHhcc--CCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHH
Confidence            3568888877666655    33333322  123557899999999999999999999999999999886521  122333


Q ss_pred             HHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          431 VTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       431 ~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      ...+..+|+.+.... ++||||||||.|++.
T Consensus       110 ~~~~~~~~~~~~~~~-~~vl~iDEid~l~~~  139 (272)
T 1d2n_A          110 CQAMKKIFDDAYKSQ-LSCVVVDDIERLLDY  139 (272)
T ss_dssp             HHHHHHHHHHHHTSS-EEEEEECCHHHHTTC
T ss_pred             HHHHHHHHHHHHhcC-CcEEEEEChhhhhcc
Confidence            456778888776544 899999999998543

>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=99.33  E-value=5.4e-13  Score=128.45  Aligned_cols=110  Identities=22%  Similarity=0.380  Sum_probs=82.9

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-c
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-L  426 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~  426 (466)
                      .+..+|++++|.+..+..+..+...+.+..    .+..++++++|+||||||||+++++|+..++.+++.+++.++.. .
T Consensus        10 ~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~~   89 (254)
T 1ixz_A           10 APKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMF   89 (254)
T ss_dssp             CCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSC
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHHH
Confidence            345688999999999999998877654321    11233467999999999999999999999998888888776543 2


Q ss_pred             hhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          427 GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       427 ~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      .+.....+..+|+.+.... ++++||||||.+...+
T Consensus        90 ~~~~~~~i~~~~~~~~~~~-~~i~~~Deid~l~~~~  124 (254)
T 1ixz_A           90 VGVGAARVRDLFETAKRHA-PCIVFIDEIDAVGRKR  124 (254)
T ss_dssp             TTHHHHHHHHHHHHHTTSS-SEEEEEETHHHHHC--
T ss_pred             hhHHHHHHHHHHHHHHhcC-CeEEEehhhhhhhccc
Confidence            3344566788888876444 6899999999987654

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=99.31  E-value=9e-13  Score=129.55  Aligned_cols=105  Identities=23%  Similarity=0.378  Sum_probs=75.0

Q ss_pred             CCeeeCcchHHHHHHHHHhh-cccc-----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---chh
Q 012305          358 GDIILHPSLQRRIQHLAKAT-ANTK-----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP---LGA  428 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~-~~~~-----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~---~~~  428 (466)
                      .+|+|++.+++.+...+... ....     ....++.++|||||||||||++|++++..++.+|+.++|+++..   .+.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~   94 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCc
Confidence            45899999999988765431 1110     11234568999999999999999999999999999999987753   333


Q ss_pred             HHHHHHHHHHhhh----hhccCceEEEecccccccccc
Q 012305          429 QAVTKIHEIFDWA----KKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       429 e~~~~l~~lf~~A----~~~~~~~iLflDEid~l~~~r  462 (466)
                      +....+..++..+    ....+++||||||||.+..+.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~  132 (310)
T 1ofh_A           95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKG  132 (310)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCS
T ss_pred             cHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccc
Confidence            3334566666533    111237899999999998765

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.29  E-value=2.5e-12  Score=116.12  Aligned_cols=100  Identities=19%  Similarity=0.297  Sum_probs=71.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l  423 (466)
                      +..|++++|.+.....+...+..        ....++||+||||||||++++.++..+          +.+++.+++..+
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (195)
T 1jbk_A           18 QGKLDPVIGRDEEIRRTIQVLQR--------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGAL   89 (195)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS--------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHH
T ss_pred             hccccccccchHHHHHHHHHHhc--------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHH
Confidence            34678999998877777654322        123579999999999999999999986          556666665543


Q ss_pred             c---cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .   ...+.....+..++..+.....+.||||||+|.+...
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~  130 (195)
T 1jbk_A           90 VAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGA  130 (195)
T ss_dssp             HTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT-
T ss_pred             hccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhcc
Confidence            2   2333445566777776655555789999999999754

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.27  E-value=2.1e-12  Score=135.22  Aligned_cols=99  Identities=29%  Similarity=0.467  Sum_probs=68.9

Q ss_pred             ccCCCCeeeCcchH---HHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHH
Q 012305          354 IKNNGDIILHPSLQ---RRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQA  430 (466)
Q Consensus       354 ~~~l~~vVg~~~~~---~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~  430 (466)
                      +.+|+++||++.++   ..|...+..   ...     .+||||||||||||++|++|++.++.+|+.+++....      
T Consensus        22 P~~l~~ivGq~~~~~~~~~L~~~i~~---~~~-----~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~~------   87 (447)
T 3pvs_A           22 PENLAQYIGQQHLLAAGKPLPRAIEA---GHL-----HSMILWGPPGTGKTTLAEVIARYANADVERISAVTSG------   87 (447)
T ss_dssp             CCSTTTCCSCHHHHSTTSHHHHHHHH---TCC-----CEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTCC------
T ss_pred             CCCHHHhCCcHHHHhchHHHHHHHHc---CCC-----cEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccCC------
Confidence            45789999999998   555544332   211     4799999999999999999999999999998876532      


Q ss_pred             HHHHHHHHhhhhh---ccCceEEEeccccccccccCCCC
Q 012305          431 VTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQDFI  466 (466)
Q Consensus       431 ~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~~~l  466 (466)
                      ...++.++..+..   ...++||||||||.|....++.|
T Consensus        88 ~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~L  126 (447)
T 3pvs_A           88 VKEIREAIERARQNRNAGRRTILFVDEVHRFNKSQQDAF  126 (447)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCEEEEEETTTCC------CC
T ss_pred             HHHHHHHHHHHHHhhhcCCCcEEEEeChhhhCHHHHHHH
Confidence            2344555555442   23479999999999987766543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.27  E-value=1.3e-12  Score=130.85  Aligned_cols=96  Identities=22%  Similarity=0.311  Sum_probs=74.3

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHH
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKI  434 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l  434 (466)
                      ..|+++||++..+..+..++.....   ...++.+|||+||||||||++|+++++.++.+|+.++|+.+..     ...+
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~---~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~-----~~~~   97 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKK---RNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEK-----SGDL   97 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHH---TTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCS-----HHHH
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHh---cCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccc-----hhHH
Confidence            3789999999999999887665432   2334567999999999999999999999999999999977642     2233


Q ss_pred             HHHHhhhhhccCceEEEeccccccccc
Q 012305          435 HEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       435 ~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      ..++..   ...+++|||||||.+...
T Consensus        98 ~~~~~~---~~~~~vl~lDEi~~l~~~  121 (338)
T 3pfi_A           98 AAILTN---LSEGDILFIDEIHRLSPA  121 (338)
T ss_dssp             HHHHHT---CCTTCEEEEETGGGCCHH
T ss_pred             HHHHHh---ccCCCEEEEechhhcCHH
Confidence            444443   234799999999998654

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.27  E-value=1.9e-12  Score=126.65  Aligned_cols=109  Identities=22%  Similarity=0.383  Sum_probs=83.0

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      +..+|++++|.++.+..+..+...+....    .+...+++++|+||||||||+++++|+..++.+++.+++.++.. ..
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~~  114 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV  114 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSTT
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHHh
Confidence            56788999999999999998877654421    11233467999999999999999999999998888888776543 22


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ......+..+|+.+.... ++++||||||.+...+
T Consensus       115 ~~~~~~i~~~~~~~~~~~-~~i~~iDeid~l~~~~  148 (278)
T 1iy2_A          115 GVGAARVRDLFETAKRHA-PCIVFIDEIDAVGRKR  148 (278)
T ss_dssp             THHHHHHHHHHHHHHTSC-SEEEEEETHHHHHCC-
T ss_pred             hHHHHHHHHHHHHHHhcC-CcEEehhhhHhhhccc
Confidence            334456778888876444 6899999999987544

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=99.26  E-value=2.6e-12  Score=127.44  Aligned_cols=98  Identities=26%  Similarity=0.470  Sum_probs=74.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +..|+++||.+..+..+...+......   ..+..++||+||||||||++|+++++.++.+|+.++|+.+..     ...
T Consensus         8 p~~~~~~ig~~~~~~~l~~~l~~~~~~---~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~-----~~~   79 (324)
T 1hqc_A            8 PKTLDEYIGQERLKQKLRVYLEAAKAR---KEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK-----PGD   79 (324)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHHHHH---CSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCS-----HHH
T ss_pred             cccHHHhhCHHHHHHHHHHHHHHHHcc---CCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCC-----hHH
Confidence            447899999999999988876654332   123457999999999999999999999999999999987643     223


Q ss_pred             HHHHHhhhhhccCceEEEeccccccccc
Q 012305          434 IHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       434 l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      +.+.|...  ...+++|||||||.+...
T Consensus        80 l~~~l~~~--~~~~~~l~lDEi~~l~~~  105 (324)
T 1hqc_A           80 LAAILANS--LEEGDILFIDEIHRLSRQ  105 (324)
T ss_dssp             HHHHHTTT--CCTTCEEEETTTTSCCHH
T ss_pred             HHHHHHHh--ccCCCEEEEECCcccccc
Confidence            34444431  234789999999998654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.26  E-value=3.8e-12  Score=114.87  Aligned_cols=99  Identities=18%  Similarity=0.276  Sum_probs=69.1

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcc
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVA  424 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~  424 (466)
                      ..|++++|.+.....+...+..        ....++||+||||||||++++.++..+          +.+++.+++..+.
T Consensus        19 ~~~~~~~g~~~~~~~l~~~l~~--------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (187)
T 2p65_A           19 GKLDPVIGRDTEIRRAIQILSR--------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLI   90 (187)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTS--------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHHH
T ss_pred             cccchhhcchHHHHHHHHHHhC--------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHhh
Confidence            3678899998877776654321        123579999999999999999999987          4555555544331


Q ss_pred             ---cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 ---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 ---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                         ...+.....+..++..+.....+.+|||||+|.+.+.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~  130 (187)
T 2p65_A           91 AGAKYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTVVGA  130 (187)
T ss_dssp             HHCCSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSSS
T ss_pred             cCCCchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHhccc
Confidence               1223334456677777665555789999999999743

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=99.23  E-value=4.3e-12  Score=126.40  Aligned_cols=96  Identities=21%  Similarity=0.225  Sum_probs=69.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHH-H
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAV-T  432 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~-~  432 (466)
                      +.+|+++||++.....+...+..       +.++..+||+||||||||++++++++.++.+|+.+++++..   .+.. .
T Consensus        22 P~~~~~ivg~~~~~~~l~~~l~~-------~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~---~~~i~~   91 (324)
T 3u61_B           22 PSTIDECILPAFDKETFKSITSK-------GKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCK---IDFVRG   91 (324)
T ss_dssp             CCSTTTSCCCHHHHHHHHHHHHT-------TCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCC---HHHHHT
T ss_pred             CCCHHHHhCcHHHHHHHHHHHHc-------CCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccC---HHHHHH
Confidence            45789999999998888776552       23334578899999999999999999999999999987753   1111 1


Q ss_pred             HHHHHHhhhhhccCceEEEeccccccc
Q 012305          433 KIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       433 ~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      .+..+.......+.+.||||||+|.|.
T Consensus        92 ~~~~~~~~~~~~~~~~vliiDEi~~l~  118 (324)
T 3u61_B           92 PLTNFASAASFDGRQKVIVIDEFDRSG  118 (324)
T ss_dssp             HHHHHHHBCCCSSCEEEEEEESCCCGG
T ss_pred             HHHHHHhhcccCCCCeEEEEECCcccC
Confidence            122222221112257999999999997

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.23  E-value=7.9e-12  Score=139.03  Aligned_cols=101  Identities=15%  Similarity=0.193  Sum_probs=74.0

Q ss_pred             CCeeeCcchHHHHHHHHHhhcccc-ccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHHHHH
Q 012305          358 GDIILHPSLQRRIQHLAKATANTK-IHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~-~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      .++||++..+..+...+....... .+..|..++||+||||||||++|++||..+   +.+|+.++|+++......+.+ 
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~~~~-  569 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTSGG-  569 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCCC---
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccccccc-
Confidence            468999999999988776655433 334555689999999999999999999998   678999999887653222222 


Q ss_pred             HHHHHhhhhhccCceEEEecccccccccc
Q 012305          434 IHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       434 l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                        .++...+ ..+++||||||||.+.+.-
T Consensus       570 --~l~~~~~-~~~~~vl~lDEi~~~~~~~  595 (758)
T 3pxi_A          570 --QLTEKVR-RKPYSVVLLDAIEKAHPDV  595 (758)
T ss_dssp             ---CHHHHH-HCSSSEEEEECGGGSCHHH
T ss_pred             --hhhHHHH-hCCCeEEEEeCccccCHHH
Confidence              2223333 3458999999999987653

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.22  E-value=4e-12  Score=128.49  Aligned_cols=70  Identities=23%  Similarity=0.361  Sum_probs=54.8

Q ss_pred             ccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC--cchhhcCCC
Q 012305          350 PVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL--DYAMMTGGD  422 (466)
Q Consensus       350 ~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~--~~~~v~~~~  422 (466)
                      ...+...|+++||++..+..+..+...+....   .|++++|||||||||||++|++++..++.  +|+.++|..
T Consensus        36 ~~~p~~~~~~ivG~~~~~~~l~~l~~~~~~~~---~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~  107 (368)
T 3uk6_A           36 ALEPRQASQGMVGQLAARRAAGVVLEMIREGK---IAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSE  107 (368)
T ss_dssp             TSCBCSEETTEESCHHHHHHHHHHHHHHHTTC---CTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGG
T ss_pred             ccCcCcchhhccChHHHHHHHHHHHHHHHcCC---CCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchh
Confidence            34555669999999999999887776665533   33468999999999999999999999964  666666544

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=99.21  E-value=5.1e-12  Score=128.87  Aligned_cols=103  Identities=17%  Similarity=0.262  Sum_probs=68.5

Q ss_pred             CeeeCcchHHHHHHHHH----hhccc------------------cccccccccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          359 DIILHPSLQRRIQHLAK----ATANT------------------KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~----~~~~~------------------~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .|||++.+++.|...+.    .....                  .....+..++||+||||||||++|++||+.++.+|+
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~  101 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA  101 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            48999999999887652    11100                  001123468999999999999999999999999999


Q ss_pred             hhcCCCccc---chhHHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          417 MMTGGDVAP---LGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       417 ~v~~~~l~~---~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                      .++|..+..   .+......+..++.....   ...++||||||||.+..+
T Consensus       102 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~  152 (376)
T 1um8_A          102 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRL  152 (376)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC---
T ss_pred             EecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhh
Confidence            999988753   222223345555543321   123789999999999876

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=99.20  E-value=2.5e-12  Score=124.53  Aligned_cols=98  Identities=16%  Similarity=0.167  Sum_probs=63.7

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC---CcchhhcCCCcccchhHH-
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---LDYAMMTGGDVAPLGAQA-  430 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---~~~~~v~~~~l~~~~~e~-  430 (466)
                      .+|+++||++..+..+...+..+....      .+|||+||||||||++|++|+..++   .+|+.++|+.+.....+. 
T Consensus         3 ~~f~~~ig~~~~~~~~~~~~~~~~~~~------~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~~~~~~   76 (265)
T 2bjv_A            3 EYKDNLLGEANSFLEVLEQVSHLAPLD------KPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSE   76 (265)
T ss_dssp             -------CCCHHHHHHHHHHHHHTTSC------SCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHHHHHHH
T ss_pred             cccccceeCCHHHHHHHHHHHHHhCCC------CCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChhHHHHH
Confidence            368899999999888877666554332      3599999999999999999999884   689999998874311110 


Q ss_pred             -HHH-----------HHHHHhhhhhccCceEEEecccccccccc
Q 012305          431 -VTK-----------IHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       431 -~~~-----------l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                       .+.           ..+++..+    .+++||||||+.+....
T Consensus        77 l~g~~~~~~~g~~~~~~~~l~~a----~~~~l~lDEi~~l~~~~  116 (265)
T 2bjv_A           77 LFGHEAGAFTGAQKRHPGRFERA----DGGTLFLDELATAPMMV  116 (265)
T ss_dssp             HHCCC---------CCCCHHHHT----TTSEEEEESGGGSCHHH
T ss_pred             hcCCcccccccccccccchhhhc----CCcEEEEechHhcCHHH
Confidence             000           01122222    26899999999987543

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=99.19  E-value=6e-13  Score=136.89  Aligned_cols=190  Identities=14%  Similarity=0.144  Sum_probs=121.8

Q ss_pred             ccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhhC
Q 012305          233 KLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRILG  312 (466)
Q Consensus       233 ~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~lg  312 (466)
                      ....|+.+.++.++. .+...++..|+..             +++.++++++++......+.+++.|   +.+|+.|++.
T Consensus        42 ~~~~DlvllD~~mp~-~dG~ell~~lr~~-------------~~~~pvIvlT~~~~~~~~~~a~~~G---a~dyl~KP~~  104 (387)
T 1ny5_A           42 EKHFNVVLLDLLLPD-VNGLEILKWIKER-------------SPETEVIVITGHGTIKTAVEAMKMG---AYDFLTKPCM  104 (387)
T ss_dssp             HSCCSEEEEESBCSS-SBHHHHHHHHHHH-------------CTTSEEEEEEETTCHHHHHHHHTTT---CCEEEEESCC
T ss_pred             hCCCCEEEEeCCCCC-CCHHHHHHHHHhh-------------CCCCcEEEEeCCCCHHHHHHHHhcC---ceEEecCCCC
Confidence            445788877766653 3555566555543             5678888999998888888888888   5678877765


Q ss_pred             CCccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccc
Q 012305          313 QPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLF  392 (466)
Q Consensus       313 ~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl  392 (466)
                      ...+..           .+...+.......+........  ...+..++|.+..+..+...+..+..+..+      |||
T Consensus       105 ~~~L~~-----------~i~~~l~~~~l~~~~~~l~~~~--~~~~~~~ig~s~~m~~l~~~i~~~a~~~~~------vli  165 (387)
T 1ny5_A          105 LEEIEL-----------TINKAIEHRKLRKENELLRREK--DLKEEEYVFESPKMKEILEKIKKISCAECP------VLI  165 (387)
T ss_dssp             HHHHHH-----------HHHHHHHHHHHHHHHHHHHHHH--HTTCCCCCCCSHHHHHHHHHHHHHTTCCSC------EEE
T ss_pred             HHHHHH-----------HHHHHHHHHHHHHHHHHhhhhh--hhcchhhhhccHHhhHHHHHHHHhcCCCCC------eEE
Confidence            444422           1111111100000000000000  012467889988888888877777655443      999


Q ss_pred             cCCCCCCchHHHHHHHHhhC---CcchhhcCCCcccchhH--HHH-----------HHHHHHhhhhhccCceEEEecccc
Q 012305          393 YGPPGTGKTMVAREIARKSG---LDYAMMTGGDVAPLGAQ--AVT-----------KIHEIFDWAKKSKKGLLLFIDEAD  456 (466)
Q Consensus       393 ~GppGTGKT~lA~alA~~l~---~~~~~v~~~~l~~~~~e--~~~-----------~l~~lf~~A~~~~~~~iLflDEid  456 (466)
                      +|++|||||++|++++..++   .+|+.++|+.++....+  ..+           ...++|+.|.    +++||||||+
T Consensus       166 ~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~~~elfg~~~g~~tga~~~~~g~~~~a~----~gtlfldei~  241 (387)
T 1ny5_A          166 TGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSSKEGFFELAD----GGTLFLDEIG  241 (387)
T ss_dssp             ECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSCBCCHHHHTT----TSEEEEESGG
T ss_pred             ecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHHHHhcCCCCCCCCCcccccCCceeeCC----CcEEEEcChh
Confidence            99999999999999998874   78999999987652211  111           1234455544    7899999999


Q ss_pred             cccccc
Q 012305          457 AFLCDN  462 (466)
Q Consensus       457 ~l~~~r  462 (466)
                      .|....
T Consensus       242 ~l~~~~  247 (387)
T 1ny5_A          242 ELSLEA  247 (387)
T ss_dssp             GCCHHH
T ss_pred             hCCHHH
Confidence            987543

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.18  E-value=1e-11  Score=132.36  Aligned_cols=109  Identities=23%  Similarity=0.341  Sum_probs=75.9

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhcccc---------ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTK---------IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA  424 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~---------~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~  424 (466)
                      +..|++++|++..++.|..++.......         .+..+++++||+||||||||++|++|++.+|.+++.++|+++.
T Consensus        35 P~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~~~  114 (516)
T 1sxj_A           35 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVR  114 (516)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCCcc
Confidence            3468999999999999988766533221         1112457899999999999999999999999999999998864


Q ss_pred             cch--hHHHH------HHHHHHhhh----hhccCceEEEecccccccccc
Q 012305          425 PLG--AQAVT------KIHEIFDWA----KKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       425 ~~~--~e~~~------~l~~lf~~A----~~~~~~~iLflDEid~l~~~r  462 (466)
                      ...  .....      .+.++|..+    .....++||||||||.|....
T Consensus       115 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~  164 (516)
T 1sxj_A          115 SKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGD  164 (516)
T ss_dssp             CHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTS
T ss_pred             hHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhh
Confidence            311  00000      122333333    112447899999999997654

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.18  E-value=3.8e-12  Score=126.66  Aligned_cols=94  Identities=20%  Similarity=0.203  Sum_probs=68.7

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--H-
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--V-  431 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~-  431 (466)
                      +++||.+..+..+...+..+....      .+|||+||||||||++|++|+..+   +.+|+.++|+.++....++  . 
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~------~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~~lfg   75 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSD------ATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLESELFG   75 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTT------SCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHHHHTC
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCC------CcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHHHhcC
Confidence            358999999998888777765433      359999999999999999999976   6789999999875421111  0 


Q ss_pred             ----------HHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          432 ----------TKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       432 ----------~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                                ....+.|..+.    +++|||||||.|...
T Consensus        76 ~~~g~~tg~~~~~~g~~~~a~----~g~L~LDEi~~l~~~  111 (304)
T 1ojl_A           76 HEKGAFTGADKRREGRFVEAD----GGTLFLDEIGDISPL  111 (304)
T ss_dssp             CCSSCCC---CCCCCHHHHHT----TSEEEEESCTTCCHH
T ss_pred             ccccccCchhhhhcCHHHhcC----CCEEEEeccccCCHH
Confidence                      01223444443    689999999998754

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=99.18  E-value=1.5e-12  Score=133.16  Aligned_cols=184  Identities=17%  Similarity=0.237  Sum_probs=122.8

Q ss_pred             cccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhh
Q 012305          232 AKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRIL  311 (466)
Q Consensus       232 ~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~l  311 (466)
                      .....|+.+.++.++. .+...++..|+..             +++.++++++++......+.+.+.|   +.+|+.|++
T Consensus        41 ~~~~~DlvllDi~mP~-~dG~ell~~lr~~-------------~~~~pvI~lT~~~~~~~~~~a~~~G---a~~yl~KP~  103 (368)
T 3dzd_A           41 KELFFPVIVLDVWMPD-GDGVNFIDFIKEN-------------SPDSVVIVITGHGSVDTAVKAIKKG---AYEFLEKPF  103 (368)
T ss_dssp             HHBCCSEEEEESEETT-EETTTHHHHHHHH-------------CTTCEEEEEECSSCCHHHHHHHHHT---CCEEEESSC
T ss_pred             HhCCCCEEEEeCCCCC-CCHHHHHHHHHhh-------------CCCCeEEEEeCCCCHHHHHHHHhcC---cceEEeCCC
Confidence            3456788888877764 3566666666654             5677888999988887778888887   567777776


Q ss_pred             CCCccccccccCCCchhhhhHHHHHHhhhccccccccCccccccCCCCeeeCcchHHHHHHHHHhhcccccccccccccc
Q 012305          312 GQPSLIRESSIGKFPWSGLLSQAMNKVIRNKTSAGTAGPVEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNML  391 (466)
Q Consensus       312 g~p~lvre~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vL  391 (466)
                      ....+.           ..+...+...    ......   .   ...+++|.+..+..+...+..+.....+      +|
T Consensus       104 ~~~~L~-----------~~i~~~l~~~----~~~~~~---~---~~~~~ig~s~~~~~~~~~~~~~a~~~~~------vl  156 (368)
T 3dzd_A          104 SVERFL-----------LTIKHAFEEY----SKKAPP---Q---EEIEFVGEHPKILEIKRLIPKIAKSKAP------VL  156 (368)
T ss_dssp             CHHHHH-----------HHHHHHHHHH----SCCCCC---C---CCCCCCCCSHHHHHHHHHHHHHHTSCSC------EE
T ss_pred             CHHHHH-----------HHHHHHHHHh----hhhhcc---c---ccccccccchHHHHHHhhhhhhhccchh------he
Confidence            644331           2222332222    100000   0   1246889999888888877777655444      99


Q ss_pred             ccCCCCCCchHHHHHHHHhhCC--cchhhcCCCcccchhHH--HHH-----------HHHHHhhhhhccCceEEEecccc
Q 012305          392 FYGPPGTGKTMVAREIARKSGL--DYAMMTGGDVAPLGAQA--VTK-----------IHEIFDWAKKSKKGLLLFIDEAD  456 (466)
Q Consensus       392 l~GppGTGKT~lA~alA~~l~~--~~~~v~~~~l~~~~~e~--~~~-----------l~~lf~~A~~~~~~~iLflDEid  456 (466)
                      |+|++||||+++|+.++..++.  .|+.++|+.++....++  .+.           ..+.|+.+.    +++||||||+
T Consensus       157 i~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~lfg~~~g~~tga~~~~~g~~~~a~----~gtlfldei~  232 (368)
T 3dzd_A          157 ITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESELFGHEKGAFTGALTRKKGKLELAD----QGTLFLDEVG  232 (368)
T ss_dssp             EECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHHHHEECSCSSSSCCCCEECHHHHTT----TSEEEEETGG
T ss_pred             EEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHHhcCccccccCCcccccCChHhhcC----CCeEEecChh
Confidence            9999999999999999998853  39999999886532221  111           123455443    6899999999


Q ss_pred             ccccccC
Q 012305          457 AFLCDNQ  463 (466)
Q Consensus       457 ~l~~~r~  463 (466)
                      .|....+
T Consensus       233 ~l~~~~Q  239 (368)
T 3dzd_A          233 ELDQRVQ  239 (368)
T ss_dssp             GSCHHHH
T ss_pred             hCCHHHH
Confidence            9976543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.13  E-value=3.9e-11  Score=133.31  Aligned_cols=101  Identities=18%  Similarity=0.245  Sum_probs=73.8

Q ss_pred             CCeeeCcchHHHHHHHHHhhccc-cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-----------
Q 012305          358 GDIILHPSLQRRIQHLAKATANT-KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-----------  425 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~-~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-----------  425 (466)
                      .+|+|++..+..|...+...... ..+..|..++||+||||||||++|++|+..++.+|+.++|+.+..           
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~~~l~g~~  537 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAP  537 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCC
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhHhhhcCCC
Confidence            56899999999988766554432 233456678999999999999999999999999999998876532           


Q ss_pred             ---chhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          426 ---LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       426 ---~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                         .|.+..+.+.+.+   +. .+++||||||||.+.++-
T Consensus       538 ~g~~g~~~~~~l~~~~---~~-~~~~vl~lDEi~~~~~~~  573 (758)
T 1r6b_X          538 PGYVGFDQGGLLTDAV---IK-HPHAVLLLDEIEKAHPDV  573 (758)
T ss_dssp             SCSHHHHHTTHHHHHH---HH-CSSEEEEEETGGGSCHHH
T ss_pred             CCCcCccccchHHHHH---Hh-CCCcEEEEeCccccCHHH
Confidence               2222223333333   33 348999999999987653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.12  E-value=1.9e-11  Score=120.55  Aligned_cols=103  Identities=16%  Similarity=0.195  Sum_probs=69.1

Q ss_pred             CCeeeCcchHHHHHHHHHhhccc-cccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH---
Q 012305          358 GDIILHPSLQRRIQHLAKATANT-KIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA---  430 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~-~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~---  430 (466)
                      .+++|++..++.+...+...... ..+..|..++||+||||||||++|++|+..+   +.+|+.++|+.+.......   
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~l~   96 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLI   96 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHHHhc
Confidence            45889999999988766654332 2333455689999999999999999999998   5568888887654311000   


Q ss_pred             --------HHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          431 --------VTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       431 --------~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                              ......+..... ..+++||||||||.+...
T Consensus        97 g~~~~~~~~~~~~~~~~~~~-~~~~~vl~lDEi~~l~~~  134 (311)
T 4fcw_A           97 GAPPGYVGYEEGGQLTEAVR-RRPYSVILFDAIEKAHPD  134 (311)
T ss_dssp             CCCTTSTTTTTCCHHHHHHH-HCSSEEEEEETGGGSCHH
T ss_pred             CCCCccccccccchHHHHHH-hCCCeEEEEeChhhcCHH
Confidence                    000011222222 344799999999998754

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=99.05  E-value=1e-10  Score=116.55  Aligned_cols=103  Identities=18%  Similarity=0.243  Sum_probs=64.2

Q ss_pred             cccccCCCCee-eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccc
Q 012305          351 VEAIKNNGDII-LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPL  426 (466)
Q Consensus       351 ~~~~~~l~~vV-g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~  426 (466)
                      .++..+|+++| |+.. ...+..+.......   +..+.++|||||||||||++++++++.+   +.+++.+++.++...
T Consensus         4 l~~~~~f~~fv~g~~~-~~a~~~~~~~~~~~---~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~   79 (324)
T 1l8q_A            4 LNPKYTLENFIVGEGN-RLAYEVVKEALENL---GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQA   79 (324)
T ss_dssp             CCTTCCSSSCCCCTTT-HHHHHHHHHHHHTT---TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHH
T ss_pred             CCCCCCcccCCCCCcH-HHHHHHHHHHHhCc---CCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHH
Confidence            45667899998 5433 22333333322222   1234579999999999999999999998   888888888765321


Q ss_pred             hhHHH--HHHHHHHhhhhhccCceEEEecccccccc
Q 012305          427 GAQAV--TKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       427 ~~e~~--~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      .....  .....+....   ..+++||||||+.+..
T Consensus        80 ~~~~~~~~~~~~~~~~~---~~~~vL~iDEi~~l~~  112 (324)
T 1l8q_A           80 MVEHLKKGTINEFRNMY---KSVDLLLLDDVQFLSG  112 (324)
T ss_dssp             HHHHHHHTCHHHHHHHH---HTCSEEEEECGGGGTT
T ss_pred             HHHHHHcCcHHHHHHHh---cCCCEEEEcCcccccC
Confidence            11111  1111222221   2268999999999875

>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=99.05  E-value=1.5e-10  Score=130.45  Aligned_cols=100  Identities=19%  Similarity=0.291  Sum_probs=69.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l  423 (466)
                      +..|+++||.+.....+..++..        ....|+||+||||||||++++.|+..+          +.+++.++++.+
T Consensus       166 ~~~ld~viGr~~~i~~l~~~l~~--------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l  237 (854)
T 1qvr_A          166 EGKLDPVIGRDEEIRRVIQILLR--------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL  237 (854)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHHC--------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---
T ss_pred             cCCCcccCCcHHHHHHHHHHHhc--------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHh
Confidence            45789999999887777665422        123479999999999999999999987          778888888776


Q ss_pred             c---cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .   .+.++....+..+|..+.....+.||||||+|.|.+.
T Consensus       238 ~~g~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~  278 (854)
T 1qvr_A          238 LAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGA  278 (854)
T ss_dssp             --------CHHHHHHHHHHHHHTTCSSEEEEECCC------
T ss_pred             hccCccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhcc
Confidence            3   2444556678889988876555789999999999743

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.04  E-value=1.5e-10  Score=116.64  Aligned_cols=104  Identities=18%  Similarity=0.172  Sum_probs=72.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---------CCcchhhcCCCcc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---------GLDYAMMTGGDVA  424 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---------~~~~~~v~~~~l~  424 (466)
                      .+.+++++|.+.....+...+.....    .....+++|+||||||||++++.+++.+         +.+|+.++|....
T Consensus        15 ~~~p~~~~gr~~~~~~l~~~l~~~~~----~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~   90 (387)
T 2v1u_A           15 DYVPDVLPHREAELRRLAEVLAPALR----GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRE   90 (387)
T ss_dssp             TCCCSCCTTCHHHHHHHHHTTGGGTS----SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSC
T ss_pred             ccCCCCCCCHHHHHHHHHHHHHHHHc----CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCC
Confidence            34457899999888888765443211    1233579999999999999999999988         7788889987643


Q ss_pred             cc------------------hhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 PL------------------GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 ~~------------------~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      ..                  +......+..++......+.+.||||||+|.+...
T Consensus        91 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~  145 (387)
T 2v1u_A           91 TPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKR  145 (387)
T ss_dssp             SHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHS
T ss_pred             CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhccc
Confidence            21                  10012224455555554455789999999998754

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.00  E-value=3.3e-10  Score=106.50  Aligned_cols=96  Identities=15%  Similarity=0.171  Sum_probs=61.9

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG  427 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~  427 (466)
                      ..+..+|+++++.+.....+..+.......     +..++||+||||||||++++.++..+   +.+++.+++.++....
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~~~   95 (242)
T 3bos_A           21 LPDDETFTSYYPAAGNDELIGALKSAASGD-----GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHASIS   95 (242)
T ss_dssp             CCTTCSTTTSCC--CCHHHHHHHHHHHHTC-----SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGGGSC
T ss_pred             CCCCCChhhccCCCCCHHHHHHHHHHHhCC-----CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHH
Confidence            344568899998543344444443333221     23579999999999999999999887   3667777776654322


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .       ..+..   ...+++|||||++.+..+
T Consensus        96 ~-------~~~~~---~~~~~vliiDe~~~~~~~  119 (242)
T 3bos_A           96 T-------ALLEG---LEQFDLICIDDVDAVAGH  119 (242)
T ss_dssp             G-------GGGTT---GGGSSEEEEETGGGGTTC
T ss_pred             H-------HHHHh---ccCCCEEEEeccccccCC
Confidence            1       12222   233689999999998654

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=99.00  E-value=2.1e-10  Score=123.02  Aligned_cols=101  Identities=24%  Similarity=0.257  Sum_probs=67.6

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc----------ch
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP----------LG  427 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~----------~~  427 (466)
                      .+++|...+...+...+........  .+..++||+||||||||+++++|+..++.++..++|+.+..          +.
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~--~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~~~~~i  158 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKS--LKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYV  158 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSS--CCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC---------------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhccc--CCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhHHHHHh
Confidence            4588999999888664432211111  14457999999999999999999999999999998877532          11


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      +.....+...|..+...  ++||||||||.+..++
T Consensus       159 g~~~~~~~~~~~~a~~~--~~vl~lDEid~l~~~~  191 (543)
T 3m6a_A          159 GAMPGRIIQGMKKAGKL--NPVFLLDEIDKMSSDF  191 (543)
T ss_dssp             -----CHHHHHHTTCSS--SEEEEEEESSSCC---
T ss_pred             ccCchHHHHHHHHhhcc--CCEEEEhhhhhhhhhh
Confidence            22234455667766533  4599999999998774

>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=98.97  E-value=4.9e-10  Score=103.33  Aligned_cols=99  Identities=27%  Similarity=0.402  Sum_probs=63.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~~~~  428 (466)
                      +..|++++|++.....+...+...        ...++||+||||||||++++.++..+     +..++.++++...... 
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~~--------~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-   83 (226)
T 2chg_A           13 PRTLDEVVGQDEVIQRLKGYVERK--------NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGID-   83 (226)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTT--------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHH-
T ss_pred             CCCHHHHcCcHHHHHHHHHHHhCC--------CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChH-
Confidence            346788999999888887765321        12359999999999999999999876     3345666665432211 


Q ss_pred             HHHHHHHHHHhhhh-hccCceEEEeccccccccc
Q 012305          429 QAVTKIHEIFDWAK-KSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       429 e~~~~l~~lf~~A~-~~~~~~iLflDEid~l~~~  461 (466)
                      .....+..+..... ....+.+|||||+|.+...
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~  117 (226)
T 2chg_A           84 VVRHKIKEFARTAPIGGAPFKIIFLDEADALTAD  117 (226)
T ss_dssp             HHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCHH
T ss_pred             HHHHHHHHHhcccCCCccCceEEEEeChhhcCHH
Confidence            11111222222110 0134789999999998653

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.97  E-value=1.9e-10  Score=115.11  Aligned_cols=74  Identities=14%  Similarity=0.235  Sum_probs=54.5

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcccc-----------------hhHHHHHHHHHH
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVAPL-----------------GAQAVTKIHEIF  438 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~~~-----------------~~e~~~~l~~lf  438 (466)
                      ++.++|||||||||||++++.+++.+          +..|+.+||..+...                 .+.+...+..+|
T Consensus        44 ~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f  123 (318)
T 3te6_A           44 QNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGDISLEALNFYI  123 (318)
T ss_dssp             CCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--CCCCHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHHH
Confidence            44689999999999999999999998          346788998765321                 112344567777


Q ss_pred             hhh-hhccCceEEEeccccccc
Q 012305          439 DWA-KKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       439 ~~A-~~~~~~~iLflDEid~l~  459 (466)
                      ... .......||||||||.|.
T Consensus       124 ~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          124 TNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             HHSCGGGSCEEEEEEECCSSSC
T ss_pred             HHhhhccCCceEEEEecHHHhh
Confidence            764 223447899999999987

>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=98.96  E-value=2.4e-10  Score=114.36  Aligned_cols=99  Identities=23%  Similarity=0.312  Sum_probs=63.8

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC------CcchhhcCCCcccch
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG------LDYAMMTGGDVAPLG  427 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~------~~~~~v~~~~l~~~~  427 (466)
                      +..|++++|++..+..+...+..      +  .+.++|||||||||||++++++++.++      ..++.+++++...  
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~~------~--~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~--  102 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLKS------A--NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERG--  102 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTC------T--TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCC--
T ss_pred             CCCHHHhhCCHHHHHHHHHHHhc------C--CCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccc--
Confidence            45689999999999888765321      1  123599999999999999999999864      2456667665422  


Q ss_pred             hHHHHHHHHHHhhh------------hhccCceEEEecccccccccc
Q 012305          428 AQAVTKIHEIFDWA------------KKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       428 ~e~~~~l~~lf~~A------------~~~~~~~iLflDEid~l~~~r  462 (466)
                      ..........|...            ...+.+.||||||+|.+..+.
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~  149 (353)
T 1sxj_D          103 ISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADA  149 (353)
T ss_dssp             HHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHH
T ss_pred             hHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHH
Confidence            11111111111110            112346799999999987643

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.94  E-value=5.9e-10  Score=117.28  Aligned_cols=89  Identities=19%  Similarity=0.324  Sum_probs=63.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l  423 (466)
                      +..|++|||++..+..+..++..        ....|+||+||||||||++|++||..+          +.+|+.++++  
T Consensus       176 ~~~ld~iiGr~~~i~~l~~~l~r--------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~--  245 (468)
T 3pxg_A          176 EDSLDPVIGRSKEIQRVIEVLSR--------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG--  245 (468)
T ss_dssp             SSCSCCCCCCHHHHHHHHHHHHC--------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----
T ss_pred             cCCCCCccCcHHHHHHHHHHHhc--------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC--
Confidence            34688999999998888776533        122479999999999999999999997          6677788776  


Q ss_pred             ccchhHHHHHHHHHHhhhhhccCceEEEec
Q 012305          424 APLGAQAVTKIHEIFDWAKKSKKGLLLFID  453 (466)
Q Consensus       424 ~~~~~e~~~~l~~lf~~A~~~~~~~iLflD  453 (466)
                      ..+.++....+..+|+.+...+ ++|||||
T Consensus       246 ~~~~g~~e~~~~~~~~~~~~~~-~~iLfiD  274 (468)
T 3pxg_A          246 TKYRGEFEDRLKKVMDEIRQAG-NIILFID  274 (468)
T ss_dssp             -------CTTHHHHHHHHHTCC-CCEEEEC
T ss_pred             ccccchHHHHHHHHHHHHHhcC-CeEEEEe
Confidence            3334444567788888887654 7899999

>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=98.93  E-value=2.1e-10  Score=112.87  Aligned_cols=99  Identities=28%  Similarity=0.412  Sum_probs=64.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~~~~  428 (466)
                      +..|++++|++..+..+...+..      +..  .++|||||||||||++++.+++.+     +.+|+.+++++...  .
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~------~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~   82 (319)
T 2chq_A           13 PRTLDEVVGQDEVIQRLKGYVER------KNI--PHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERG--I   82 (319)
T ss_dssp             CSSGGGSCSCHHHHHHHHTTTTT------TCC--CCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTC--T
T ss_pred             CCCHHHHhCCHHHHHHHHHHHhC------CCC--CeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccC--h
Confidence            34678999999988877654321      122  259999999999999999999986     33466777765422  1


Q ss_pred             HHH-HHHHHHHhhhhh-ccCceEEEecccccccccc
Q 012305          429 QAV-TKIHEIFDWAKK-SKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       429 e~~-~~l~~lf~~A~~-~~~~~iLflDEid~l~~~r  462 (466)
                      +.. ..+..+...... ..++.||||||+|.+....
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~  118 (319)
T 2chq_A           83 DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADA  118 (319)
T ss_dssp             TTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHH
T ss_pred             HHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHH
Confidence            111 112222211111 1347899999999987543

>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=98.93  E-value=1.6e-09  Score=109.57  Aligned_cols=104  Identities=14%  Similarity=0.165  Sum_probs=68.5

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcccc--
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAPL--  426 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~~--  426 (466)
                      +.+.+++++|.+.....+...+........+  .+++++|+||||||||++++.+++.+    +..++.++|......  
T Consensus        12 ~~~~p~~l~gr~~~~~~l~~~l~~~~~~~~~--~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~   89 (389)
T 1fnn_A           12 PSYVPKRLPHREQQLQQLDILLGNWLRNPGH--HYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTA   89 (389)
T ss_dssp             TTCCCSCCTTCHHHHHHHHHHHHHHHHSTTS--SCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHH
T ss_pred             CccCCCCCCChHHHHHHHHHHHHHHHcCCCC--CCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHH
Confidence            3444578999999888888766554322111  11379999999999999999999998    567888887664320  


Q ss_pred             ----------------hhHHHHHHHHHHhhhhhccCceEEEecccccc
Q 012305          427 ----------------GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       427 ----------------~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                                      +......+..+.......+.+.||||||++.+
T Consensus        90 ~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l  137 (389)
T 1fnn_A           90 IIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNL  137 (389)
T ss_dssp             HHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGS
T ss_pred             HHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECcccc
Confidence                            00111122233333333344789999999997

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.92  E-value=3.2e-10  Score=104.94  Aligned_cols=102  Identities=18%  Similarity=0.189  Sum_probs=59.2

Q ss_pred             ccCCCCeeeCcch-HHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhH
Q 012305          354 IKNNGDIILHPSL-QRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQ  429 (466)
Q Consensus       354 ~~~l~~vVg~~~~-~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e  429 (466)
                      ..+|+++++.+.. ...+..+...+...... .++.+++|+||||||||+++++|+..+   +.+++.++++++......
T Consensus        21 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~~~~~   99 (202)
T 2w58_A           21 RASLSDVDLNDDGRIKAIRFAERFVAEYEPG-KKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKH   99 (202)
T ss_dssp             CCCTTSSCCSSHHHHHHHHHHHHHHHHCCSS-CCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHHHH
T ss_pred             cCCHhhccCCChhHHHHHHHHHHHHHHhhhc-cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHHHHHHHH
Confidence            4578999886633 33344343343332211 122679999999999999999999988   566666666543211000


Q ss_pred             H--HHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          430 A--VTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       430 ~--~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      .  ...+..++.....   ..+|||||++...
T Consensus       100 ~~~~~~~~~~~~~~~~---~~~lilDei~~~~  128 (202)
T 2w58_A          100 SLQDQTMNEKLDYIKK---VPVLMLDDLGAEA  128 (202)
T ss_dssp             C---CCCHHHHHHHHH---SSEEEEEEECCC-
T ss_pred             HhccchHHHHHHHhcC---CCEEEEcCCCCCc
Confidence            0  0011222333322   4699999997754

>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=98.92  E-value=3.2e-10  Score=114.77  Aligned_cols=99  Identities=20%  Similarity=0.271  Sum_probs=68.7

Q ss_pred             CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----------CCcchhhcCCCcc-
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----------GLDYAMMTGGDVA-  424 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----------~~~~~~v~~~~l~-  424 (466)
                      +++++|.+...+.+...+......    ..+++++|+||||||||++++.+++.+           +.+++.++|.... 
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~~----~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~   94 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVKN----EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGG   94 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHTT----CCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCS
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCC
Confidence            478999999998888766554332    233589999999999999999999987           7888888876433 


Q ss_pred             c-------------------chhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 P-------------------LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 ~-------------------~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .                   .+......+..++..+...+  .||||||+|.+...
T Consensus        95 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~--~vlilDEi~~l~~~  148 (384)
T 2qby_B           95 TPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIR--AIIYLDEVDTLVKR  148 (384)
T ss_dssp             CHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSC--EEEEEETTHHHHHS
T ss_pred             CHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCC--CEEEEECHHHhccC
Confidence            1                   00001122444555444322  39999999998754

>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=98.92  E-value=4.3e-10  Score=113.06  Aligned_cols=96  Identities=24%  Similarity=0.365  Sum_probs=66.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +..|++++|+..+...+...+...   ...+.++.+++||||||||||+++++|++.++.++...+|..+.. +    ..
T Consensus        21 ~~~l~~~~g~~~~~~~l~~~i~~~---~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~-~----~~   92 (334)
T 1in4_A           21 PKSLDEFIGQENVKKKLSLALEAA---KMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVK-Q----GD   92 (334)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHH---HHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCS-H----HH
T ss_pred             CccHHHccCcHHHHHHHHHHHHHH---HhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcC-H----HH
Confidence            346788999988777776554332   122345568999999999999999999999988876666654321 1    22


Q ss_pred             HHHHHhhhhhccCceEEEecccccccc
Q 012305          434 IHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       434 l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      +..++..   ...++|+||||++.+.+
T Consensus        93 l~~~~~~---~~~~~v~~iDE~~~l~~  116 (334)
T 1in4_A           93 MAAILTS---LERGDVLFIDEIHRLNK  116 (334)
T ss_dssp             HHHHHHH---CCTTCEEEEETGGGCCH
T ss_pred             HHHHHHH---ccCCCEEEEcchhhcCH
Confidence            3333332   22368999999999865

>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=98.91  E-value=1.2e-09  Score=121.24  Aligned_cols=100  Identities=17%  Similarity=0.220  Sum_probs=71.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l  423 (466)
                      ...|+++||.+.....+..++..        ....++||+||||||||++++.|+..+          +..++.++++.+
T Consensus       182 ~~~~d~~iGr~~~i~~l~~~l~~--------~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l  253 (758)
T 1r6b_X          182 VGGIDPLIGREKELERAIQVLCR--------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL  253 (758)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS--------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--
T ss_pred             cCCCCCccCCHHHHHHHHHHHhc--------cCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH
Confidence            34688999999888887665432        123479999999999999999999887          334444554443


Q ss_pred             c---cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          424 A---PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       424 ~---~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      .   .+.++....+..+|+.+...+ ++||||||++.|.+.+
T Consensus       254 ~~~~~~~g~~e~~l~~~~~~~~~~~-~~iL~IDEi~~l~~~~  294 (758)
T 1r6b_X          254 LAGTKYRGDFEKRFKALLKQLEQDT-NSILFIDEIHTIIGAG  294 (758)
T ss_dssp             -CCCCCSSCHHHHHHHHHHHHSSSS-CEEEEETTTTTTTTSC
T ss_pred             hccccccchHHHHHHHHHHHHHhcC-CeEEEEechHHHhhcC
Confidence            2   133455667888888887654 7999999999986543

>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=98.90  E-value=5.8e-10  Score=110.08  Aligned_cols=98  Identities=28%  Similarity=0.417  Sum_probs=62.8

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC-----cchhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL-----DYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~-----~~~~v~~~~l~~~~~  428 (466)
                      +..|++++|++..+..+..++..      +.  +.++|||||||||||++++.+++.+..     +++.+++++...  .
T Consensus        21 p~~~~~~~g~~~~~~~l~~~l~~------~~--~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~   90 (327)
T 1iqp_A           21 PQRLDDIVGQEHIVKRLKHYVKT------GS--MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERG--I   90 (327)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHH------TC--CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHH--H
T ss_pred             CCCHHHhhCCHHHHHHHHHHHHc------CC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCc--h
Confidence            45689999999999888766543      11  125999999999999999999998732     355566654311  1


Q ss_pred             HHH-HHHHHHHhhhhh-ccCceEEEeccccccccc
Q 012305          429 QAV-TKIHEIFDWAKK-SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       429 e~~-~~l~~lf~~A~~-~~~~~iLflDEid~l~~~  461 (466)
                      +.. ..+..+...... ...+.+|||||+|.+..+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~  125 (327)
T 1iqp_A           91 NVIREKVKEFARTKPIGGASFKIIFLDEADALTQD  125 (327)
T ss_dssp             HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHH
T ss_pred             HHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCHH
Confidence            111 111221111101 134789999999998654

>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=98.88  E-value=5.5e-10  Score=112.39  Aligned_cols=106  Identities=17%  Similarity=0.239  Sum_probs=70.9

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh------CCcchhhcCCCccc
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS------GLDYAMMTGGDVAP  425 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l------~~~~~~v~~~~l~~  425 (466)
                      .+...+++++|.+...+.+...+.....    .....+++|+||||||||++++.+++.+      +.+++.++|.....
T Consensus        14 ~~~~~p~~~~gr~~e~~~l~~~l~~~~~----~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~   89 (386)
T 2qby_A           14 LPDYIPDELPHREDQIRKIASILAPLYR----EEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDT   89 (386)
T ss_dssp             SSSCCCSCCTTCHHHHHHHHHSSGGGGG----TCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCS
T ss_pred             CCccCCCCCCChHHHHHHHHHHHHHHHc----CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCC
Confidence            3444567899999888887765433211    1233579999999999999999999988      77777777643211


Q ss_pred             ------------------chhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          426 ------------------LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       426 ------------------~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                                        .+......+..++......+.+.||||||++.+...
T Consensus        90 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~  143 (386)
T 2qby_A           90 PYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKK  143 (386)
T ss_dssp             HHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHS
T ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhcc
Confidence                              011112224455555554444789999999998754

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=98.87  E-value=1.2e-10  Score=116.26  Aligned_cols=96  Identities=17%  Similarity=0.204  Sum_probs=61.0

Q ss_pred             CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC-ccc---chhHHHH
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VAP---LGAQAVT  432 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~-l~~---~~~e~~~  432 (466)
                      +++++|++.++..+...+..          ..++|||||||||||++|+++++.++.+|+.++|.. ..+   .+.....
T Consensus        26 ~~~i~g~~~~~~~l~~~l~~----------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~g~~~~~   95 (331)
T 2r44_A           26 GKVVVGQKYMINRLLIGICT----------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLIGTMIYN   95 (331)
T ss_dssp             TTTCCSCHHHHHHHHHHHHH----------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHHEEEEEE
T ss_pred             ccceeCcHHHHHHHHHHHHc----------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcCCceeec
Confidence            57799999988777654322          136999999999999999999999999998888742 111   0000000


Q ss_pred             HHHHHHhhhhhccCceEEEecccccccccc
Q 012305          433 KIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       433 ~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ...+.|.+....-.++|||||||+.+.++.
T Consensus        96 ~~~~~~~~~~g~l~~~vl~iDEi~~~~~~~  125 (331)
T 2r44_A           96 QHKGNFEVKKGPVFSNFILADEVNRSPAKV  125 (331)
T ss_dssp             TTTTEEEEEECTTCSSEEEEETGGGSCHHH
T ss_pred             CCCCceEeccCcccccEEEEEccccCCHHH
Confidence            000111111000012799999999987543

>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=98.86  E-value=2.3e-09  Score=99.78  Aligned_cols=99  Identities=18%  Similarity=0.248  Sum_probs=62.9

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhh--cCC-----------
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM--TGG-----------  421 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v--~~~-----------  421 (466)
                      ..|++++|++.....+...+..       +..+..+||+||||||||++++.+++.++..+..+  .|.           
T Consensus        20 ~~~~~~~g~~~~~~~l~~~l~~-------~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (250)
T 1njg_A           20 QTFADVVGQEHVLTALANGLSL-------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQG   92 (250)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHH-------TCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTT
T ss_pred             ccHHHHhCcHHHHHHHHHHHHc-------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhcc
Confidence            4567899999988888776543       12224699999999999999999998885432111  110           


Q ss_pred             ---Cccc---chhHHHHHHHHHHhhhhh---ccCceEEEecccccccc
Q 012305          422 ---DVAP---LGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       422 ---~l~~---~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~  460 (466)
                         ++..   ........+..++..+..   ...+.+|||||+|.+..
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~  140 (250)
T 1njg_A           93 RFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR  140 (250)
T ss_dssp             CCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCH
T ss_pred             CCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccH
Confidence               1111   011223345566655432   23468999999998754

>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=98.86  E-value=6.1e-10  Score=116.03  Aligned_cols=98  Identities=22%  Similarity=0.318  Sum_probs=72.0

Q ss_pred             CCeeeCcchHHHHHHHHHh-hcccc-----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---chh
Q 012305          358 GDIILHPSLQRRIQHLAKA-TANTK-----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP---LGA  428 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~-~~~~~-----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~---~~~  428 (466)
                      .+|||++.+++.|...+.. +....     ....+++|+||+||||||||++|++||..++.+|+.++++.+..   .|.
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~   94 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeec
Confidence            4589999999999765532 11111     11235689999999999999999999999999999999877643   333


Q ss_pred             HHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          429 QAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       429 e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      +....++.+|..+..     ++++||++.+..
T Consensus        95 d~e~~lr~lf~~a~~-----~~~~De~d~~~~  121 (444)
T 1g41_A           95 EVDSIIRDLTDSAMK-----LVRQQEIAKNRA  121 (444)
T ss_dssp             CTHHHHHHHHHHHHH-----HHHHHHHHSCC-
T ss_pred             cHHHHHHHHHHHHHh-----cchhhhhhhhhc
Confidence            467788899988753     456888877643

>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=98.86  E-value=1.3e-09  Score=107.30  Aligned_cols=96  Identities=21%  Similarity=0.272  Sum_probs=64.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~~~~  428 (466)
                      +..|++++|++.....+...+..      +..  .++|||||||||||++++.+++.+     +.+++.+++++...   
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~------~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~---   85 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKD------GNM--PHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRG---   85 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHS------CCC--CCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCS---
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHc------CCC--CeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccC---
Confidence            34678899999998888776432      112  249999999999999999999986     23456666655321   


Q ss_pred             HHHHHHHHHHhhhh----h--ccCceEEEecccccccccc
Q 012305          429 QAVTKIHEIFDWAK----K--SKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       429 e~~~~l~~lf~~A~----~--~~~~~iLflDEid~l~~~r  462 (466)
                        ...++.++....    .  .+++.||||||+|.+....
T Consensus        86 --~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~  123 (323)
T 1sxj_B           86 --IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGA  123 (323)
T ss_dssp             --HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHH
T ss_pred             --hHHHHHHHHHHHhccccCCCCCceEEEEECcccCCHHH
Confidence              223333333222    1  2236899999999986543

>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=98.85  E-value=8.2e-10  Score=100.47  Aligned_cols=100  Identities=17%  Similarity=0.145  Sum_probs=57.6

Q ss_pred             ccCCCCeeeC-cchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcccchh
Q 012305          354 IKNNGDIILH-PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~-~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~~~~  428 (466)
                      ..+|+++++. +.....+..+...+.+....  +..+++|+||||||||++++++++.+    |..++.+++.++.....
T Consensus         6 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~--~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~~~~~   83 (180)
T 3ec2_A            6 NANLDTYHPKNVSQNRALLTIRVFVHNFNPE--EGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLK   83 (180)
T ss_dssp             TCCSSSCCCCSHHHHHHHHHHHHHHHSCCGG--GCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHHHHHH
T ss_pred             hCccccccCCCHHHHHHHHHHHHHHHhcccc--CCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHH
Confidence            3478888874 34444444444444433222  23579999999999999999999877    55555555443321110


Q ss_pred             HHHH--HHHHHHhhhhhccCceEEEecccccc
Q 012305          429 QAVT--KIHEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       429 e~~~--~l~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                      ....  ....++...   ..+.+|||||++..
T Consensus        84 ~~~~~~~~~~~~~~~---~~~~llilDE~~~~  112 (180)
T 3ec2_A           84 HLMDEGKDTKFLKTV---LNSPVLVLDDLGSE  112 (180)
T ss_dssp             HHHHHTCCSHHHHHH---HTCSEEEEETCSSS
T ss_pred             HHhcCchHHHHHHHh---cCCCEEEEeCCCCC
Confidence            0000  000122222   23689999999853

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.85  E-value=1.3e-09  Score=109.80  Aligned_cols=101  Identities=19%  Similarity=0.247  Sum_probs=64.1

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcch--hhcCC----------
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA--MMTGG----------  421 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~--~v~~~----------  421 (466)
                      +..|+++||++.....+...+..       +..+..+||+||||||||++++.+++.++....  ...|+          
T Consensus        12 p~~~~~~vg~~~~~~~L~~~l~~-------~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~   84 (373)
T 1jr3_A           12 PQTFADVVGQEHVLTALANGLSL-------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQ   84 (373)
T ss_dssp             CCSTTTSCSCHHHHHHHHHHHHH-------TCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHT
T ss_pred             CCchhhccCcHHHHHHHHHHHHh-------CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhc
Confidence            34688999999999888776532       122235899999999999999999998854211  11111          


Q ss_pred             ----Ccccchh---HHHHHHHHHHhhhhh---ccCceEEEeccccccccc
Q 012305          422 ----DVAPLGA---QAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       422 ----~l~~~~~---e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~  461 (466)
                          ++.....   .....++.+++.+..   .+.+.||||||+|.+...
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~  134 (373)
T 1jr3_A           85 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRH  134 (373)
T ss_dssp             SCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHH
T ss_pred             cCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHH
Confidence                1111000   112345556655542   234689999999998643

>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=98.84  E-value=1.3e-09  Score=113.69  Aligned_cols=104  Identities=15%  Similarity=0.173  Sum_probs=63.4

Q ss_pred             ccccccCCCCee-eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCc
Q 012305          350 PVEAIKNNGDII-LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDV  423 (466)
Q Consensus       350 ~~~~~~~l~~vV-g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l  423 (466)
                      ..++.++|+++| |++... .+..+.....+.   +. +.+++||||||||||+++++|++.+     +.+++.+++.++
T Consensus        97 ~l~~~~tfd~fv~g~~n~~-a~~~~~~~a~~~---~~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~  171 (440)
T 2z4s_A           97 PLNPDYTFENFVVGPGNSF-AYHAALEVAKHP---GR-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF  171 (440)
T ss_dssp             CCCTTCSGGGCCCCTTTHH-HHHHHHHHHHST---TS-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHH
T ss_pred             CCCCCCChhhcCCCCchHH-HHHHHHHHHhCC---CC-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHH
Confidence            456677899988 544433 333333222221   11 4579999999999999999999988     777777777654


Q ss_pred             ccchhHHH-HHHHHHHhhhhhcc-CceEEEecccccccc
Q 012305          424 APLGAQAV-TKIHEIFDWAKKSK-KGLLLFIDEADAFLC  460 (466)
Q Consensus       424 ~~~~~e~~-~~l~~lf~~A~~~~-~~~iLflDEid~l~~  460 (466)
                      ........ ......|..  ... .++|||||||+.+.+
T Consensus       172 ~~~~~~~~~~~~~~~~~~--~~~~~~~vL~IDEi~~l~~  208 (440)
T 2z4s_A          172 LNDLVDSMKEGKLNEFRE--KYRKKVDILLIDDVQFLIG  208 (440)
T ss_dssp             HHHHHHHHHTTCHHHHHH--HHTTTCSEEEEECGGGGSS
T ss_pred             HHHHHHHHHcccHHHHHH--HhcCCCCEEEEeCcccccC
Confidence            22110000 000011111  122 478999999999876

>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=98.84  E-value=6.6e-10  Score=111.09  Aligned_cols=53  Identities=19%  Similarity=0.249  Sum_probs=39.3

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .+..+|++++|++.++..+...  .+..      ...++|||||||||||++|++++..++
T Consensus        18 ~~~~~f~~i~G~~~~~~~l~~~--~~~~------~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           18 RPVFPFSAIVGQEDMKLALLLT--AVDP------GIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHH--HHCG------GGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCCCCchhccChHHHHHHHHHH--hhCC------CCceEEEECCCCccHHHHHHHHHHhCc
Confidence            3456789999999876654322  1111      123699999999999999999999886

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.77  E-value=4.7e-09  Score=116.63  Aligned_cols=89  Identities=18%  Similarity=0.287  Sum_probs=63.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDV  423 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l  423 (466)
                      ...|+++||++..+..+..++..        ....|+|||||||||||++|++||..+          +.+++.+++  .
T Consensus       176 ~~~ld~iiG~~~~i~~l~~~l~~--------~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~--g  245 (758)
T 3pxi_A          176 EDSLDPVIGRSKEIQRVIEVLSR--------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM--G  245 (758)
T ss_dssp             SSCSCCCCCCHHHHHHHHHHHHC--------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----
T ss_pred             hCCCCCccCchHHHHHHHHHHhC--------CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc--c
Confidence            34688999999999888776432        122479999999999999999999997          566666666  1


Q ss_pred             ccchhHHHHHHHHHHhhhhhccCceEEEec
Q 012305          424 APLGAQAVTKIHEIFDWAKKSKKGLLLFID  453 (466)
Q Consensus       424 ~~~~~e~~~~l~~lf~~A~~~~~~~iLflD  453 (466)
                      ..+.++....+..+|..+.... ++|||||
T Consensus       246 ~~~~G~~e~~l~~~~~~~~~~~-~~iLfiD  274 (758)
T 3pxi_A          246 TKYRGEFEDRLKKVMDEIRQAG-NIILFID  274 (758)
T ss_dssp             -------CTTHHHHHHHHHTCC-CCEEEEC
T ss_pred             ccccchHHHHHHHHHHHHHhcC-CEEEEEc
Confidence            2234455567888999888644 7899999

>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=98.72  E-value=3.5e-09  Score=106.31  Aligned_cols=98  Identities=27%  Similarity=0.360  Sum_probs=60.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC-----cchhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL-----DYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~-----~~~~v~~~~l~~~~~  428 (466)
                      +..|++++|++.+...|...+..      +..|  |+|||||||||||++++++++.+..     .+..+++++.  .+.
T Consensus        21 p~~~~~~~g~~~~~~~L~~~i~~------g~~~--~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~--~~~   90 (340)
T 1sxj_C           21 PETLDEVYGQNEVITTVRKFVDE------GKLP--HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDD--RGI   90 (340)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHT------TCCC--CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSC--CSH
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhc------CCCc--eEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCccc--ccH
Confidence            44678899999888877765432      1222  5999999999999999999998732     2344444432  121


Q ss_pred             HHHHH-HHHHHhhhh-hccCceEEEeccccccccc
Q 012305          429 QAVTK-IHEIFDWAK-KSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       429 e~~~~-l~~lf~~A~-~~~~~~iLflDEid~l~~~  461 (466)
                      +.... +..+..... -...+.|+||||+|.|...
T Consensus        91 ~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~~  125 (340)
T 1sxj_C           91 DVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNA  125 (340)
T ss_dssp             HHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHH
T ss_pred             HHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCHH
Confidence            21111 112211100 0123689999999998643

>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=98.66  E-value=1.5e-08  Score=100.82  Aligned_cols=91  Identities=10%  Similarity=0.100  Sum_probs=57.6

Q ss_pred             eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh------CCcchhhcCCCcccchhHHHHHHH
Q 012305          362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS------GLDYAMMTGGDVAPLGAQAVTKIH  435 (466)
Q Consensus       362 g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l------~~~~~~v~~~~l~~~~~e~~~~l~  435 (466)
                      |++++++.|...+..   .+     ..++|||||||||||++|+++++.+      ..+|..++..+- ..   ....++
T Consensus         1 g~~~~~~~L~~~i~~---~~-----~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~-~~---~id~ir   68 (305)
T 2gno_A            1 GAKDQLETLKRIIEK---SE-----GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE-NI---GIDDIR   68 (305)
T ss_dssp             ---CHHHHHHHHHHT---CS-----SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS-CB---CHHHHH
T ss_pred             ChHHHHHHHHHHHHC---CC-----CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcC-CC---CHHHHH
Confidence            556667766655332   21     2379999999999999999999864      234555544320 11   234456


Q ss_pred             HHHhhhhhc---cCceEEEeccccccccccCC
Q 012305          436 EIFDWAKKS---KKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       436 ~lf~~A~~~---~~~~iLflDEid~l~~~r~~  464 (466)
                      .+++.+...   +++.|+||||+|.|....+|
T Consensus        69 ~li~~~~~~p~~~~~kvviIdead~lt~~a~n  100 (305)
T 2gno_A           69 TIKDFLNYSPELYTRKYVIVHDCERMTQQAAN  100 (305)
T ss_dssp             HHHHHHTSCCSSSSSEEEEETTGGGBCHHHHH
T ss_pred             HHHHHHhhccccCCceEEEeccHHHhCHHHHH
Confidence            666666543   23589999999999866544

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=98.63  E-value=2.6e-09  Score=113.23  Aligned_cols=95  Identities=16%  Similarity=0.197  Sum_probs=55.0

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCC--cchhhcCCCccc---chhHHHH
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL--DYAMMTGGDVAP---LGAQAVT  432 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~--~~~~v~~~~l~~---~~~e~~~  432 (466)
                      ..+||++.+++.+...+..          ..+|||+||||||||++|++|+..++.  +|..++|.-..+   +|.....
T Consensus        22 ~~ivGq~~~i~~l~~al~~----------~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~~t~~dL~G~~~~~   91 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALS----------GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQ   91 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHH----------TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTTCCHHHHHCCBC--
T ss_pred             hhhHHHHHHHHHHHHHHhc----------CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhcCCHHHhcCcccHH
Confidence            3588999988776544221          136999999999999999999998843  444444431111   0100000


Q ss_pred             --HHHHHHhhhhhcc--CceEEEecccccccccc
Q 012305          433 --KIHEIFDWAKKSK--KGLLLFIDEADAFLCDN  462 (466)
Q Consensus       433 --~l~~lf~~A~~~~--~~~iLflDEid~l~~~r  462 (466)
                        .-.+.|..+....  .++|||||||+.+.++.
T Consensus        92 ~~~~~g~~~~~~~g~l~~~~IL~IDEI~r~~~~~  125 (500)
T 3nbx_X           92 ALKDEGRYERLTSGYLPEAEIVFLDEIWKAGPAI  125 (500)
T ss_dssp             --------CBCCTTSGGGCSEEEEESGGGCCHHH
T ss_pred             HHhhchhHHhhhccCCCcceeeeHHhHhhhcHHH
Confidence              1123333222111  25799999999876543

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.62  E-value=1.1e-08  Score=102.57  Aligned_cols=51  Identities=24%  Similarity=0.412  Sum_probs=38.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +..|+++||++.....+...+.     ..+..|  ++||+||||||||+++++|++.+
T Consensus        10 P~~~~~~vg~~~~~~~l~~~~~-----~~~~~~--~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           10 PKSLNALSHNEELTNFLKSLSD-----QPRDLP--HLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTT-----CTTCCC--CEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHh-----hCCCCC--eEEEECCCCCCHHHHHHHHHHHH
Confidence            4568899999988877765420     111222  49999999999999999999965

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.62  E-value=4.8e-09  Score=104.40  Aligned_cols=101  Identities=17%  Similarity=0.155  Sum_probs=55.0

Q ss_pred             ccCCCCeeeCc-chHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC----CcchhhcCCCcccchh
Q 012305          354 IKNNGDIILHP-SLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG----LDYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~-~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~----~~~~~v~~~~l~~~~~  428 (466)
                      ..+|+++++.. .....+..+..++.....  .+..+++||||||||||+++.+|+..+.    .+++.++++++.....
T Consensus       120 ~~tfd~f~~~~~~~~~~~~~~~~~i~~~~~--~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~l~~~l~  197 (308)
T 2qgz_A          120 HIHLSDIDVNNASRMEAFSAILDFVEQYPS--AEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVK  197 (308)
T ss_dssp             SCCGGGSCCCSHHHHHHHHHHHHHHHHCSC--SSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHHHHHHHH
T ss_pred             hCCHhhCcCCChHHHHHHHHHHHHHHhccc--cCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHHHHHHHH
Confidence            35788888755 323233333333333211  1246899999999999999999998664    5555555443211000


Q ss_pred             H--HHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          429 Q--AVTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       429 e--~~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      .  ....+..++....   ...+|||||++...
T Consensus       198 ~~~~~~~~~~~~~~~~---~~~lLiiDdig~~~  227 (308)
T 2qgz_A          198 NAISNGSVKEEIDAVK---NVPVLILDDIGAEQ  227 (308)
T ss_dssp             CCCC----CCTTHHHH---TSSEEEEETCCC--
T ss_pred             HHhccchHHHHHHHhc---CCCEEEEcCCCCCC
Confidence            0  0001111222222   25799999997643

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.56  E-value=3.5e-08  Score=87.72  Aligned_cols=59  Identities=17%  Similarity=0.242  Sum_probs=45.0

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      ..+++|+||+|||||+++++++..+   |.+++.+++.++...            ...   ..+.+|||||++.+..
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~------------~~~---~~~~lLilDE~~~~~~   97 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT------------DAA---FEAEYLAVDQVEKLGN   97 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC------------GGG---GGCSEEEEESTTCCCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH------------HHH---hCCCEEEEeCccccCh
Confidence            3569999999999999999999987   666777777765433            111   1267999999998654

>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=98.53  E-value=8.9e-08  Score=97.49  Aligned_cols=105  Identities=17%  Similarity=0.223  Sum_probs=65.0

Q ss_pred             ccCCCCeeeCcchHHHHHHHH-Hhhccccccccccccccc--cCCCCCCchHHHHHHHHhh---------CCcchhhcCC
Q 012305          354 IKNNGDIILHPSLQRRIQHLA-KATANTKIHQAPFRNMLF--YGPPGTGKTMVAREIARKS---------GLDYAMMTGG  421 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~-~~~~~~~~~~~p~~~vLl--~GppGTGKT~lA~alA~~l---------~~~~~~v~~~  421 (466)
                      ....+.++|.+.....|...+ .......  .....+++|  +||||||||++++.+++.+         +..++.++|.
T Consensus        18 ~~~p~~l~gR~~el~~l~~~l~~~~~~~~--~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (412)
T 1w5s_A           18 NYIPPELRVRRGEAEALARIYLNRLLSGA--GLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAF   95 (412)
T ss_dssp             TCCCSSCSSSCHHHHHHHHHHHHHHHTSS--CBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGG
T ss_pred             ccCCCCCCChHHHHHHHHHHHhHHHhcCC--CCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECC
Confidence            344577999998888887765 4432220  012347899  9999999999999998876         4456667763


Q ss_pred             Cccc---c---------------hhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          422 DVAP---L---------------GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       422 ~l~~---~---------------~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      ....   .               +......+..+.......+.+.||||||++.+..
T Consensus        96 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~  152 (412)
T 1w5s_A           96 NAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLS  152 (412)
T ss_dssp             GCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHS
T ss_pred             CCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhh
Confidence            3211   0               0001111233333333334478999999999864

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.46  E-value=1.2e-07  Score=95.14  Aligned_cols=75  Identities=13%  Similarity=0.183  Sum_probs=48.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh--hcC--------------CCcccch------hHHHHHHHHHHhhhhhc-
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM--MTG--------------GDVAPLG------AQAVTKIHEIFDWAKKS-  444 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~--v~~--------------~~l~~~~------~e~~~~l~~lf~~A~~~-  444 (466)
                      ..+|||||||||||++|+.+++.+......  ..|              .++..+.      .-....++.+++.+... 
T Consensus        25 ~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~~~~  104 (334)
T 1a5t_A           25 HALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHA  104 (334)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSCC
T ss_pred             eeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHhhcc
Confidence            469999999999999999999988432110  001              1221111      11234566676666532 


Q ss_pred             --cCceEEEecccccccccc
Q 012305          445 --KKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       445 --~~~~iLflDEid~l~~~r  462 (466)
                        +.+.|+||||+|.|....
T Consensus       105 ~~~~~kvviIdead~l~~~a  124 (334)
T 1a5t_A          105 RLGGAKVVWVTDAALLTDAA  124 (334)
T ss_dssp             TTSSCEEEEESCGGGBCHHH
T ss_pred             ccCCcEEEEECchhhcCHHH
Confidence              346899999999997543

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=98.46  E-value=3.8e-09  Score=114.35  Aligned_cols=70  Identities=21%  Similarity=0.240  Sum_probs=44.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh----hcCCCccc-chhHH----HHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM----MTGGDVAP-LGAQA----VTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~----v~~~~l~~-~~~e~----~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      ||||+||||||||++|++|+..++..+..    +++.++.. .....    .....+.+..+.    ++||||||||.+.
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~~A~----~gil~IDEid~l~  404 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLAD----GGIAVIDEIDKMR  404 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECSSGGGTSSCSEEECHHHHHS----SSEECCTTTTCCC
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceeeeccccccccccCCeeEecC----CCcEEeehhhhCC
Confidence            79999999999999999999998654433    23333321 10000    000112233332    6899999999987


Q ss_pred             ccc
Q 012305          460 CDN  462 (466)
Q Consensus       460 ~~r  462 (466)
                      .+.
T Consensus       405 ~~~  407 (595)
T 3f9v_A          405 DED  407 (595)
T ss_dssp             SHH
T ss_pred             HhH
Confidence            654

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.32  E-value=2.5e-07  Score=86.54  Aligned_cols=29  Identities=21%  Similarity=0.292  Sum_probs=25.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      +++|||||||||||++|.+|++.++..++
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            46999999999999999999999865443

>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=98.31  E-value=4.4e-07  Score=107.46  Aligned_cols=110  Identities=13%  Similarity=0.140  Sum_probs=66.6

Q ss_pred             ccccCCCCeeeCcchHHHHHHHHHhhc-c-------------ccc-----------------ccccccc--ccccCCCCC
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLAKATA-N-------------TKI-----------------HQAPFRN--MLFYGPPGT  398 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~~~~~-~-------------~~~-----------------~~~p~~~--vLl~GppGT  398 (466)
                      .....|++|-|.++.+..+...+.+-- .             .+.                 .+.++++  +|+||||||
T Consensus      1014 ~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g~ 1093 (1706)
T 3cmw_A         1014 ASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESS 1093 (1706)
T ss_dssp             ----------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTS
T ss_pred             cCCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCCC
Confidence            345678888888777766654333211 1             011                 1335555  999999999


Q ss_pred             CchHHHHHHHHhh---CCcchhhcCCCcc-------------cchhH----HHHHHHHHHhhhhhccCceEEEecccccc
Q 012305          399 GKTMVAREIARKS---GLDYAMMTGGDVA-------------PLGAQ----AVTKIHEIFDWAKKSKKGLLLFIDEADAF  458 (466)
Q Consensus       399 GKT~lA~alA~~l---~~~~~~v~~~~l~-------------~~~~e----~~~~l~~lf~~A~~~~~~~iLflDEid~l  458 (466)
                      |||+||++++.+.   |.+.+.|+.....             .+..+    +...+..+|..|+... +++||+|++|+|
T Consensus      1094 GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~-~~~i~~d~~~al 1172 (1706)
T 3cmw_A         1094 GKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGA-VDVIVVDSVAAL 1172 (1706)
T ss_dssp             SHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTC-CSEEEESCGGGC
T ss_pred             ChHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcC-CeEEEeCchHhc
Confidence            9999999998877   3444444433322             22233    5677888888887655 899999999999


Q ss_pred             cccc
Q 012305          459 LCDN  462 (466)
Q Consensus       459 ~~~r  462 (466)
                      .+.+
T Consensus      1173 ~~~~ 1176 (1706)
T 3cmw_A         1173 TPKA 1176 (1706)
T ss_dssp             CCHH
T ss_pred             Cccc
Confidence            8873

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=98.27  E-value=1.4e-07  Score=102.17  Aligned_cols=49  Identities=29%  Similarity=0.360  Sum_probs=39.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +..|++++|+..+.+.+...+..          ..+++|+||||||||+++++|+..++
T Consensus        37 p~~l~~i~G~~~~l~~l~~~i~~----------g~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           37 EKLIDQVIGQEHAVEVIKTAANQ----------KRHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             SSHHHHCCSCHHHHHHHHHHHHT----------TCCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             ccccceEECchhhHhhccccccC----------CCEEEEEeCCCCCHHHHHHHHhccCC
Confidence            44578899999888777655332          13699999999999999999999884

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=98.19  E-value=8.8e-07  Score=88.40  Aligned_cols=71  Identities=14%  Similarity=0.156  Sum_probs=45.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcC--CCc-ccchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG--GDV-APLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~--~~l-~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      +.+||+||||||||+||..++...|.+++.++.  .+. ..+..+....+..+++.+...  . +||||+++.+...
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~--~-LLVIDsI~aL~~~  197 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQH--R-VIVIDSLKNVIGA  197 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHC--S-EEEEECCTTTC--
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhC--C-EEEEecccccccc
Confidence            457999999999999999998876665444444  221 111122233444555555432  2 9999999998653

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.13  E-value=9.7e-07  Score=82.31  Aligned_cols=74  Identities=20%  Similarity=0.374  Sum_probs=43.6

Q ss_pred             cccccCCCCCCchHHHHHHHHh--------hC-CcchhhcCCCccc--c----------h-hHHHHHHHHHHhhhh-hcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARK--------SG-LDYAMMTGGDVAP--L----------G-AQAVTKIHEIFDWAK-KSK  445 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~--------l~-~~~~~v~~~~l~~--~----------~-~e~~~~l~~lf~~A~-~~~  445 (466)
                      .+||+|+||||||++|..+...        .| .+++..+++++..  .          . .........+++|+. ..+
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~   86 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKKPEN   86 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTSGGG
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhcccc
Confidence            4789999999999998886433        23 4444444444321  1          0 000001133445531 123


Q ss_pred             CceEEEecccccccccc
Q 012305          446 KGLLLFIDEADAFLCDN  462 (466)
Q Consensus       446 ~~~iLflDEid~l~~~r  462 (466)
                      +++||||||++.+++.+
T Consensus        87 ~~~vliIDEAq~l~~~~  103 (199)
T 2r2a_A           87 IGSIVIVDEAQDVWPAR  103 (199)
T ss_dssp             TTCEEEETTGGGTSBCC
T ss_pred             CceEEEEEChhhhccCc
Confidence            48999999999997665

>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=98.02  E-value=2.8e-06  Score=84.10  Aligned_cols=53  Identities=15%  Similarity=0.129  Sum_probs=39.5

Q ss_pred             CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCC
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGG  421 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~  421 (466)
                      ...++|.+.....|.. +   ..        +.++|+||+|+|||++++.+++..+..++.+++.
T Consensus        12 ~~~~~gR~~el~~L~~-l---~~--------~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~   64 (357)
T 2fna_A           12 RKDFFDREKEIEKLKG-L---RA--------PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLR   64 (357)
T ss_dssp             GGGSCCCHHHHHHHHH-T---CS--------SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGG
T ss_pred             HHHhcChHHHHHHHHH-h---cC--------CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEch
Confidence            3568888776666654 2   21        3699999999999999999999886666666554

>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=97.95  E-value=5.8e-06  Score=101.96  Aligned_cols=98  Identities=23%  Similarity=0.365  Sum_probs=55.4

Q ss_pred             CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHH-HHHhhCCcchhhcCCCcccchhHHHHHHH
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVARE-IARKSGLDYAMMTGGDVAPLGAQAVTKIH  435 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~a-lA~~l~~~~~~v~~~~l~~~~~e~~~~l~  435 (466)
                      +.+++.+..-..+...++..+....      ++|||+||||||||++|+. ++...+..++.++++..... ......+.
T Consensus      1243 ~~~iiVpT~DT~R~~~ll~~~l~~~------~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts~-~~~~~~i~ 1315 (2695)
T 4akg_A         1243 RPDIVIPTIDTIKHEKIFYDLLNSK------RGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTT-EHILSALH 1315 (2695)
T ss_dssp             CSSCCCCCHHHHHHHHHHHHHHHHT------CEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCCH-HHHHHHHH
T ss_pred             ccceeEeccchHHHHHHHHHHHHCC------CeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCCH-HHHHHHHH
Confidence            4445544444445555544433222      4699999999999999954 45544777788887765321 11112222


Q ss_pred             HHHhhhhh----------ccCceEEEeccccccccc
Q 012305          436 EIFDWAKK----------SKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       436 ~lf~~A~~----------~~~~~iLflDEid~l~~~  461 (466)
                      ..++....          .+..+|||||||+....+
T Consensus      1316 ~~~~~~~~~~g~~~~P~~~gk~~VlFiDEinmp~~d 1351 (2695)
T 4akg_A         1316 RHTNYVTTSKGLTLLPKSDIKNLVLFCDEINLPKLD 1351 (2695)
T ss_dssp             HHBCCEEETTTEEEEEBSSSSCEEEEEETTTCSCCC
T ss_pred             HHhhhccccCCccccCCCCCceEEEEeccccccccc
Confidence            22211110          122479999999875444

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.89  E-value=7.8e-06  Score=80.77  Aligned_cols=45  Identities=18%  Similarity=0.217  Sum_probs=36.2

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..++|.+.....|...+..       +   +.++|+||+|+|||++++.+++..+
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            5688988888887765432       1   3699999999999999999998865

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.76  E-value=2e-05  Score=94.60  Aligned_cols=74  Identities=20%  Similarity=0.300  Sum_probs=49.3

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcc-c-----ch-----------hHHHHHHHHHHhhhhhccC
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVA-P-----LG-----------AQAVTKIHEIFDWAKKSKK  446 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~-~-----~~-----------~e~~~~l~~lf~~A~~~~~  446 (466)
                      .++++||||||||||+||.+++...   |..++.++..... +     +|           ......+..++..++..+ 
T Consensus      1427 g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr~~~- 1505 (2050)
T 3cmu_A         1427 GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGA- 1505 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTC-
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHhcCC-
Confidence            4689999999999999999997765   4444555443321 1     00           011234455555665544 


Q ss_pred             ceEEEeccccccccc
Q 012305          447 GLLLFIDEADAFLCD  461 (466)
Q Consensus       447 ~~iLflDEid~l~~~  461 (466)
                      +++||||+++.+.+.
T Consensus      1506 ~~lVVIDsi~al~p~ 1520 (2050)
T 3cmu_A         1506 VDVIVVDSVAALTPK 1520 (2050)
T ss_dssp             CSEEEESCGGGCCCH
T ss_pred             CCEEEEcChhHhccc
Confidence            899999999988763

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.60  E-value=7.3e-05  Score=77.73  Aligned_cols=73  Identities=22%  Similarity=0.273  Sum_probs=50.6

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhh
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWA  441 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A  441 (466)
                      ++..++|+|+||+||||++..||..+   |..++.+.++..-+                     .+.+....+...+..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            34678999999999999999999877   67777776654311                     1112333445566666


Q ss_pred             hhccCceEEEeccccccc
Q 012305          442 KKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       442 ~~~~~~~iLflDEid~l~  459 (466)
                      ...+ +++||||.++.+.
T Consensus       179 ~~~~-~DvVIIDTaGrl~  195 (443)
T 3dm5_A          179 KSKG-VDIIIVDTAGRHK  195 (443)
T ss_dssp             HHTT-CSEEEEECCCCSS
T ss_pred             HhCC-CCEEEEECCCccc
Confidence            5433 7899999987654

>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=97.57  E-value=5e-05  Score=69.22  Aligned_cols=24  Identities=33%  Similarity=0.760  Sum_probs=22.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ++.|+||+|+|||||++.|+..++
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998875

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.55  E-value=3.5e-05  Score=73.89  Aligned_cols=40  Identities=20%  Similarity=0.292  Sum_probs=31.3

Q ss_pred             ccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCc
Q 012305          384 QAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDV  423 (466)
Q Consensus       384 ~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l  423 (466)
                      ...+..++|+||||+||||+++.|+..++..++.+++..+
T Consensus        29 ~~~~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~~   68 (253)
T 2p5t_B           29 SKQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF   68 (253)
T ss_dssp             CSSCEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGGG
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHHH
Confidence            3344679999999999999999999998765555555443

>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=97.53  E-value=4.1e-05  Score=74.36  Aligned_cols=24  Identities=38%  Similarity=0.663  Sum_probs=22.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|||||||||||+++.+|++.+
T Consensus       105 n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A          105 NTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhh
Confidence            469999999999999999999975

>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=97.51  E-value=5e-05  Score=67.25  Aligned_cols=28  Identities=18%  Similarity=0.243  Sum_probs=25.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .|+|.|||||||||+++.|+..+|++|+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i   30 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPII   30 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeee
Confidence            4889999999999999999999987654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.50  E-value=3.3e-05  Score=69.69  Aligned_cols=31  Identities=26%  Similarity=0.285  Sum_probs=27.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .+|+|+||||||||++++.|+..+|.+|+..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l~~~~i~~   36 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLTKRILYDS   36 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            4799999999999999999999998877643

>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=97.48  E-value=9e-05  Score=91.63  Aligned_cols=88  Identities=19%  Similarity=0.246  Sum_probs=62.7

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHH
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIF  438 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf  438 (466)
                      .+|..|-..+.+..+...+...       .+++++||||||||++++.||+.+|.+++.++|++-...     ..+..+|
T Consensus       624 rlViTPltdr~~~tl~~Al~~~-------~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld~-----~~lg~~~  691 (2695)
T 4akg_A          624 RLIYTPLLLIGFATLTDSLHQK-------YGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFDY-----QVLSRLL  691 (2695)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTT-------CEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCCH-----HHHHHHH
T ss_pred             cceecHHHHHHHHHHHHHHHhC-------CCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCCh-----hHhhHHH
Confidence            3555555555555554444321       248899999999999999999999999999999874332     2345556


Q ss_pred             hhhhhccCceEEEecccccccc
Q 012305          439 DWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       439 ~~A~~~~~~~iLflDEid~l~~  460 (466)
                      ..+...  |..++|||++.+..
T Consensus       692 ~g~~~~--Gaw~~~DE~nr~~~  711 (2695)
T 4akg_A          692 VGITQI--GAWGCFDEFNRLDE  711 (2695)
T ss_dssp             HHHHHH--TCEEEEETTTSSCH
T ss_pred             HHHHhc--CCEeeehhhhhcCh
Confidence            555432  68999999988654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.46  E-value=2.4e-05  Score=71.67  Aligned_cols=70  Identities=20%  Similarity=0.239  Sum_probs=39.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCC-C-------ccc-chh----HHHHHHHHHHhhhhhccCceEEEe
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG-D-------VAP-LGA----QAVTKIHEIFDWAKKSKKGLLLFI  452 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~-~-------l~~-~~~----e~~~~l~~lf~~A~~~~~~~iLfl  452 (466)
                      -++++||||+|||+++..++..+   |..++.+... +       +.. .+.    ........+++.+.  ..+.+|||
T Consensus         5 i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~~~--~~~dvviI   82 (184)
T 2orw_A            5 LTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYIE--EDTRGVFI   82 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEESSGGGGGGGCC--TTEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHHhc--CCCCEEEE
Confidence            47899999999999986665543   5554443211 0       000 000    00112233444443  24789999


Q ss_pred             cccccccc
Q 012305          453 DEADAFLC  460 (466)
Q Consensus       453 DEid~l~~  460 (466)
                      |||..+.+
T Consensus        83 DE~Q~~~~   90 (184)
T 2orw_A           83 DEVQFFNP   90 (184)
T ss_dssp             CCGGGSCT
T ss_pred             ECcccCCH
Confidence            99988743

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.45  E-value=8.2e-05  Score=72.94  Aligned_cols=57  Identities=18%  Similarity=0.255  Sum_probs=36.9

Q ss_pred             cchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcC
Q 012305          364 PSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTG  420 (466)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~  420 (466)
                      .+....+..++..+-........+..++|+||||+||||+++.|+..++..++.|++
T Consensus        10 ~~~~~~~~~~~~~~l~~~~~~~~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~   66 (287)
T 1gvn_B           10 KQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   66 (287)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             HHHHHHHHHHHHHHhccccCCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEec
Confidence            344445555444433333333334578999999999999999999988544455554

>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=97.44  E-value=4.5e-05  Score=68.30  Aligned_cols=30  Identities=17%  Similarity=0.259  Sum_probs=26.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|+|+|+||+||||+++.|+..++.+|+.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~~~~~   33 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLA   33 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCeEE
Confidence            458999999999999999999999877664

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.44  E-value=8.7e-05  Score=68.45  Aligned_cols=35  Identities=29%  Similarity=0.315  Sum_probs=27.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~  422 (466)
                      ..++|+||||+|||+|+..++...+..++.+++..
T Consensus        21 ~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~   55 (220)
T 2cvh_A           21 VLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEG   55 (220)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCC
Confidence            35889999999999999999885566666666544

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.42  E-value=0.00017  Score=67.60  Aligned_cols=35  Identities=17%  Similarity=0.132  Sum_probs=26.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHh--h-------CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK--S-------GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~--l-------~~~~~~v~~~~  422 (466)
                      ..++|+||||+|||+|+..++..  +       +..++.+++.+
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            35889999999999999999884  2       34455565544

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.39  E-value=5.8e-05  Score=69.37  Aligned_cols=31  Identities=26%  Similarity=0.460  Sum_probs=27.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      ..++|+|||||||||+++.|+..+|.+|+..
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~   56 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFARKLNVPFIDL   56 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            4699999999999999999999998877643

>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=97.32  E-value=0.0001  Score=75.26  Aligned_cols=62  Identities=19%  Similarity=0.150  Sum_probs=41.0

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                      ...++|+|||||||||+++.|+..++..++.+..++-   ..  ...+..+|+       ..++|+|+++.+..
T Consensus       169 ~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~~---~~--~~~lg~~~q-------~~~~l~dd~~~~~~  230 (377)
T 1svm_A          169 KRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLD---RL--NFELGVAID-------QFLVVFEDVKGTGG  230 (377)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTT---TH--HHHHGGGTT-------CSCEEETTCCCSTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccch---hH--HHHHHHhcc-------hhHHHHHHHHHHHH
Confidence            3579999999999999999999988766554333221   10  001122222       35679999998764

>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=97.32  E-value=7.7e-05  Score=67.10  Aligned_cols=31  Identities=48%  Similarity=0.845  Sum_probs=27.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .+|+|+|+||+|||++++.|+..+|..++.+
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~   42 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELASKSGLKYINV   42 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHhCCeEEEH
Confidence            4699999999999999999999998877654

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=97.32  E-value=8.8e-05  Score=77.38  Aligned_cols=49  Identities=22%  Similarity=0.327  Sum_probs=34.0

Q ss_pred             cCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          355 KNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+|+++  .++....+..+...+....      .++||+||||||||+++..++..+
T Consensus        21 ~~~~~L--n~~Q~~av~~~~~~i~~~~------~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           21 MTFDDL--TEGQKNAFNIVMKAIKEKK------HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             CCSSCC--CHHHHHHHHHHHHHHHSSS------CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CccccC--CHHHHHHHHHHHHHHhcCC------CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            345554  3455555655555544322      259999999999999999998877

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.32  E-value=0.00013  Score=69.10  Aligned_cols=71  Identities=20%  Similarity=0.269  Sum_probs=41.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCC-------Cccc-chhH----HHHHHHHHHhhhhh---ccCceEE
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG-------DVAP-LGAQ----AVTKIHEIFDWAKK---SKKGLLL  450 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~-------~l~~-~~~e----~~~~l~~lf~~A~~---~~~~~iL  450 (466)
                      -++++||||+|||+++..++..+   |..++.++..       .+.. +|..    .......+++.+..   ..++++|
T Consensus        14 i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~~~~dvV   93 (223)
T 2b8t_A           14 IEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVI   93 (223)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhhCCCCCEE
Confidence            47889999999999988887666   5555544211       1111 1110    01112234444432   2347899


Q ss_pred             Eeccccccc
Q 012305          451 FIDEADAFL  459 (466)
Q Consensus       451 flDEid~l~  459 (466)
                      +|||+..|.
T Consensus        94 iIDEaQ~l~  102 (223)
T 2b8t_A           94 GIDEVQFFD  102 (223)
T ss_dssp             EECSGGGSC
T ss_pred             EEecCccCc
Confidence            999998764

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.32  E-value=0.00017  Score=66.83  Aligned_cols=24  Identities=33%  Similarity=0.491  Sum_probs=20.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||||+|||+|++.++..+
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            358899999999999999998654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.31  E-value=5.7e-05  Score=69.60  Aligned_cols=23  Identities=30%  Similarity=0.648  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|+||+|+||||+.+.|+..+
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            47899999999999999999876

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.28  E-value=8.7e-05  Score=65.96  Aligned_cols=31  Identities=23%  Similarity=0.373  Sum_probs=27.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .+++|.|+|||||||+++.|+..+|.+|+..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id~   38 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLDT   38 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            4799999999999999999999999887643

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=97.27  E-value=0.00021  Score=72.35  Aligned_cols=73  Identities=23%  Similarity=0.332  Sum_probs=46.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------chh----------HHHHHHHHHHhhhhhccCce
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LGA----------QAVTKIHEIFDWAKKSKKGL  448 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~~----------e~~~~l~~lf~~A~~~~~~~  448 (466)
                      ..++|+||||||||+||..++...   |.+++.++......      ++.          .....+..+++.........
T Consensus        64 ~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~~~~~  143 (356)
T 1u94_A           64 RIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVD  143 (356)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhccCCC
Confidence            468999999999999999998765   55666666533211      000          01122333333322233478


Q ss_pred             EEEecccccccc
Q 012305          449 LLFIDEADAFLC  460 (466)
Q Consensus       449 iLflDEid~l~~  460 (466)
                      +||||.+..+..
T Consensus       144 lVVIDsl~~l~~  155 (356)
T 1u94_A          144 VIVVDSVAALTP  155 (356)
T ss_dssp             EEEEECGGGCCC
T ss_pred             EEEEcCHHHhcc
Confidence            999999999874

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=97.27  E-value=0.00029  Score=73.06  Aligned_cols=73  Identities=19%  Similarity=0.187  Sum_probs=46.8

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhh
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWA  441 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A  441 (466)
                      ++..++|+||+|+||||++..||..+   |..++.++++...+                     .+.+........+..+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~a  175 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDIF  175 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHHH
Confidence            34678999999999999999998777   66666665543211                     0011122233444444


Q ss_pred             hhccCceEEEeccccccc
Q 012305          442 KKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       442 ~~~~~~~iLflDEid~l~  459 (466)
                      ... .+++||||..+.+.
T Consensus       176 ~~~-~~DvvIIDTaGr~~  192 (433)
T 3kl4_A          176 VKN-KMDIIIVDTAGRHG  192 (433)
T ss_dssp             TTT-TCSEEEEEECCCSS
T ss_pred             Hhc-CCCEEEEECCCCcc
Confidence            432 37899999998754

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=97.27  E-value=0.0002  Score=72.21  Aligned_cols=73  Identities=27%  Similarity=0.322  Sum_probs=43.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------chh----------HHHHHHHHHHhhhhhccCce
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LGA----------QAVTKIHEIFDWAKKSKKGL  448 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~~----------e~~~~l~~lf~~A~~~~~~~  448 (466)
                      ..++|+||||+|||+|+..++...   |..++.++......      ++.          .+...+..+.+.......+.
T Consensus        62 ~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~~~~~~  141 (349)
T 2zr9_A           62 RVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSGALD  141 (349)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHhcCCCC
Confidence            458999999999999999997665   45555555433211      010          01112222222222233478


Q ss_pred             EEEecccccccc
Q 012305          449 LLFIDEADAFLC  460 (466)
Q Consensus       449 iLflDEid~l~~  460 (466)
                      +||||++..+.+
T Consensus       142 lIVIDsl~~l~~  153 (349)
T 2zr9_A          142 IIVIDSVAALVP  153 (349)
T ss_dssp             EEEEECGGGCCC
T ss_pred             EEEEcChHhhcc
Confidence            999999999873

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.26  E-value=9.6e-05  Score=66.24  Aligned_cols=29  Identities=34%  Similarity=0.585  Sum_probs=26.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      +++|.|||||||||+++.|+..+|.+|+.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d   34 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLD   34 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEc
Confidence            58999999999999999999999887654

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.25  E-value=7.4e-05  Score=80.37  Aligned_cols=72  Identities=25%  Similarity=0.474  Sum_probs=42.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc--ch---hHHHHHHHHHHhhhh--------hccCceEEE
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP--LG---AQAVTKIHEIFDWAK--------KSKKGLLLF  451 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~--~~---~e~~~~l~~lf~~A~--------~~~~~~iLf  451 (466)
                      +.++|+||||||||+++..+...+   |.+++.+.......  +.   +.....++.++.+..        ...+.++||
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~~~~~~~~~~~~~~~~dvlI  284 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVHRLLGYGPQGFRHNHLEPAPYDLLI  284 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHTSCEEEHHHHTTEETTEESCSSSSCCSCSEEE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecCcHHHHHHhHhhhcccHHHHHHHHcCCcchhhhhhcccccCCEEE
Confidence            368999999999999999998765   44443332111000  00   001223455553321        112368999


Q ss_pred             eccccccc
Q 012305          452 IDEADAFL  459 (466)
Q Consensus       452 lDEid~l~  459 (466)
                      |||+..+.
T Consensus       285 IDEasml~  292 (574)
T 3e1s_A          285 VDEVSMMG  292 (574)
T ss_dssp             ECCGGGCC
T ss_pred             EcCccCCC
Confidence            99998764

>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=97.24  E-value=0.00011  Score=66.31  Aligned_cols=30  Identities=27%  Similarity=0.571  Sum_probs=26.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .|+|+|+||||||++++.|+..+|.+|+..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~   33 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLDT   33 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEeC
Confidence            589999999999999999999998876543

>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=97.21  E-value=0.0001  Score=64.94  Aligned_cols=29  Identities=31%  Similarity=0.591  Sum_probs=25.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .|+|+||||+||||+++.| ..+|.+++.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            4789999999999999999 8888876654

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.20  E-value=0.00023  Score=71.96  Aligned_cols=73  Identities=23%  Similarity=0.252  Sum_probs=44.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc------ch----------hHHHHHHHHHHhhhhhccCce
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP------LG----------AQAVTKIHEIFDWAKKSKKGL  448 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~------~~----------~e~~~~l~~lf~~A~~~~~~~  448 (466)
                      ..++|+||||||||+|+..++..+   +..++.+++.....      ++          ......+..+.+.......++
T Consensus        62 ~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~~~~~d  141 (356)
T 3hr8_A           62 RIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVRSGVVD  141 (356)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTSCCS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhhhcCCC
Confidence            458899999999999999998775   55566666544211      00          001111112222221223478


Q ss_pred             EEEecccccccc
Q 012305          449 LLFIDEADAFLC  460 (466)
Q Consensus       449 iLflDEid~l~~  460 (466)
                      +|+||.+..+.+
T Consensus       142 lvVIDSi~~l~~  153 (356)
T 3hr8_A          142 LIVVDSVAALVP  153 (356)
T ss_dssp             EEEEECTTTCCC
T ss_pred             eEEehHhhhhcC
Confidence            999999998875

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.19  E-value=0.00013  Score=64.98  Aligned_cols=29  Identities=31%  Similarity=0.787  Sum_probs=25.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..++|+|||||||||+++.|+..++.+|+
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~~~~i   33 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFY   33 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            35899999999999999999999887654

>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=97.19  E-value=1.6e-05  Score=82.97  Aligned_cols=95  Identities=8%  Similarity=0.017  Sum_probs=51.3

Q ss_pred             eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHH-HHhhCCc-chhhcCCCccc-chh--HH--HH
Q 012305          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREI-ARKSGLD-YAMMTGGDVAP-LGA--QA--VT  432 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~al-A~~l~~~-~~~v~~~~l~~-~~~--e~--~~  432 (466)
                      |+|++.++..|.-.+..  .... ....-||||.|+||| ||++++++ +..+... |....++.... .+.  +.  ..
T Consensus       215 I~G~e~vK~aLll~L~G--G~~k-~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR~~ft~g~~ss~~gLt~s~r~~tG~~  290 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFS--CVGK-NSERLHVLLAGYPVV-CSEILHHVLDHLAPRGVYVDLRRTELTDLTAVLKEDRGWA  290 (506)
T ss_dssp             STTCHHHHHHHHHHHTT--CCSS-GGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEEEEEGGGCCHHHHSEEEEESSSEE
T ss_pred             cCCCHHHHHHHHHHHcC--Cccc-cCCceeEEEECCCCh-HHHHHHHHHHHhCCCeEEecCCCCCccCceEEEEcCCCcc
Confidence            78888876655432211  1100 111237999999999 99999999 7765322 21111111000 000  00  01


Q ss_pred             HHHHHHhhhhhccCceEEEecccccccccc
Q 012305          433 KIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       433 ~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ...+.+..|.    ++|||||||+.|..+-
T Consensus       291 ~~~G~l~LAd----gGvl~lDEIn~~~~~~  316 (506)
T 3f8t_A          291 LRAGAAVLAD----GGILAVDHLEGAPEPH  316 (506)
T ss_dssp             EEECHHHHTT----TSEEEEECCTTCCHHH
T ss_pred             cCCCeeEEcC----CCeeehHhhhhCCHHH
Confidence            1123334443    6899999999987543

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.19  E-value=0.00027  Score=71.80  Aligned_cols=73  Identities=23%  Similarity=0.302  Sum_probs=45.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc-c-----hh----------HHHHHHHHHHhhhhhccCce
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP-L-----GA----------QAVTKIHEIFDWAKKSKKGL  448 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~-~-----~~----------e~~~~l~~lf~~A~~~~~~~  448 (466)
                      ..++|+||||+|||+||..++...   |.+++.++...... .     +.          .....+...++........+
T Consensus        75 ~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~~~~~~  154 (366)
T 1xp8_A           75 RITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGAID  154 (366)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCS
T ss_pred             cEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHhcCCCC
Confidence            458899999999999999987765   55666665543211 0     00          11122222333222234478


Q ss_pred             EEEecccccccc
Q 012305          449 LLFIDEADAFLC  460 (466)
Q Consensus       449 iLflDEid~l~~  460 (466)
                      +||||.+..+.+
T Consensus       155 lVVIDsl~~l~~  166 (366)
T 1xp8_A          155 VVVVDSVAALTP  166 (366)
T ss_dssp             EEEEECTTTCCC
T ss_pred             EEEEeChHHhcc
Confidence            999999999874

>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=97.18  E-value=0.00012  Score=66.05  Aligned_cols=30  Identities=27%  Similarity=0.375  Sum_probs=26.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|+|.|+||+||||+++.|+..+|.+++.
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~~l~~~~i~   35 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALATGLRLPLLS   35 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCeEec
Confidence            468899999999999999999999876654

>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=97.17  E-value=0.00012  Score=66.42  Aligned_cols=31  Identities=42%  Similarity=0.612  Sum_probs=26.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHh-hCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK-SGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~-l~~~~~~v  418 (466)
                      .+|+|+|+||||||++++.|+.. +|.+|+.+
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~   42 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAELDGFQHLEV   42 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHSTTEEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCCEEeeH
Confidence            46999999999999999999999 68776553

>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=97.16  E-value=8.5e-05  Score=67.24  Aligned_cols=34  Identities=26%  Similarity=0.513  Sum_probs=27.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGG  421 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~  421 (466)
                      ..++|+||||+||||+++.|+..++...+.+++.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~~d   43 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANLPGVPKVHFHSD   43 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHhccCCCeEEEccc
Confidence            3588999999999999999999876655555544

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=97.15  E-value=0.00045  Score=68.41  Aligned_cols=35  Identities=26%  Similarity=0.363  Sum_probs=27.0

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      ++..++|+||+|+||||++..||..+   |..++.+.+
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~  140 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA  140 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEcc
Confidence            34568899999999999999999876   455554444

>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=97.13  E-value=0.00018  Score=65.98  Aligned_cols=31  Identities=35%  Similarity=0.584  Sum_probs=26.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      ..|+|+|+|||||||+++.|+..+|.+++.+
T Consensus        21 ~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           21 MRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            3588999999999999999999998876543

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.13  E-value=0.00015  Score=65.37  Aligned_cols=29  Identities=28%  Similarity=0.403  Sum_probs=25.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..|+|+|+|||||||+++.|+..+|.+++
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~~~~~~i   32 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEKYGYTHL   32 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            45899999999999999999999987654

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=97.11  E-value=0.00047  Score=68.55  Aligned_cols=35  Identities=17%  Similarity=0.280  Sum_probs=27.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---------CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---------GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---------~~~~~~v~~~~  422 (466)
                      ..++|+||||||||+++..++...         +..++.++...
T Consensus       108 ~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          108 TMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             cEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            458899999999999999998764         44556665544

>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=97.11  E-value=0.00017  Score=64.10  Aligned_cols=29  Identities=34%  Similarity=0.626  Sum_probs=26.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|+|+|+||||||++++.|+..+|.+++.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id   32 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALGYEFVD   32 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence            58999999999999999999999887653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.09  E-value=0.00017  Score=65.36  Aligned_cols=29  Identities=28%  Similarity=0.466  Sum_probs=26.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..|+|.|+|||||||+++.|+..+|.+++
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~~l~~~~i   38 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQKYGYTHL   38 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            35899999999999999999999987755

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=97.08  E-value=0.00046  Score=71.62  Aligned_cols=35  Identities=34%  Similarity=0.500  Sum_probs=28.8

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      +..++|+|+||+||||++..|+..+   |..++.++++
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D  136 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAAD  136 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Confidence            4579999999999999999998876   5666666654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.07  E-value=0.00018  Score=64.72  Aligned_cols=29  Identities=34%  Similarity=0.684  Sum_probs=25.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .++|+|+|||||||+++.|+..+|.+++.
T Consensus         6 ~I~l~G~~GsGKST~~~~La~~l~~~~i~   34 (186)
T 3cm0_A            6 AVIFLGPPGAGKGTQASRLAQELGFKKLS   34 (186)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEec
Confidence            58899999999999999999998876543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.04  E-value=0.00017  Score=64.27  Aligned_cols=29  Identities=34%  Similarity=0.528  Sum_probs=23.9

Q ss_pred             ccccccCCCCCCchHHHHHHHH-hhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR-KSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~-~l~~~~~  416 (466)
                      ..|+|.||||+||||+++.|+. .+|..++
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~~~~~~~i   32 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             eEEEEecCCCCCHHHHHHHHHhhcCCcEEe
Confidence            3588999999999999999998 5665443

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.04  E-value=0.00019  Score=64.34  Aligned_cols=29  Identities=24%  Similarity=0.361  Sum_probs=22.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..|+|+|+|||||||+++.|+..++.+++
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            35889999999999999999999998876

>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=97.04  E-value=0.00021  Score=66.46  Aligned_cols=30  Identities=27%  Similarity=0.437  Sum_probs=26.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|+|.|+||+||||+++.|+..++.+++.
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   34 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQERFHAAHLA   34 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCceEEe
Confidence            468999999999999999999999877654

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.03  E-value=0.00025  Score=65.06  Aligned_cols=29  Identities=28%  Similarity=0.556  Sum_probs=25.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..|+|+|+||+||||+++.|+..+|..++
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~lg~~~i   47 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEACGYPFI   47 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHHHTCCEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCEEE
Confidence            46899999999999999999999986554

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.02  E-value=0.00051  Score=82.69  Aligned_cols=73  Identities=21%  Similarity=0.245  Sum_probs=47.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchh-H---------------HHHHHHHHHhhhhhccCce
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGA-Q---------------AVTKIHEIFDWAKKSKKGL  448 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~-e---------------~~~~l~~lf~~A~~~~~~~  448 (466)
                      +++||+||||||||+|+..++...   |.+++.++......... .               .......+.+...+...++
T Consensus      1082 ~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~~L~a~~~G~dl~~l~~~~pd~~e~~~~i~~~l~~~~~~d 1161 (2050)
T 3cmu_A         1082 RIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVD 1161 (2050)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCCS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHHHHHHHHcCCChhHheeecCcchHHHHHHHHHHHHhCCCC
Confidence            679999999999999999997654   66666666655432110 0               0111223333333344589


Q ss_pred             EEEecccccccc
Q 012305          449 LLFIDEADAFLC  460 (466)
Q Consensus       449 iLflDEid~l~~  460 (466)
                      +||||++..|.+
T Consensus      1162 lvVIDsl~~L~~ 1173 (2050)
T 3cmu_A         1162 VIVVDSVAALTP 1173 (2050)
T ss_dssp             EEEESCGGGCCC
T ss_pred             EEEECCcccccc
Confidence            999999999854

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.02  E-value=0.00068  Score=72.37  Aligned_cols=47  Identities=21%  Similarity=0.200  Sum_probs=35.8

Q ss_pred             CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHH
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~  409 (466)
                      ...+||.+.....|...+...      ....+.|+|+||+|+|||++|..++.
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~------~~~~~~v~I~G~~GiGKTtLa~~~~~  169 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKL------KGEPGWVTIHGMAGCGKSVLAAEAVR  169 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTS------TTSCEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CCeecccHHHHHHHHHHHhcc------cCCCceEEEEcCCCCCHHHHHHHHHh
Confidence            356899999888887765432      11234689999999999999999864

>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=97.02  E-value=0.00017  Score=64.85  Aligned_cols=29  Identities=17%  Similarity=0.240  Sum_probs=25.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC-----Ccchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG-----LDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~-----~~~~~  417 (466)
                      .|+|+|||||||||+++.|+..++     .+++.
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~i~   38 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVS   38 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCcceEEEe
Confidence            588999999999999999999887     65543

>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=97.02  E-value=0.00021  Score=66.13  Aligned_cols=30  Identities=30%  Similarity=0.520  Sum_probs=25.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .|+|+||||+||||+++.|+..+|.+++.+
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            478999999999999999999998765533

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.00  E-value=0.00022  Score=68.41  Aligned_cols=29  Identities=38%  Similarity=0.564  Sum_probs=25.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .++|+||||||||++++.|+..++..++.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i~   31 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVVA   31 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEEe
Confidence            47899999999999999999999876543

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=97.00  E-value=0.0015  Score=64.30  Aligned_cols=36  Identities=25%  Similarity=0.411  Sum_probs=28.1

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCC
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGD  422 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~  422 (466)
                      ...++|+||+|+||||++..||..+    |..+..+.++.
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~  144 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDT  144 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCc
Confidence            3568899999999999999998765    55666665544

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.00  E-value=0.00024  Score=62.75  Aligned_cols=29  Identities=17%  Similarity=0.284  Sum_probs=25.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|+|+|+||+||||+++.|+..+|.+++.
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            48899999999999999999999877654

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.99  E-value=0.0002  Score=64.94  Aligned_cols=29  Identities=24%  Similarity=0.505  Sum_probs=25.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..|+|+|+|||||||+++.|+..+|.+++
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~~~~i   41 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYGFTHL   41 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHTCEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            35889999999999999999999987654

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.98  E-value=0.00028  Score=64.55  Aligned_cols=30  Identities=17%  Similarity=0.330  Sum_probs=26.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|+|+|+|||||||+++.|+..+|.+++.
T Consensus        16 ~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~   45 (203)
T 1ukz_A           16 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLS   45 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCceEEe
Confidence            468899999999999999999999876543

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.98  E-value=0.00024  Score=65.65  Aligned_cols=29  Identities=31%  Similarity=0.482  Sum_probs=25.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|+|+||||+||||+++.|+..+|.+++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~   30 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYEIPHIS   30 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEee
Confidence            37899999999999999999999876553

>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=96.97  E-value=0.00059  Score=64.71  Aligned_cols=30  Identities=23%  Similarity=0.212  Sum_probs=24.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      ++|++||+|+|||.++..++..++..++.+
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~~~~~liv  139 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIV  139 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEE
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEE
Confidence            499999999999999998888775554443

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.95  E-value=0.00028  Score=65.79  Aligned_cols=30  Identities=23%  Similarity=0.294  Sum_probs=26.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|+|.||||+||||+++.|+..++..++.
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            468999999999999999999999876554

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.95  E-value=0.00032  Score=62.63  Aligned_cols=29  Identities=28%  Similarity=0.470  Sum_probs=25.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..++|+||||+||||+++.|+..+|..++
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~~~g~~~i   37 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAHQLHAAFL   37 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHTCEEE
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhhCcEEE
Confidence            46889999999999999999998876543

>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=96.94  E-value=0.0003  Score=66.27  Aligned_cols=31  Identities=26%  Similarity=0.404  Sum_probs=27.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      ..|+|.|+|||||||+++.|+..++..|+.+
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   47 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   47 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            4699999999999999999999998776543

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.94  E-value=0.00025  Score=63.77  Aligned_cols=29  Identities=28%  Similarity=0.415  Sum_probs=25.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..|+|+|+|||||||+++.|+..+|.+++
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~~l~~~~i   35 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVRDFGWVHL   35 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHCCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            45889999999999999999999987655

>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=96.94  E-value=0.001  Score=66.75  Aligned_cols=35  Identities=17%  Similarity=0.217  Sum_probs=26.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---------CCcchhhcCCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---------GLDYAMMTGGD  422 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---------~~~~~~v~~~~  422 (466)
                      ..++|+||||+|||+|+..++...         +..++.+++..
T Consensus       123 ~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~  166 (343)
T 1v5w_A          123 AITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTEN  166 (343)
T ss_dssp             EEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            457899999999999999998863         44555565544

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.92  E-value=0.00027  Score=66.14  Aligned_cols=30  Identities=27%  Similarity=0.407  Sum_probs=26.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|+|+|+|||||||+++.|+..+|..++.
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   37 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITTHFELKHLS   37 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSSSEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCeEEe
Confidence            458999999999999999999999877653

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.92  E-value=0.00027  Score=68.36  Aligned_cols=24  Identities=25%  Similarity=0.419  Sum_probs=21.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||+|+||||+.++|+..+
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHHhC
Confidence            458999999999999999998876

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.91  E-value=0.00031  Score=66.53  Aligned_cols=32  Identities=22%  Similarity=0.306  Sum_probs=26.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      +++|.|+||||||+++-.+|..+   |++++.+..
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~   42 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVV   42 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEe
Confidence            69999999999999999998776   666655444

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.89  E-value=0.00031  Score=65.49  Aligned_cols=27  Identities=37%  Similarity=0.797  Sum_probs=24.5

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ++|.||||+||+|.|+.|+..+|.+++
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~g~~~i   29 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEKGFVHI   29 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEE
Confidence            788999999999999999999987654

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.89  E-value=0.00032  Score=65.30  Aligned_cols=30  Identities=30%  Similarity=0.527  Sum_probs=26.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .|+|.|+|||||||+++.|+..+|.+++.+
T Consensus         7 ~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            7 NLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            589999999999999999999998876643

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.89  E-value=0.00034  Score=65.89  Aligned_cols=29  Identities=21%  Similarity=0.446  Sum_probs=25.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      +.|+|.||||+||+|.|+.|+..+|.+++
T Consensus        30 kiI~llGpPGsGKgTqa~~L~~~~g~~hI   58 (217)
T 3umf_A           30 KVIFVLGGPGSGKGTQCEKLVQKFHFNHL   58 (217)
T ss_dssp             EEEEEECCTTCCHHHHHHHHHHHHCCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            46888999999999999999999987654

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.89  E-value=0.00034  Score=66.60  Aligned_cols=31  Identities=19%  Similarity=0.307  Sum_probs=26.7

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      +..|+|+||||+||||+++.|+..+|.+++.
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is   59 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKKSHCYCHLS   59 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            3569999999999999999999998876543

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.88  E-value=0.00066  Score=61.30  Aligned_cols=25  Identities=32%  Similarity=0.448  Sum_probs=22.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..++|.|+||+||||+++.|+..++
T Consensus        14 ~~i~l~G~~GsGKsT~~~~L~~~l~   38 (186)
T 2yvu_A           14 IVVWLTGLPGSGKTTIATRLADLLQ   38 (186)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4688999999999999999998873

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.86  E-value=0.0011  Score=61.38  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=21.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||||+|||+|++.|+...
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            358899999999999999998754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.84  E-value=0.00042  Score=63.58  Aligned_cols=28  Identities=36%  Similarity=0.783  Sum_probs=24.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      ..++|.||||+||||+++.|+..+|..+
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~~~g~~~   57 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVADETGLEF   57 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHCCEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCCeE
Confidence            4588999999999999999999887543

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.81  E-value=0.00045  Score=69.71  Aligned_cols=31  Identities=26%  Similarity=0.561  Sum_probs=28.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      +++|+||||+|||++++.|+..++.+|+.++
T Consensus        26 ~i~l~G~~G~GKTTl~~~la~~l~~~f~~l~   56 (359)
T 2ga8_A           26 CVILVGSPGSGKSTIAEELCQIINEKYHTFL   56 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhCCCeeeec
Confidence            6999999999999999999999999886643

>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=96.81  E-value=0.00031  Score=71.08  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=21.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|+||+|+||||+.++++..+
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhcc
Confidence            59999999999999999998876

>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=96.80  E-value=0.00039  Score=64.46  Aligned_cols=30  Identities=27%  Similarity=0.392  Sum_probs=26.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .|+|.||||+||||+++.|+..+|.+++.+
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            488999999999999999999998776554

>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=96.76  E-value=0.0011  Score=78.98  Aligned_cols=74  Identities=20%  Similarity=0.241  Sum_probs=49.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchh----------------HHHHHHHHHHhhhhhccCce
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGA----------------QAVTKIHEIFDWAKKSKKGL  448 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~----------------e~~~~l~~lf~~A~~~~~~~  448 (466)
                      .+++|+||||||||+||..++...   |..++.++.........                .....+..+++.......++
T Consensus        35 ~i~lI~G~pGsGKT~LAlqla~~~~~~G~~vlYI~te~~~~~l~~~~lg~dl~~i~i~~p~t~e~l~~ll~~L~~~~~~~  114 (1706)
T 3cmw_A           35 RIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVD  114 (1706)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhCCCceEEEEecCccHHHHHHhhccCccceeeeccCcHHHHHHHHHHHHhccCCC
Confidence            579999999999999999997653   56666666554322100                11223445555443334478


Q ss_pred             EEEeccccccccc
Q 012305          449 LLFIDEADAFLCD  461 (466)
Q Consensus       449 iLflDEid~l~~~  461 (466)
                      +||||.+..+...
T Consensus       115 LVVIDSLt~L~~~  127 (1706)
T 3cmw_A          115 VIVVDSVAALTPK  127 (1706)
T ss_dssp             EEEESCSTTCCCH
T ss_pred             EEEEcchhhhccc
Confidence            9999999998764

>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=96.74  E-value=0.00044  Score=62.07  Aligned_cols=32  Identities=22%  Similarity=0.344  Sum_probs=27.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      ..++|+|++||||||+++.|+..+   |.+++.++
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d   40 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   40 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEEC
Confidence            358899999999999999999987   87776554

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.74  E-value=0.00051  Score=62.36  Aligned_cols=28  Identities=29%  Similarity=0.636  Sum_probs=25.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .|+|.|+|||||||+++.|+..++..++
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~   29 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIF   29 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEE
Confidence            4789999999999999999999987654

>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=96.74  E-value=0.00033  Score=67.33  Aligned_cols=32  Identities=22%  Similarity=0.551  Sum_probs=26.7

Q ss_pred             cccccCCCCCCchHHHHHHHHh---hCCcchhhcC
Q 012305          389 NMLFYGPPGTGKTMVAREIARK---SGLDYAMMTG  420 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~---l~~~~~~v~~  420 (466)
                      .|+|+|+||+||||+++.|+..   .|.+++.++.
T Consensus         6 lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~   40 (260)
T 3a4m_A            6 LIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGS   40 (260)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECc
Confidence            5899999999999999999998   5777664443

>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=96.72  E-value=0.00054  Score=63.64  Aligned_cols=27  Identities=22%  Similarity=0.416  Sum_probs=23.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      .+.|.|||||||||+++.|+..+|.++
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~g~~~   33 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEALQWHL   33 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCc
Confidence            588999999999999999999887653

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.70  E-value=0.0029  Score=66.52  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=21.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||+|+||||+++.|+..+
T Consensus       294 eVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          294 FVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCcccHHHHHHHHHHHh
Confidence            468899999999999999999876

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.70  E-value=0.0014  Score=61.29  Aligned_cols=24  Identities=33%  Similarity=0.613  Sum_probs=20.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||||+|||+++..++...
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~~~   47 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLWNG   47 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            358899999999999988886543

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.68  E-value=0.0032  Score=62.58  Aligned_cols=35  Identities=23%  Similarity=0.343  Sum_probs=26.8

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      +...++|+||+|+||||++..||..+   |..++.+.+
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~  141 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAA  141 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            44568899999999999999998876   445444443

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.68  E-value=0.0004  Score=62.42  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=22.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .|+|.|+|||||||+++.|+..++
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            488999999999999999999885

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.67  E-value=0.0019  Score=68.24  Aligned_cols=37  Identities=22%  Similarity=0.373  Sum_probs=29.1

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD  422 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~  422 (466)
                      +++.|+|+|+||+||||++..|+..+   |..++.++++.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~  139 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADT  139 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccc
Confidence            34679999999999999999999776   67777776643

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.67  E-value=0.00059  Score=63.87  Aligned_cols=30  Identities=30%  Similarity=0.488  Sum_probs=26.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .|+|.||||+||||+++.|+..+|.+++..
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            378999999999999999999998765544

>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=96.65  E-value=0.00059  Score=62.61  Aligned_cols=26  Identities=15%  Similarity=0.226  Sum_probs=22.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      ..|+|+|+|||||||+++.|+..++.
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            35889999999999999999998743

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.65  E-value=0.00059  Score=62.56  Aligned_cols=27  Identities=15%  Similarity=0.245  Sum_probs=23.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      ..|+|+|+|||||||+++.|+..++..
T Consensus        11 ~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            458899999999999999999987543

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.64  E-value=0.00068  Score=60.99  Aligned_cols=30  Identities=27%  Similarity=0.357  Sum_probs=25.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v  418 (466)
                      .|+|+|+|||||||+++.|+..+   |.+++..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~   34 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLY   34 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            37899999999999999999988   7776654

>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=96.63  E-value=0.00057  Score=62.53  Aligned_cols=27  Identities=26%  Similarity=0.282  Sum_probs=23.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .|.|+|++||||||+++.|+. +|.+++
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i   29 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVL   29 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEE
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEE
Confidence            488999999999999999999 776654

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=96.60  E-value=0.0019  Score=64.27  Aligned_cols=77  Identities=10%  Similarity=0.150  Sum_probs=45.3

Q ss_pred             ccccccccccCCCCCCchHHHHHHHHhh-----CCcchhhcCCCccc------chh----------HHHHHH-HHHHhhh
Q 012305          384 QAPFRNMLFYGPPGTGKTMVAREIARKS-----GLDYAMMTGGDVAP------LGA----------QAVTKI-HEIFDWA  441 (466)
Q Consensus       384 ~~p~~~vLl~GppGTGKT~lA~alA~~l-----~~~~~~v~~~~l~~------~~~----------e~~~~l-~~lf~~A  441 (466)
                      +.|...++|+||||||||+|+..++...     |..++.+++..-..      +|.          .+...+ ..+.+.+
T Consensus        25 Gl~~GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l  104 (333)
T 3io5_A           25 GMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQL  104 (333)
T ss_dssp             CBCSEEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHHHHHHH
T ss_pred             CCcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHHHHHHH
Confidence            4454458899999999999988775544     45556666543211      111          011122 2222222


Q ss_pred             --hhccCceEEEecccccccc
Q 012305          442 --KKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       442 --~~~~~~~iLflDEid~l~~  460 (466)
                        -....+.+|+||=|..|.+
T Consensus       105 ~~i~~~~~~lvVIDSI~aL~~  125 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGNLAS  125 (333)
T ss_dssp             HTCCTTCCEEEEEECSTTCBC
T ss_pred             HHhhccCceEEEEeccccccc
Confidence              1234489999999999974

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.60  E-value=0.0022  Score=64.51  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=21.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||||+|||+|++.++...
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            458899999999999999998876

>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=96.59  E-value=0.0015  Score=60.39  Aligned_cols=31  Identities=23%  Similarity=0.370  Sum_probs=25.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v  418 (466)
                      ..|++|+++|+|||++|-.++-..   |+.++.+
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~v   62 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVV   62 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            369999999999999999996665   7776666

>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=96.57  E-value=0.00069  Score=62.13  Aligned_cols=27  Identities=26%  Similarity=0.331  Sum_probs=23.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .+.|+||+||||||+++.|+. +|.+|+
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~i   30 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLV   30 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCccc
Confidence            478999999999999999988 777654

>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=96.56  E-value=0.00071  Score=61.63  Aligned_cols=32  Identities=19%  Similarity=0.214  Sum_probs=26.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh-CCcchhhc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS-GLDYAMMT  419 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l-~~~~~~v~  419 (466)
                      ..|+|.|+|||||||+++.|+..+ |.+++.+.
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~   37 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESIPANTIKYLN   37 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEE
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEe
Confidence            358899999999999999999998 56655443

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.51  E-value=0.0011  Score=60.57  Aligned_cols=27  Identities=26%  Similarity=0.252  Sum_probs=23.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      ..|+|.|+|||||||+++.|+..++..
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            358899999999999999999998753

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.49  E-value=0.00094  Score=64.15  Aligned_cols=30  Identities=37%  Similarity=0.559  Sum_probs=26.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|.|+|+||+||||+++.|+..+|.+|+.
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg~~~~d   78 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLGYTFFD   78 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCcEEe
Confidence            369999999999999999999999887654

>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=96.49  E-value=0.00098  Score=60.78  Aligned_cols=28  Identities=36%  Similarity=0.593  Sum_probs=24.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .+.|.|++|||||++++.|+..+|.+|+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~   31 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYL   31 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCcee
Confidence            5889999999999999999999887653

>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=96.49  E-value=0.00099  Score=63.37  Aligned_cols=27  Identities=44%  Similarity=0.712  Sum_probs=24.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      .+.|.||||||||++++.|+..+|..|
T Consensus        11 ~i~i~G~~GsGKsTla~~la~~lg~~~   37 (233)
T 3r20_A           11 VVAVDGPAGTGKSSVSRGLARALGARY   37 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCc
Confidence            588999999999999999999987654

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.48  E-value=0.0032  Score=64.58  Aligned_cols=23  Identities=22%  Similarity=0.304  Sum_probs=19.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..++|+||||||||+|++.|+-.
T Consensus       179 ei~~I~G~sGsGKTTLl~~la~~  201 (400)
T 3lda_A          179 SITELFGEFRTGKSQLCHTLAVT  201 (400)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCChHHHHHHHHHH
Confidence            35889999999999999977643

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.48  E-value=0.00078  Score=67.17  Aligned_cols=31  Identities=23%  Similarity=0.364  Sum_probs=26.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      ..++|+||||||||+++..|+..++..++.+
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~~~iis~   36 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALPCELISV   36 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCcEEec
Confidence            3689999999999999999999997665544

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.47  E-value=0.00081  Score=67.18  Aligned_cols=69  Identities=13%  Similarity=0.123  Sum_probs=40.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC--cchhhcCCCc---c---c---chhHHHHHHHHHHhhhhhccCceEEEecccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL--DYAMMTGGDV---A---P---LGAQAVTKIHEIFDWAKKSKKGLLLFIDEAD  456 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~--~~~~v~~~~l---~---~---~~~e~~~~l~~lf~~A~~~~~~~iLflDEid  456 (466)
                      ..++|+||+|+||||+.++|+.....  -.+.+.+.+.   .   .   +........+..+..+-..+ +.+|+|||+-
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~~e~~~~~~~~~i~~~~ggg~~~r~~la~aL~~~-p~ilildE~~  250 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMR-PDRIILGELR  250 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSC-CSEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCeeccccccchhEEEEEeCCChhHHHHHHHHhhhC-CCEEEEcCCC
Confidence            35999999999999999999988732  2233333211   0   0   00001112233333333333 7899999976


Q ss_pred             c
Q 012305          457 A  457 (466)
Q Consensus       457 ~  457 (466)
                      .
T Consensus       251 ~  251 (330)
T 2pt7_A          251 S  251 (330)
T ss_dssp             S
T ss_pred             h
Confidence            4

>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=96.45  E-value=0.0011  Score=62.70  Aligned_cols=27  Identities=41%  Similarity=0.758  Sum_probs=23.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      ..++|.||||+||||+++.|+..+|..
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La~~lg~~   54 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIAQNFGLQ   54 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCe
Confidence            468999999999999999999888654

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.44  E-value=0.0012  Score=67.11  Aligned_cols=24  Identities=25%  Similarity=0.419  Sum_probs=21.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||+|+||||+.++|+..+
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhc
Confidence            468999999999999999998876

>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=96.40  E-value=0.0013  Score=60.32  Aligned_cols=24  Identities=21%  Similarity=0.302  Sum_probs=22.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|.||+||||||+++.|+..+
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            468899999999999999999988

>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=96.40  E-value=0.00098  Score=63.50  Aligned_cols=28  Identities=21%  Similarity=0.210  Sum_probs=24.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      ..|.|.|+|||||||+++.|+..+|.++
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg~~~   50 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLGQNE   50 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhhhc
Confidence            3588999999999999999999998764

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=96.40  E-value=0.0022  Score=63.35  Aligned_cols=23  Identities=26%  Similarity=0.315  Sum_probs=20.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..++|+||||+|||+++..++..
T Consensus        99 ~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           99 SVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            45889999999999999999865

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=96.40  E-value=0.0013  Score=60.89  Aligned_cols=67  Identities=16%  Similarity=0.172  Sum_probs=40.0

Q ss_pred             cccccCCCCCCch-HHHHHHHHhh--CCcchhhcCC---C----ccc-chhH----HHHHHHHHHhhhhhccCceEEEec
Q 012305          389 NMLFYGPPGTGKT-MVAREIARKS--GLDYAMMTGG---D----VAP-LGAQ----AVTKIHEIFDWAKKSKKGLLLFID  453 (466)
Q Consensus       389 ~vLl~GppGTGKT-~lA~alA~~l--~~~~~~v~~~---~----l~~-~~~e----~~~~l~~lf~~A~~~~~~~iLflD  453 (466)
                      -+++|||.|+||| .|.+++.+..  +..++.++..   .    +.. .|..    .......+++..   +..++|+||
T Consensus        22 l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~~~---~~~DvIlID   98 (195)
T 1w4r_A           22 IQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEA---LGVAVIGID   98 (195)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEETTCCCGGGSCCHHHHHHSEEEEESSGGGGHHHH---HTCSEEEES
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccccCccchhhhhhccCCcccceecCCHHHHHHhc---cCCCEEEEE
Confidence            4778999999999 8889887765  6666666422   1    111 0000    011112233322   236899999


Q ss_pred             ccccc
Q 012305          454 EADAF  458 (466)
Q Consensus       454 Eid~l  458 (466)
                      |+.-|
T Consensus        99 EaQFf  103 (195)
T 1w4r_A           99 EGQFF  103 (195)
T ss_dssp             SGGGC
T ss_pred             chhhh
Confidence            99887

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.39  E-value=0.0034  Score=78.56  Aligned_cols=63  Identities=22%  Similarity=0.230  Sum_probs=48.7

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHHhhhhhccCceEEEeccccccc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~  459 (466)
                      ..++||+|||||.+++.||+.+|.+++.++|++-..+.     .+..+|..+-..  |....+||++.+-
T Consensus       607 g~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~~-----~~g~i~~G~~~~--GaW~cfDEfNrl~  669 (3245)
T 3vkg_A          607 GNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDLQ-----AMSRIFVGLCQC--GAWGCFDEFNRLE  669 (3245)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCHH-----HHHHHHHHHHHH--TCEEEEETTTSSC
T ss_pred             CCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCHH-----HHHHHHhhHhhc--CcEEEehhhhcCC
Confidence            56789999999999999999999999999998744322     234455544432  6788999998864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.33  E-value=0.0015  Score=60.10  Aligned_cols=27  Identities=19%  Similarity=0.436  Sum_probs=23.5

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhhC
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +...++|+||||+||||+++.|+..++
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            345689999999999999999998874

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.32  E-value=0.0061  Score=60.79  Aligned_cols=25  Identities=28%  Similarity=0.332  Sum_probs=22.4

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +..+.|+||+|+||||+++.|+..+
T Consensus       129 g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          129 PYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3568899999999999999999876

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=96.30  E-value=0.0037  Score=55.98  Aligned_cols=24  Identities=25%  Similarity=0.479  Sum_probs=21.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..|+|+|++|+|||+|...|....
T Consensus        49 ~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           49 PSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            479999999999999999997653

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.29  E-value=0.0045  Score=64.17  Aligned_cols=73  Identities=21%  Similarity=0.226  Sum_probs=47.4

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh----CCcchhhcCCCcccch---------------------hHHHHHHHHHHhh
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGDVAPLG---------------------AQAVTKIHEIFDW  440 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~l~~~~---------------------~e~~~~l~~lf~~  440 (466)
                      +++.++|+|++|+||||++..||..+    |..++.++++...+..                     .+....+...+..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~~  178 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKE  178 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHHH
Confidence            45678899999999999999998766    6777777776432210                     0111222444554


Q ss_pred             hhhccCceEEEeccccccc
Q 012305          441 AKKSKKGLLLFIDEADAFL  459 (466)
Q Consensus       441 A~~~~~~~iLflDEid~l~  459 (466)
                      +.. ..++++|||-...+.
T Consensus       179 ~~~-~~~D~VIIDTpG~l~  196 (433)
T 2xxa_A          179 AKL-KFYDVLLVDTAGRLH  196 (433)
T ss_dssp             HHH-TTCSEEEEECCCCCT
T ss_pred             HHh-CCCCEEEEECCCccc
Confidence            442 237899999876543

>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=96.29  E-value=0.0014  Score=60.35  Aligned_cols=29  Identities=28%  Similarity=0.295  Sum_probs=25.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|.|+|++||||||+++.|+..+|.+++.
T Consensus        14 iIgltG~~GSGKSTva~~L~~~lg~~vid   42 (192)
T 2grj_A           14 VIGVTGKIGTGKSTVCEILKNKYGAHVVN   42 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCEEEE
Confidence            47899999999999999999988877644

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.25  E-value=0.0017  Score=62.00  Aligned_cols=27  Identities=22%  Similarity=0.423  Sum_probs=24.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      .+.|.||+||||||+++.|+..+|..+
T Consensus        29 ~I~I~G~~GsGKSTl~k~La~~Lg~~~   55 (252)
T 4e22_A           29 VITVDGPSGAGKGTLCKALAESLNWRL   55 (252)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCCc
Confidence            588999999999999999998887653

>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=96.22  E-value=0.0015  Score=59.37  Aligned_cols=28  Identities=25%  Similarity=0.221  Sum_probs=24.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ..|.|+|++||||||+++.|+.. |.+|+
T Consensus         9 ~~I~i~G~~GsGKST~~~~La~~-g~~~i   36 (203)
T 1uf9_A            9 IIIGITGNIGSGKSTVAALLRSW-GYPVL   36 (203)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHT-TCCEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHC-CCEEE
Confidence            35889999999999999999998 76654

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=96.20  E-value=0.0046  Score=71.06  Aligned_cols=48  Identities=23%  Similarity=0.227  Sum_probs=36.4

Q ss_pred             CCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHh
Q 012305          357 NGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       357 l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ...+||.+.....|...+....      ...+.|.|+|++|+|||+||..+++.
T Consensus       123 ~~~~vgR~~~~~~l~~~l~~~~------~~~~~v~i~G~gG~GKTtLa~~~~~~  170 (1249)
T 3sfz_A          123 PVIFVTRKKLVHAIQQKLWKLN------GEPGWVTIYGMAGCGKSVLAAEAVRD  170 (1249)
T ss_dssp             CSSCCCCHHHHHHHHHHHHTTT------TSCEEEEEECSTTSSHHHHHHHHTCC
T ss_pred             CceeccHHHHHHHHHHHHhhcc------CCCCEEEEEeCCCCCHHHHHHHHhcC
Confidence            4568999998888887653221      12345889999999999999998765

>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=96.18  E-value=0.0081  Score=60.31  Aligned_cols=33  Identities=21%  Similarity=0.346  Sum_probs=25.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      ..|.|+|+||+|||+++..|+..+   |..+..+.+
T Consensus        80 ~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~  115 (355)
T 3p32_A           80 HRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAV  115 (355)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEec
Confidence            368899999999999999998776   555544443

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.17  E-value=0.0046  Score=60.76  Aligned_cols=71  Identities=20%  Similarity=0.189  Sum_probs=44.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhhhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWAKK  443 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A~~  443 (466)
                      ..++|+|++|+|||+++..|+..+   |..++.+++....+                     .+......+...+..++.
T Consensus        99 ~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~~~~  178 (297)
T 1j8m_F           99 YVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFLS  178 (297)
T ss_dssp             EEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHHHHh
Confidence            457889999999999999998776   56666555542211                     001111222344554432


Q ss_pred             ccCceEEEeccccccc
Q 012305          444 SKKGLLLFIDEADAFL  459 (466)
Q Consensus       444 ~~~~~iLflDEid~l~  459 (466)
                       ..+++||||-...+.
T Consensus       179 -~~~D~ViIDTpg~~~  193 (297)
T 1j8m_F          179 -EKMEIIIVDTAGRHG  193 (297)
T ss_dssp             -TTCSEEEEECCCSCC
T ss_pred             -CCCCEEEEeCCCCcc
Confidence             237899999877654

>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=96.16  E-value=0.0018  Score=58.51  Aligned_cols=25  Identities=24%  Similarity=0.470  Sum_probs=21.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      .++|+||||+||||+++.|+..++.
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            4789999999999999999986643

>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=96.15  E-value=0.0019  Score=59.72  Aligned_cols=25  Identities=24%  Similarity=0.472  Sum_probs=22.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .-+.|+||+|+||||+++.|+..++
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhCC
Confidence            3588999999999999999998874

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.14  E-value=0.0021  Score=59.38  Aligned_cols=28  Identities=29%  Similarity=0.606  Sum_probs=24.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .+.|+|+||||||++++.|+..+|.+|+
T Consensus         5 ~i~i~G~~gsGkst~~~~l~~~~g~~~~   32 (219)
T 2h92_A            5 NIALDGPAAAGKSTIAKRVASELSMIYV   32 (219)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHTTCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCcee
Confidence            5889999999999999999999887653

>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=96.14  E-value=0.0015  Score=60.22  Aligned_cols=69  Identities=20%  Similarity=0.301  Sum_probs=40.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCC--C------cc-cchhH----HHHHHHHHHhhhhhccCceEEEe
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG--D------VA-PLGAQ----AVTKIHEIFDWAKKSKKGLLLFI  452 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~--~------l~-~~~~e----~~~~l~~lf~~A~~~~~~~iLfl  452 (466)
                      -+++|||+|+|||+.+-.++..+   |..++.+...  +      +. ..+..    .......+++.+.  ...++|+|
T Consensus        10 i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s~~g~~~~a~~~~~~~~i~~~~~--~~~dvViI   87 (191)
T 1xx6_A           10 VEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKYFE--EDTEVIAI   87 (191)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHHCC--TTCSEEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHhhcCCceeeEeeCCHHHHHHHHh--ccCCEEEE
Confidence            47789999999999888887666   6665555311  0      00 01100    0111124444443  23689999


Q ss_pred             ccccccc
Q 012305          453 DEADAFL  459 (466)
Q Consensus       453 DEid~l~  459 (466)
                      ||+..|.
T Consensus        88 DEaqfl~   94 (191)
T 1xx6_A           88 DEVQFFD   94 (191)
T ss_dssp             CSGGGSC
T ss_pred             ECCCCCC
Confidence            9998864

>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=96.12  E-value=0.0023  Score=58.71  Aligned_cols=23  Identities=26%  Similarity=0.589  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|+||+|+|||+|++.|....
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999998765

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.11  E-value=0.0022  Score=60.33  Aligned_cols=28  Identities=36%  Similarity=0.642  Sum_probs=24.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      ..+.|.|++|||||++++.|+..+|.++
T Consensus        17 ~~i~i~G~~gsGKst~~~~l~~~lg~~~   44 (236)
T 1q3t_A           17 IQIAIDGPASSGKSTVAKIIAKDFGFTY   44 (236)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCCEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCce
Confidence            4688999999999999999999887654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.11  E-value=0.002  Score=58.61  Aligned_cols=24  Identities=29%  Similarity=0.520  Sum_probs=21.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||||+||||+++.|+..+
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            358899999999999999999877

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.10  E-value=0.0053  Score=63.82  Aligned_cols=33  Identities=24%  Similarity=0.308  Sum_probs=25.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh----CCcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~  420 (466)
                      .-++|+|+||+|||+|+..++...    |.+++.++.
T Consensus       204 ~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~  240 (454)
T 2r6a_A          204 DLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSL  240 (454)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEES
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEEC
Confidence            358899999999999999997654    445555443

>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=96.07  E-value=0.0021  Score=59.47  Aligned_cols=28  Identities=29%  Similarity=0.390  Sum_probs=24.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|.|.|++|+||||+++.|+. +|.+++.
T Consensus         6 ~I~i~G~~GSGKST~~~~L~~-lg~~~id   33 (218)
T 1vht_A            6 IVALTGGIGSGKSTVANAFAD-LGINVID   33 (218)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH-TTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHH-cCCEEEE
Confidence            588999999999999999998 8776553

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.06  E-value=0.0024  Score=57.47  Aligned_cols=25  Identities=16%  Similarity=0.482  Sum_probs=21.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +-+.|+||+|+||||+++.|+..+.
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            3488999999999999999998763

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.06  E-value=0.0016  Score=65.26  Aligned_cols=28  Identities=25%  Similarity=0.452  Sum_probs=24.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .|+|.||+|||||+|+..||..++..++
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l~~eiI   69 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHFPLEVI   69 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTSCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHCCCcEE
Confidence            5889999999999999999999976543

>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=96.05  E-value=0.0019  Score=62.82  Aligned_cols=29  Identities=38%  Similarity=0.561  Sum_probs=24.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh-CCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS-GLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l-~~~~~  416 (466)
                      ..|+|.|+||+||||+++.|+..+ |..++
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            358899999999999999999864 65544

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.04  E-value=0.0044  Score=57.05  Aligned_cols=25  Identities=24%  Similarity=0.501  Sum_probs=22.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..+.|.||+|+|||||++.|+..+.
T Consensus        23 ~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           23 QLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4578999999999999999998874

>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=96.03  E-value=0.0018  Score=59.48  Aligned_cols=28  Identities=18%  Similarity=0.235  Sum_probs=23.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh-CCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS-GLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l-~~~~  415 (466)
                      ..+.|+||||+||||+++.|+..+ +..+
T Consensus        22 ~~i~i~G~~GsGKSTl~~~L~~~~~~~~~   50 (207)
T 2qt1_A           22 FIIGISGVTNSGKTTLAKNLQKHLPNCSV   50 (207)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTTSTTEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCcEE
Confidence            357899999999999999999986 4443

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.01  E-value=0.0024  Score=58.12  Aligned_cols=23  Identities=26%  Similarity=0.534  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+.|+||+|+||||+++.|+..+
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            47899999999999999999875

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.92  E-value=0.0048  Score=56.51  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=21.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|+||||+++.|+..+
T Consensus        23 ~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A           23 LVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            458899999999999999999876

>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=95.91  E-value=0.0021  Score=58.66  Aligned_cols=23  Identities=43%  Similarity=0.652  Sum_probs=19.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      +++++++|||+|||+++-.++..
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~   71 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKD   71 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHH
Confidence            36999999999999988777654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.90  E-value=0.003  Score=57.98  Aligned_cols=24  Identities=25%  Similarity=0.657  Sum_probs=21.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.+.|+||+|+||||+++.|...+
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            458999999999999999998865

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=95.89  E-value=0.008  Score=58.93  Aligned_cols=33  Identities=24%  Similarity=0.271  Sum_probs=25.1

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      ...+.|+|++|+||||++..||..+   +..+..+.
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~  133 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA  133 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence            3467788999999999999998776   44444433

>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=95.85  E-value=0.0029  Score=62.67  Aligned_cols=29  Identities=24%  Similarity=0.516  Sum_probs=24.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .-++|+||||+|||+|+..|+..++..++
T Consensus        11 ~~i~i~GptgsGKt~la~~La~~~~~~ii   39 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRKILPVELI   39 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEE
T ss_pred             cEEEEECCCccCHHHHHHHHHHhCCCcEE
Confidence            35788999999999999999999875443

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.83  E-value=0.0031  Score=64.94  Aligned_cols=29  Identities=24%  Similarity=0.327  Sum_probs=24.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .-|+|+|+||+||||+++.|+..+++.++
T Consensus       259 ~lIil~G~pGSGKSTla~~L~~~~~~~~i  287 (416)
T 3zvl_A          259 EVVVAVGFPGAGKSTFIQEHLVSAGYVHV  287 (416)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTGGGTCEEC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhcCcEEE
Confidence            45889999999999999999998876544

>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=95.81  E-value=0.009  Score=61.59  Aligned_cols=24  Identities=25%  Similarity=0.380  Sum_probs=22.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .++|+||+|+||||+.+++...+.
T Consensus       169 ii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             eEEEECCCCCCHHHHHHHHHhhcC
Confidence            589999999999999999998874

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.78  E-value=0.0078  Score=62.31  Aligned_cols=33  Identities=24%  Similarity=0.327  Sum_probs=25.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh----CCcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~  420 (466)
                      .-++|+|+||+|||+|+..++...    |.+++.++.
T Consensus       201 ~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~sl  237 (444)
T 2q6t_A          201 SLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL  237 (444)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            358899999999999999987654    445555443

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.77  E-value=0.003  Score=61.41  Aligned_cols=29  Identities=24%  Similarity=0.275  Sum_probs=24.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|.|+|+|||||||+++.|+ .+|.+++.
T Consensus        76 ~iI~I~G~~GSGKSTva~~La-~lg~~~id  104 (281)
T 2f6r_A           76 YVLGLTGISGSGKSSVAQRLK-NLGAYIID  104 (281)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH-HHTCEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHH-HCCCcEEe
Confidence            358899999999999999999 57776543

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=95.77  E-value=0.0092  Score=61.63  Aligned_cols=36  Identities=22%  Similarity=0.248  Sum_probs=27.9

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      ++..++|+||+|+||||++..||..+   |..+..+.++
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D  135 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAAD  135 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeecc
Confidence            34568889999999999999999877   5555555543

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=95.74  E-value=0.0035  Score=57.90  Aligned_cols=28  Identities=18%  Similarity=0.247  Sum_probs=26.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .|.|.||+|||||++++.||..+|++|+
T Consensus         8 iI~i~g~~GsGk~ti~~~la~~lg~~~~   35 (201)
T 3fdi_A            8 IIAIGREFGSGGHLVAKKLAEHYNIPLY   35 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTTCCEE
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCcCEE
Confidence            4789999999999999999999999876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.71  E-value=0.0031  Score=57.80  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=22.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..+.|.||+|+||||+++.|+..++
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3578999999999999999999876

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.70  E-value=0.0033  Score=66.59  Aligned_cols=25  Identities=20%  Similarity=0.171  Sum_probs=22.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .+++|+||+|+||||+.++|+..+.
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3599999999999999999998873

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.69  E-value=0.0042  Score=57.27  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=22.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..++|.|+||+||||+++.|+..++
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4588999999999999999998764

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.64  E-value=0.0035  Score=62.88  Aligned_cols=26  Identities=31%  Similarity=0.503  Sum_probs=23.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      .|+|.||||+|||+++..|+..++..
T Consensus         9 lI~I~GptgSGKTtla~~La~~l~~~   34 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAKKFNGE   34 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTEE
T ss_pred             eEEEECCCcCcHHHHHHHHHHHcCCc
Confidence            58899999999999999999998743

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=95.59  E-value=0.0077  Score=56.39  Aligned_cols=68  Identities=16%  Similarity=0.135  Sum_probs=39.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchh-HHH------------HHHHHHHhhhhhccCceEEEec
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGA-QAV------------TKIHEIFDWAKKSKKGLLLFID  453 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~-e~~------------~~l~~lf~~A~~~~~~~iLflD  453 (466)
                      .++|||.|+|||+.+-.++...   |..++.+...--..++. ...            .....+++.+.  .+.++|+||
T Consensus        31 ~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d~R~ge~~i~s~~g~~~~a~~~~~~~~~~~~~~--~~~dvViID  108 (214)
T 2j9r_A           31 EVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSASKDIFKHIT--EEMDVIAID  108 (214)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC-----------------CCEEECSSGGGGGGGCC--SSCCEEEEC
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCCcchHHHHHhhcCCeeEEeecCCHHHHHHHHh--cCCCEEEEE
Confidence            5689999999999887776665   66666654211000110 000            11123444443  237899999


Q ss_pred             cccccc
Q 012305          454 EADAFL  459 (466)
Q Consensus       454 Eid~l~  459 (466)
                      |+.-|.
T Consensus       109 EaQF~~  114 (214)
T 2j9r_A          109 EVQFFD  114 (214)
T ss_dssp             CGGGSC
T ss_pred             CcccCC
Confidence            998764

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=95.59  E-value=0.013  Score=62.15  Aligned_cols=44  Identities=14%  Similarity=0.203  Sum_probs=32.4

Q ss_pred             eeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHH
Q 012305          361 ILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       361 Vg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~  409 (466)
                      +|.+.....|...+..-.     ....+.|.|+|++|+|||+||+.+++
T Consensus       131 ~GR~~~~~~l~~~L~~~~-----~~~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMC-----DLDSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHT-----TSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhccc-----CCCceEEEEEcCCCCCHHHHHHHHHH
Confidence            488877777776553211     11235688999999999999999996

>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=95.54  E-value=0.0037  Score=62.03  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=23.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      -|+|.||||||||+++..|+..++..
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~~~   30 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLNGE   30 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTEE
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCccc
Confidence            47889999999999999999988653

>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=95.51  E-value=0.0057  Score=56.58  Aligned_cols=25  Identities=12%  Similarity=0.503  Sum_probs=22.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +-++|+||+|+|||+|++.|.....
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECcCCCCHHHHHHHHHhhCC
Confidence            4588999999999999999998764

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.44  E-value=0.0056  Score=58.00  Aligned_cols=29  Identities=31%  Similarity=0.499  Sum_probs=25.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +-|.||||+||||+++.|+..+|.+++.+
T Consensus        11 ~~~~G~pGsGKsT~a~~L~~~~g~~~is~   39 (230)
T 3gmt_A           11 LILLGAPGAGKGTQANFIKEKFGIPQIST   39 (230)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCCEECH
T ss_pred             eeeECCCCCCHHHHHHHHHHHhCCCeeec
Confidence            67899999999999999999998776543

>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=95.41  E-value=0.0049  Score=63.16  Aligned_cols=28  Identities=21%  Similarity=0.408  Sum_probs=24.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      ..|+|.||||+|||+|+..|+..++..+
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~~~i   30 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFNGEV   30 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHTEEE
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCCCeE
Confidence            3578999999999999999999987554

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.40  E-value=0.0049  Score=55.06  Aligned_cols=18  Identities=28%  Similarity=0.636  Sum_probs=16.4

Q ss_pred             cccccCCCCCCchHHHHH
Q 012305          389 NMLFYGPPGTGKTMVARE  406 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~a  406 (466)
                      -+.|+||+|+||||+++.
T Consensus        11 i~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEEECCTTSCHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            488999999999999994

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.35  E-value=0.0068  Score=61.15  Aligned_cols=25  Identities=24%  Similarity=0.480  Sum_probs=22.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..++|+||+|+||||+.++|+....
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3699999999999999999998873

>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=95.35  E-value=0.014  Score=53.25  Aligned_cols=24  Identities=25%  Similarity=0.479  Sum_probs=21.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+|+|+|++|+|||+|+..|....
T Consensus        13 ~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           13 PSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            479999999999999999998754

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.30  E-value=0.0068  Score=56.45  Aligned_cols=24  Identities=21%  Similarity=0.513  Sum_probs=21.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|+|||||++.|+...
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            348899999999999999999876

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.30  E-value=0.006  Score=66.25  Aligned_cols=22  Identities=45%  Similarity=0.739  Sum_probs=17.0

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .||.||||||||+++-.+...+
T Consensus       208 ~lI~GPPGTGKT~ti~~~I~~l  229 (646)
T 4b3f_X          208 AIIHGPPGTGKTTTVVEIILQA  229 (646)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            7899999999998765554433

>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=95.29  E-value=0.0057  Score=56.76  Aligned_cols=25  Identities=28%  Similarity=0.468  Sum_probs=22.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +.|+|.||||+|||++|..|+...+
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g~   59 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRGH   59 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTTC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhCC
Confidence            4699999999999999999998763

>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=95.28  E-value=0.012  Score=57.67  Aligned_cols=25  Identities=28%  Similarity=0.491  Sum_probs=22.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .-|.|.||+|+||||+++.|+..++
T Consensus        32 ~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           32 LFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4578999999999999999988874

>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=95.26  E-value=0.0065  Score=55.83  Aligned_cols=23  Identities=26%  Similarity=0.520  Sum_probs=21.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+||||+++.|+..+
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            47899999999999999999876

>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=95.26  E-value=0.0099  Score=62.00  Aligned_cols=25  Identities=24%  Similarity=0.511  Sum_probs=22.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..|+|+|.||+|||++++.|+..++
T Consensus        40 ~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           40 TLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3689999999999999999999874

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.25  E-value=0.0088  Score=55.74  Aligned_cols=33  Identities=33%  Similarity=0.385  Sum_probs=24.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh----CCcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS----GLDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~  420 (466)
                      ..++|+|+||+|||+||..++.+.    +.+++.++.
T Consensus        31 ~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~   67 (251)
T 2zts_A           31 TTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTL   67 (251)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecc
Confidence            358899999999999998876442    555555443

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=95.25  E-value=0.015  Score=59.39  Aligned_cols=24  Identities=38%  Similarity=0.600  Sum_probs=21.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||||||||++++.|++..
T Consensus       175 Qr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          175 QRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             CEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             cEEEEecCCCCChhHHHHHHHHHH
Confidence            369999999999999999998865

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.23  E-value=0.0071  Score=57.18  Aligned_cols=26  Identities=23%  Similarity=0.300  Sum_probs=22.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      -+.|.||+|+||||+++.|+..+|..
T Consensus        27 iigI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           27 LIGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhchh
Confidence            47799999999999999999987743

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=95.20  E-value=0.014  Score=60.83  Aligned_cols=23  Identities=26%  Similarity=0.573  Sum_probs=20.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|+||||||||+|+..|+...
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~  175 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNI  175 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCccHHHHHHHhhh
Confidence            58999999999999999987665

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.19  E-value=0.004  Score=60.95  Aligned_cols=24  Identities=17%  Similarity=0.249  Sum_probs=18.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      -|.|.||+|+||||+++.|+..++
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            377999999999999999998775

>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=95.18  E-value=0.0031  Score=57.69  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhhC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      |.|.|++|+||||+++.|+..++
T Consensus         3 I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            78999999999999999999883

>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=95.15  E-value=0.0077  Score=53.52  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=21.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||.|+|||||.+.|+..+
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            48899999999999999999987

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.14  E-value=0.015  Score=58.14  Aligned_cols=33  Identities=15%  Similarity=0.180  Sum_probs=25.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      .-++|.|+||+|||+|+..++...   |.+++.++.
T Consensus        47 ~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSl   82 (338)
T 4a1f_A           47 SLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSL   82 (338)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            358899999999999999997764   555555543

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=95.10  E-value=0.013  Score=54.03  Aligned_cols=16  Identities=38%  Similarity=0.480  Sum_probs=14.5

Q ss_pred             ccccccCCCCCCchHH
Q 012305          388 RNMLFYGPPGTGKTMV  403 (466)
Q Consensus       388 ~~vLl~GppGTGKT~l  403 (466)
                      +++++++|||+|||..
T Consensus        52 ~~~lv~~pTGsGKT~~   67 (224)
T 1qde_A           52 HDVLAQAQSGTGKTGT   67 (224)
T ss_dssp             CCEEEECCTTSSHHHH
T ss_pred             CCEEEECCCCCcHHHH
Confidence            4699999999999986

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.07  E-value=0.014  Score=57.55  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=22.2

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ...++|+||+|+||||+++.|+..+
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3468899999999999999999876

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.03  E-value=0.014  Score=58.92  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=22.4

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ...++|+||+|+||||+++.|+..+
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhc
Confidence            3568899999999999999999876

>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=95.03  E-value=0.0089  Score=56.27  Aligned_cols=24  Identities=38%  Similarity=0.573  Sum_probs=22.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      -|+|.||||+||||+++.|+..++
T Consensus        28 ~i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           28 FITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHh
Confidence            488999999999999999999986

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.02  E-value=0.018  Score=57.46  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||||+|||||.+.|+..+
T Consensus        57 ~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           57 RVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            58899999999999999998765

>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=95.01  E-value=0.0083  Score=58.21  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|+||||+|||+|++.|+..+
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            58899999999999999998765

>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=95.00  E-value=0.014  Score=57.76  Aligned_cols=24  Identities=21%  Similarity=0.133  Sum_probs=21.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|.||+|+|||||++.|+..+
T Consensus        91 ~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           91 FIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEECCCCchHHHHHHHHHhhc
Confidence            457799999999999999999876

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=95.00  E-value=0.032  Score=70.06  Aligned_cols=91  Identities=16%  Similarity=0.285  Sum_probs=64.0

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHHHHHHH
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIF  438 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~l~~lf  438 (466)
                      ++|.-.++.+.|..+.+.+..      |..|+||+|..|+||+++++..|...|+.++.+....- +...+-...++.++
T Consensus      1624 ~LVlF~daleHv~RI~RIL~q------p~GhaLLVGvgGSGkqSLtrLAa~i~~~~vfqi~i~k~-Y~~~~f~eDLk~l~ 1696 (3245)
T 3vkg_A         1624 PLVLFNEVLDHILRIDRVFRQ------PQGHALLIGVSGGGKSVLSRFVAWMNGLSIYTIKVNNN-YKSSDFDDDLRMLL 1696 (3245)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTS------TTCCEEEEESTTSSHHHHHHHHHHHTTCEEECCC-----CCHHHHHHHHHHHH
T ss_pred             eEEeHHHHHHHHHHHHHHHcc------CCCCeEEecCCCCcHHHHHHHHHHHhCCeeEEEeeeCC-CCHHHHHHHHHHHH
Confidence            455666666666666555543      44579999999999999999999999999888765431 22233345688888


Q ss_pred             hhhhhccCceEEEecccc
Q 012305          439 DWAKKSKKGLLLFIDEAD  456 (466)
Q Consensus       439 ~~A~~~~~~~iLflDEid  456 (466)
                      ..|-..+.+.+++|+|-.
T Consensus      1697 ~~aG~~~~~~vFL~tD~q 1714 (3245)
T 3vkg_A         1697 KRAGCKEEKICFIFDESN 1714 (3245)
T ss_dssp             HHHHTSCCCEEEEEEGGG
T ss_pred             HHHhcCCCCEEEEEeccc
Confidence            888666667888887754

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=94.99  E-value=0.016  Score=55.65  Aligned_cols=24  Identities=21%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+|.|.|+||+|||+|...|....
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999997653

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.97  E-value=0.017  Score=55.13  Aligned_cols=24  Identities=21%  Similarity=0.396  Sum_probs=21.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+|+|.|++|+|||+|..+|...-
T Consensus        37 ~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           37 MTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            479999999999999999997643

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.95  E-value=0.0065  Score=56.75  Aligned_cols=23  Identities=30%  Similarity=0.599  Sum_probs=14.8

Q ss_pred             cccccCCCCCCchHHHHHHH-Hhh
Q 012305          389 NMLFYGPPGTGKTMVAREIA-RKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA-~~l  411 (466)
                      -+.|+||+|+||||+++.|+ ..+
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCC
Confidence            47899999999999999999 765

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=94.94  E-value=0.017  Score=52.34  Aligned_cols=18  Identities=33%  Similarity=0.388  Sum_probs=15.2

Q ss_pred             ccccccCCCCCCchHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~  405 (466)
                      +++++.+|||+|||..+-
T Consensus        41 ~~~lv~apTGsGKT~~~~   58 (206)
T 1vec_A           41 RDILARAKNGTGKSGAYL   58 (206)
T ss_dssp             CCEEEECCSSSTTHHHHH
T ss_pred             CCEEEECCCCCchHHHHH
Confidence            469999999999997544

>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=94.93  E-value=0.0084  Score=64.86  Aligned_cols=32  Identities=22%  Similarity=0.344  Sum_probs=27.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      ..|+|+|+||+||||+++.|+..+   |.+++.++
T Consensus        53 ~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lD   87 (630)
T 1x6v_B           53 CTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   87 (630)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEES
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEec
Confidence            468999999999999999999998   88776654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=94.92  E-value=0.043  Score=62.63  Aligned_cols=44  Identities=23%  Similarity=0.286  Sum_probs=33.4

Q ss_pred             eeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHh
Q 012305          360 IILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .||.+.....|...+....       +.+.+.|+||+|+|||+||+.+++.
T Consensus       130 ~VGRe~eLeeL~elL~~~d-------~~RVV~IvGmGGIGKTTLAk~Vy~d  173 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELR-------PAKNVLIDGVLGSGKTWVALDVCLS  173 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCC-------SSCEEEECCSTTSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccC-------CCeEEEEEcCCCccHHHHHHHHHHh
Confidence            3788888888877654311       1346889999999999999999853

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=94.91  E-value=0.0089  Score=56.27  Aligned_cols=29  Identities=17%  Similarity=0.348  Sum_probs=25.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|.|.|++|||||++++.||..+|.+|+-
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            47789999999999999999999887643

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=94.89  E-value=0.017  Score=54.18  Aligned_cols=18  Identities=28%  Similarity=0.335  Sum_probs=15.2

Q ss_pred             ccccccCCCCCCchHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~  405 (466)
                      +++++.+|||+|||+..-
T Consensus        67 ~~~l~~apTGsGKT~~~~   84 (242)
T 3fe2_A           67 LDMVGVAQTGSGKTLSYL   84 (242)
T ss_dssp             CCEEEEECTTSCHHHHHH
T ss_pred             CCEEEECCCcCHHHHHHH
Confidence            369999999999998643

>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=94.88  E-value=0.011  Score=53.30  Aligned_cols=31  Identities=16%  Similarity=0.175  Sum_probs=24.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      .+.|.|++|+|||+++..|+..+   |+.+..+.
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            57899999999999999998876   45555444

>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=94.84  E-value=0.011  Score=55.38  Aligned_cols=25  Identities=16%  Similarity=0.384  Sum_probs=22.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .-+.|.||+|+|||||.+.|+....
T Consensus        17 ~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           17 TLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCC
Confidence            4588999999999999999988764

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=94.83  E-value=0.02  Score=59.05  Aligned_cols=26  Identities=27%  Similarity=0.231  Sum_probs=21.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      ++|++||+|+|||.++-.++...+..
T Consensus       110 ~~ll~~~TGsGKT~~~l~~i~~~~~~  135 (472)
T 2fwr_A          110 RGCIVLPTGSGKTHVAMAAINELSTP  135 (472)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCSC
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCC
Confidence            49999999999999987777666544

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=94.78  E-value=0.015  Score=58.99  Aligned_cols=20  Identities=25%  Similarity=0.454  Sum_probs=15.9

Q ss_pred             ccccccCCCCCCchHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREI  407 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~al  407 (466)
                      +++++.+|||+|||++.-..
T Consensus        37 ~~~lv~apTGsGKT~~~l~~   56 (414)
T 3oiy_A           37 KSFTMVAPTGVGKTTFGMMT   56 (414)
T ss_dssp             CCEECCSCSSSSHHHHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHHH
Confidence            36999999999999954433

>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=94.77  E-value=0.012  Score=57.95  Aligned_cols=25  Identities=32%  Similarity=0.373  Sum_probs=22.2

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ...+.|+||+||||||+++.|+..+
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            3468899999999999999999876

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.75  E-value=0.012  Score=58.16  Aligned_cols=24  Identities=33%  Similarity=0.649  Sum_probs=22.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|+|||||++.|+..+
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhhhc
Confidence            458899999999999999999887

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=94.71  E-value=0.019  Score=53.19  Aligned_cols=18  Identities=28%  Similarity=0.438  Sum_probs=15.1

Q ss_pred             ccccccCCCCCCchHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~  405 (466)
                      +++++.+|+|+|||+..-
T Consensus        58 ~~~l~~apTGsGKT~~~~   75 (228)
T 3iuy_A           58 IDLIVVAQTGTGKTLSYL   75 (228)
T ss_dssp             CCEEEECCTTSCHHHHHH
T ss_pred             CCEEEECCCCChHHHHHH
Confidence            369999999999998543

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.66  E-value=0.011  Score=57.01  Aligned_cols=24  Identities=29%  Similarity=0.432  Sum_probs=20.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||||+|||+|+..++..+
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            358899999999999999998654

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=94.61  E-value=0.018  Score=59.22  Aligned_cols=17  Identities=29%  Similarity=0.311  Sum_probs=15.3

Q ss_pred             ccccccCCCCCCchHHH
Q 012305          388 RNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA  404 (466)
                      +++|++||+|+|||+.+
T Consensus         3 ~~~lv~a~TGsGKT~~~   19 (431)
T 2v6i_A            3 ELTVLDLHPGAGKTRRV   19 (431)
T ss_dssp             CEEEEECCTTSCTTTTH
T ss_pred             CEEEEEcCCCCCHHHHH
Confidence            47999999999999975

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=94.57  E-value=0.0079  Score=62.35  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=18.9

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      +-.+++|+||||||+++..++.
T Consensus       162 ~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          162 KVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             EEEEEEECTTSCHHHHHHHHCC
T ss_pred             cEEEEEcCCCCCHHHHHHHHhc
Confidence            4578999999999999988765

>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=94.56  E-value=0.025  Score=52.84  Aligned_cols=24  Identities=21%  Similarity=0.457  Sum_probs=21.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..|+|+|+||+|||+|...|....
T Consensus        30 ~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           30 LRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             eEEEEECCCCCCHHHHHHHHcCCC
Confidence            479999999999999999997643

>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=94.55  E-value=0.015  Score=54.53  Aligned_cols=17  Identities=29%  Similarity=0.391  Sum_probs=14.8

Q ss_pred             ccccccCCCCCCchHHH
Q 012305          388 RNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA  404 (466)
                      +++++++|||+|||+..
T Consensus        68 ~~~li~apTGsGKT~~~   84 (237)
T 3bor_A           68 YDVIAQAQSGTGKTATF   84 (237)
T ss_dssp             CCEEECCCSSHHHHHHH
T ss_pred             CCEEEECCCCCcHHHHH
Confidence            46999999999999864

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=94.54  E-value=0.023  Score=53.84  Aligned_cols=18  Identities=28%  Similarity=0.394  Sum_probs=15.3

Q ss_pred             ccccccCCCCCCchHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~  405 (466)
                      +++++.+|+|+|||+..-
T Consensus        81 ~~~lv~a~TGsGKT~~~~   98 (249)
T 3ber_A           81 RDIIGLAETGSGKTGAFA   98 (249)
T ss_dssp             CCEEEECCTTSCHHHHHH
T ss_pred             CCEEEEcCCCCCchhHhH
Confidence            469999999999998643

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=94.51  E-value=0.026  Score=53.88  Aligned_cols=18  Identities=33%  Similarity=0.519  Sum_probs=15.3

Q ss_pred             ccccccCCCCCCchHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~  405 (466)
                      +++|+.+|+|+|||+.+-
T Consensus        92 ~~~lv~a~TGsGKT~~~~  109 (262)
T 3ly5_A           92 RDLLAAAKTGSGKTLAFL  109 (262)
T ss_dssp             CCCEECCCTTSCHHHHHH
T ss_pred             CcEEEEccCCCCchHHHH
Confidence            469999999999998643

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=94.47  E-value=0.018  Score=55.43  Aligned_cols=22  Identities=18%  Similarity=0.413  Sum_probs=18.1

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      +.|+++|+|+|||.++-.++..
T Consensus       130 ~~ll~~~tGsGKT~~~~~~~~~  151 (282)
T 1rif_A          130 RRILNLPTSAGRSLIQALLARY  151 (282)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHH
T ss_pred             CeEEEcCCCCCcHHHHHHHHHH
Confidence            4678999999999998776654

>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=94.47  E-value=0.023  Score=53.00  Aligned_cols=23  Identities=26%  Similarity=0.414  Sum_probs=21.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -|.|.|++|+||||+++.|+..+
T Consensus         8 ~i~~eG~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A            8 FVTLEGPEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            47789999999999999999888

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.45  E-value=0.05  Score=54.45  Aligned_cols=24  Identities=25%  Similarity=0.443  Sum_probs=21.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..|.|+|+||+|||||...|...+
T Consensus        75 ~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           75 FRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            358899999999999999998754

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.44  E-value=0.018  Score=55.15  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|++.|++|+|||+|...|...
T Consensus        40 ~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           40 LTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999999754

>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=94.42  E-value=0.02  Score=55.91  Aligned_cols=18  Identities=33%  Similarity=0.412  Sum_probs=15.4

Q ss_pred             cccccccCCCCCCchHHH
Q 012305          387 FRNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA  404 (466)
                      .+++++++|+|||||+..
T Consensus       131 ~~~~l~~a~TGsGKT~a~  148 (300)
T 3fmo_B          131 PQNLIAQSQSGTGKTAAF  148 (300)
T ss_dssp             CCCEEEECCTTSSHHHHH
T ss_pred             CCeEEEECCCCCCccHHH
Confidence            367999999999999753

>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=94.41  E-value=0.011  Score=62.74  Aligned_cols=26  Identities=23%  Similarity=0.493  Sum_probs=22.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      ..|+|+|.||+|||++++.|+..++.
T Consensus        36 ~lIvlvGlpGSGKSTia~~La~~L~~   61 (520)
T 2axn_A           36 TVIVMVGLPARGKTYISKKLTRYLNW   61 (520)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            35889999999999999999998843

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=94.38  E-value=0.034  Score=49.52  Aligned_cols=23  Identities=13%  Similarity=0.325  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|+|++|+|||+|...|...
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           24 PEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46999999999999999999754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.31  E-value=0.016  Score=53.88  Aligned_cols=22  Identities=36%  Similarity=0.495  Sum_probs=19.9

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .+.|.||+|+|||||.+.|+..
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999875

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=94.29  E-value=0.028  Score=55.07  Aligned_cols=22  Identities=23%  Similarity=0.137  Sum_probs=17.4

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      +++++.+|||+|||+.+-..+-
T Consensus        45 ~~~l~~~~TGsGKT~~~~~~~~   66 (367)
T 1hv8_A           45 YNIVAQARTGSGKTASFAIPLI   66 (367)
T ss_dssp             SEEEEECCSSSSHHHHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHHHHHH
Confidence            3699999999999997655443

>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=94.28  E-value=0.031  Score=51.27  Aligned_cols=21  Identities=29%  Similarity=0.281  Sum_probs=17.0

Q ss_pred             ccccccCCCCCCchHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIA  408 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA  408 (466)
                      +++++.+|+|+|||..+-..+
T Consensus        52 ~~~li~~~TGsGKT~~~~~~~   72 (220)
T 1t6n_A           52 MDVLCQAKSGMGKTAVFVLAT   72 (220)
T ss_dssp             CCEEEECCTTSCHHHHHHHHH
T ss_pred             CCEEEECCCCCchhhhhhHHH
Confidence            469999999999998665544

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.26  E-value=0.025  Score=53.32  Aligned_cols=23  Identities=26%  Similarity=0.297  Sum_probs=18.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -|.|.||+|+||||+++.|+..+
T Consensus        27 ~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           27 FITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             EEEEECCC---CHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37889999999999999999887

>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=94.26  E-value=0.017  Score=51.52  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=21.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      -.+|+||+|+|||++..+|+-.++
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            478999999999999999987664

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=94.25  E-value=0.032  Score=55.29  Aligned_cols=20  Identities=40%  Similarity=0.453  Sum_probs=16.4

Q ss_pred             ccccccCCCCCCchHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREI  407 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~al  407 (466)
                      +++++.+|||+|||+.+-..
T Consensus        45 ~~~lv~a~TGsGKT~~~~~~   64 (395)
T 3pey_A           45 RNMIAQSQSGTGKTAAFSLT   64 (395)
T ss_dssp             CCEEEECCTTSCHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHH
Confidence            57999999999999865433

>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=94.25  E-value=0.014  Score=57.38  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .+.|.||+|+|||||++.|+..++
T Consensus        82 iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           82 IISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            477999999999999999998765

>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=94.25  E-value=0.012  Score=53.73  Aligned_cols=31  Identities=16%  Similarity=0.232  Sum_probs=25.7

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhcCC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMTGG  421 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~  421 (466)
                      +|++|++|+|||++|..++.. +.+++++.-+
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~~~~yiaT~   32 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-APQVLYIATS   32 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSEEEEECC
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CCCeEEEecC
Confidence            689999999999999999987 7776655543

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.23  E-value=0.036  Score=55.06  Aligned_cols=24  Identities=17%  Similarity=0.174  Sum_probs=21.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      -+.|.||+||||||+++.|+..++
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            477899999999999999998874

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=94.22  E-value=0.033  Score=62.99  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=19.2

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      ..++|+||+|+||||+.+.++.
T Consensus       663 ~i~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          663 MFHIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999999943

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=94.21  E-value=0.064  Score=59.53  Aligned_cols=21  Identities=43%  Similarity=0.536  Sum_probs=17.3

Q ss_pred             ccccccCCCCCCchHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIA  408 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA  408 (466)
                      .++|+.||+|+|||.++-..+
T Consensus       390 ~~~Ll~a~TGSGKTlvall~i  410 (780)
T 1gm5_A          390 MNRLLQGDVGSGKTVVAQLAI  410 (780)
T ss_dssp             CCCEEECCSSSSHHHHHHHHH
T ss_pred             CcEEEEcCCCCCHHHHHHHHH
Confidence            479999999999999765543

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=94.20  E-value=0.039  Score=60.34  Aligned_cols=19  Identities=37%  Similarity=0.749  Sum_probs=16.4

Q ss_pred             ccccccCCCCCCchHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVARE  406 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~a  406 (466)
                      .+++++||||+|||+.+-.
T Consensus        47 ~~~lv~apTGsGKT~~~~l   65 (715)
T 2va8_A           47 NRLLLTSPTGSGKTLIAEM   65 (715)
T ss_dssp             CCEEEECCTTSCHHHHHHH
T ss_pred             CcEEEEcCCCCcHHHHHHH
Confidence            4799999999999998743

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=94.18  E-value=0.027  Score=61.69  Aligned_cols=17  Identities=41%  Similarity=0.681  Sum_probs=15.5

Q ss_pred             ccccccCCCCCCchHHH
Q 012305          388 RNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA  404 (466)
                      .+++++||||+|||+.+
T Consensus        40 ~~~lv~apTGsGKT~~~   56 (720)
T 2zj8_A           40 KNALISIPTASGKTLIA   56 (720)
T ss_dssp             CEEEEECCGGGCHHHHH
T ss_pred             CcEEEEcCCccHHHHHH
Confidence            47999999999999877

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=94.12  E-value=0.036  Score=58.53  Aligned_cols=26  Identities=0%  Similarity=-0.092  Sum_probs=23.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      ..|+|.|++||||||++++|+..++.
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            36899999999999999999999975

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.03  E-value=0.017  Score=55.76  Aligned_cols=23  Identities=22%  Similarity=0.530  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ++.|.||+|+|||||.+.|+...
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            58899999999999999998765

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=93.98  E-value=0.04  Score=54.94  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=21.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+|+||+|||+++..|+..+
T Consensus        57 ~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           57 LRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHH
Confidence            458899999999999999998765

>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=93.97  E-value=0.02  Score=51.68  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=20.3

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .++|.||+|+|||+|.+.++..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5899999999999999999875

>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=93.96  E-value=0.051  Score=56.14  Aligned_cols=18  Identities=33%  Similarity=0.412  Sum_probs=15.6

Q ss_pred             cccccccCCCCCCchHHH
Q 012305          387 FRNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA  404 (466)
                      .+++|++||+|+|||+..
T Consensus       131 ~~~~l~~a~TGsGKT~~~  148 (479)
T 3fmp_B          131 PQNLIAQSQSGTGKTAAF  148 (479)
T ss_dssp             CCEEEEECCSSSSHHHHH
T ss_pred             CCcEEEEcCCCCchhHHH
Confidence            357999999999999874

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.93  E-value=0.021  Score=48.87  Aligned_cols=23  Identities=22%  Similarity=0.511  Sum_probs=20.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|++.|++|+|||+|+..+....
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999997653

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.90  E-value=0.062  Score=49.27  Aligned_cols=30  Identities=23%  Similarity=0.344  Sum_probs=24.5

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      |.|-|+-||||||.++.|+..+   |.+++.+.
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~tr   35 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKR   35 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            5677999999999999999888   66665544

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=93.89  E-value=0.0099  Score=56.73  Aligned_cols=28  Identities=11%  Similarity=0.214  Sum_probs=23.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh-CCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS-GLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l-~~~~  415 (466)
                      ..|+|.|++|+||||+++.|+..+ +..+
T Consensus        25 ~~I~ieG~~GsGKST~~~~L~~~l~~~~~   53 (263)
T 1p5z_B           25 KKISIEGNIAAGKSTFVNILKQLCEDWEV   53 (263)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTTEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            458899999999999999999998 4433

>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=93.89  E-value=0.023  Score=51.31  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -++|.||+|+|||+++..|...+
T Consensus         8 ~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            8 LLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhc
Confidence            58899999999999999998765

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=93.87  E-value=0.014  Score=57.88  Aligned_cols=64  Identities=11%  Similarity=0.058  Sum_probs=41.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CC-c--chhhcCCCcccchhHHHHHHHHHHhhhhh---ccCceEEEeccccc-
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GL-D--YAMMTGGDVAPLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADA-  457 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~-~--~~~v~~~~l~~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~-  457 (466)
                      ..+|||||+|+||++.+..|+..+   +. +  ++.+++          ...++.+++.+..   .+.+.||+|||++. 
T Consensus        19 ~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~plf~~~kvvii~~~~~k   88 (343)
T 1jr3_D           19 AAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP----------NTDWNAIFSLCQAMSLFASRQTLLLLLPENG   88 (343)
T ss_dssp             SEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT----------TCCHHHHHHHHHHHHHCCSCEEEEEECCSSC
T ss_pred             cEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC----------CCCHHHHHHHhcCcCCccCCeEEEEECCCCC
Confidence            369999999999999999998865   21 2  122221          1223344444332   33467999999998 


Q ss_pred             cccc
Q 012305          458 FLCD  461 (466)
Q Consensus       458 l~~~  461 (466)
                      |..+
T Consensus        89 l~~~   92 (343)
T 1jr3_D           89 PNAA   92 (343)
T ss_dssp             CCTT
T ss_pred             CChH
Confidence            7543

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.86  E-value=0.019  Score=54.48  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=21.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|.||+|+|||||.+.|+...
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999999876

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=93.85  E-value=0.026  Score=63.68  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=19.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..++|+||+|+||||+.+.++..
T Consensus       674 ~i~~ItGPNGaGKSTlLr~i~~i  696 (918)
T 3thx_B          674 RVMIITGPNMGGKSSYIKQVALI  696 (918)
T ss_dssp             CEEEEESCCCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCchHHHHHHHHHH
Confidence            45889999999999999998743

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=93.85  E-value=0.039  Score=52.23  Aligned_cols=68  Identities=16%  Similarity=0.125  Sum_probs=36.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHHHH------------HHHHHHhhhhhccCceEEEec
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQAVT------------KIHEIFDWAKKSKKGLLLFID  453 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~~~------------~l~~lf~~A~~~~~~~iLflD  453 (466)
                      -.++|||.|+|||+.+-.++...   |..++.+...--..++....+            ....+++.+   ...++|+||
T Consensus        21 l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg~~i~sr~G~~~~a~~i~~~~di~~~~---~~~dvViID   97 (234)
T 2orv_A           21 IQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEA---LGVAVIGID   97 (234)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC-----------CEEEEESSGGGGHHHH---TTCSEEEES
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccchHHHHhhcCCeeEEEecCCHHHHHHHh---ccCCEEEEE
Confidence            36779999999997665554443   555554431100001100001            112233433   337899999


Q ss_pred             cccccc
Q 012305          454 EADAFL  459 (466)
Q Consensus       454 Eid~l~  459 (466)
                      |+.-|.
T Consensus        98 EaQF~~  103 (234)
T 2orv_A           98 EGQFFP  103 (234)
T ss_dssp             SGGGCT
T ss_pred             chhhhh
Confidence            998774

>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=93.85  E-value=0.016  Score=54.75  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            58899999999999999998765

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=93.83  E-value=0.022  Score=61.66  Aligned_cols=23  Identities=43%  Similarity=0.651  Sum_probs=18.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+|+.||||||||+++..+...+
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            48899999999999877775543

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=93.82  E-value=0.026  Score=55.61  Aligned_cols=33  Identities=21%  Similarity=0.151  Sum_probs=25.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      .-++|.|+||+|||+|+..++...   |.+++.++.
T Consensus        69 ~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~sl  104 (315)
T 3bh0_A           69 NFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  104 (315)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEES
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEEC
Confidence            358899999999999999998665   445555543

>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=93.81  E-value=0.041  Score=52.54  Aligned_cols=22  Identities=27%  Similarity=0.513  Sum_probs=20.0

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|+||||||+|...|...
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            6899999999999999999765

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.76  E-value=0.016  Score=54.37  Aligned_cols=23  Identities=17%  Similarity=0.268  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998765

>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus, hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A

Probab=93.76  E-value=0.014  Score=63.89  Aligned_cols=18  Identities=33%  Similarity=0.532  Sum_probs=15.2

Q ss_pred             ccccccCCCCCCchHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~  405 (466)
                      +++|++||||+|||+.+-
T Consensus       156 k~vlv~apTGSGKT~~al  173 (677)
T 3rc3_A          156 KIIFHSGPTNSGKTYHAI  173 (677)
T ss_dssp             EEEEEECCTTSSHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHH
Confidence            469999999999999543

>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=93.72  E-value=0.022  Score=51.28  Aligned_cols=23  Identities=22%  Similarity=0.517  Sum_probs=20.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|.||+|+|||+|.+.++...
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            58899999999999999998754

>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=93.72  E-value=0.024  Score=48.79  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|.|++|+|||+|+..+....
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            58999999999999999997643

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=93.71  E-value=0.069  Score=56.99  Aligned_cols=24  Identities=21%  Similarity=0.380  Sum_probs=20.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|+.|.||+|||++++.|...+
T Consensus       215 pHlLIaG~TGSGKS~~L~tlI~sL  238 (574)
T 2iut_A          215 PHLLVAGTTGSGKSVGVNAMLLSI  238 (574)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeeEEECCCCCCHHHHHHHHHHHH
Confidence            389999999999999999876544

>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=93.69  E-value=0.026  Score=48.43  Aligned_cols=23  Identities=17%  Similarity=0.433  Sum_probs=20.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .+|+|.|++|+|||+|...+...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            46999999999999999999764

>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=93.66  E-value=0.026  Score=48.40  Aligned_cols=22  Identities=18%  Similarity=0.437  Sum_probs=19.9

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|+||+|||+|...+...
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            6999999999999999998754

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=93.66  E-value=0.05  Score=52.38  Aligned_cols=22  Identities=23%  Similarity=0.468  Sum_probs=20.1

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      +|+|.|+||+|||+|..+|...
T Consensus         5 ~I~lvG~~n~GKSTLin~l~g~   26 (274)
T 3i8s_A            5 TIGLIGNPNSGKTTLFNQLTGS   26 (274)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999999764

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=93.66  E-value=0.053  Score=61.87  Aligned_cols=19  Identities=26%  Similarity=0.352  Sum_probs=15.6

Q ss_pred             ccccccCCCCCCchHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVARE  406 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~a  406 (466)
                      +++|++||||+|||+++..
T Consensus        55 ~~vlv~apTGsGKTlv~~~   73 (997)
T 4a4z_A           55 DSVFVAAHTSAGKTVVAEY   73 (997)
T ss_dssp             CEEEEECCTTSCSHHHHHH
T ss_pred             CCEEEEECCCCcHHHHHHH
Confidence            3699999999999986443

>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=93.61  E-value=0.019  Score=54.35  Aligned_cols=24  Identities=17%  Similarity=0.246  Sum_probs=21.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|+|||||.+.|+...
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358899999999999999998875

>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=93.61  E-value=0.025  Score=61.03  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=19.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.++++||||||||+++..+...+
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            359999999999999988776554

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.60  E-value=0.024  Score=53.19  Aligned_cols=23  Identities=13%  Similarity=0.263  Sum_probs=21.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|.|++|+||||+++.|+..+
T Consensus         4 ~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            4 RLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            48899999999999999999998

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=93.60  E-value=0.046  Score=54.60  Aligned_cols=20  Identities=35%  Similarity=0.326  Sum_probs=16.1

Q ss_pred             ccccccCCCCCCchHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREI  407 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~al  407 (466)
                      +++++.+|||+|||+.+-..
T Consensus        59 ~~~li~a~TGsGKT~~~~~~   78 (400)
T 1s2m_A           59 RDILARAKNGTGKTAAFVIP   78 (400)
T ss_dssp             CCEEEECCTTSCHHHHHHHH
T ss_pred             CCEEEECCCCcHHHHHHHHH
Confidence            36999999999999865443

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=93.57  E-value=0.05  Score=54.45  Aligned_cols=19  Identities=26%  Similarity=0.293  Sum_probs=15.6

Q ss_pred             ccccccCCCCCCchHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVARE  406 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~a  406 (466)
                      +++++.+|+|+|||+.+-.
T Consensus        78 ~~~lv~a~TGsGKT~~~~~   96 (414)
T 3eiq_A           78 YDVIAQAQSGTGKTATFAI   96 (414)
T ss_dssp             CCEEECCCSCSSSHHHHHH
T ss_pred             CCEEEECCCCCcccHHHHH
Confidence            3699999999999987433

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}

Probab=93.57  E-value=0.036  Score=63.91  Aligned_cols=20  Identities=30%  Similarity=0.371  Sum_probs=16.7

Q ss_pred             ccccccCCCCCCchHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREI  407 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~al  407 (466)
                      +++|++||||+|||+++-..
T Consensus       200 ~dvLV~ApTGSGKTlva~l~  219 (1108)
T 3l9o_A          200 ESVLVSAHTSAGKTVVAEYA  219 (1108)
T ss_dssp             CCEEEECCSSSHHHHHHHHH
T ss_pred             CCEEEECCCCCChHHHHHHH
Confidence            46999999999999876544

>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=93.50  E-value=0.025  Score=48.29  Aligned_cols=23  Identities=17%  Similarity=0.475  Sum_probs=20.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|++.|++|+|||+|+..+....
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            58999999999999999997653

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.50  E-value=0.02  Score=54.98  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998765

>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=93.48  E-value=0.028  Score=48.38  Aligned_cols=24  Identities=13%  Similarity=0.354  Sum_probs=20.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+|+|.|++|+|||+|...+....
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            369999999999999999997543

>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=93.48  E-value=0.021  Score=53.31  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998765

>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=93.45  E-value=0.029  Score=48.37  Aligned_cols=24  Identities=21%  Similarity=0.398  Sum_probs=20.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|.|++|+|||+|...+....
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            369999999999999999997654

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=93.44  E-value=0.06  Score=59.90  Aligned_cols=23  Identities=30%  Similarity=0.417  Sum_probs=20.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..++|+||+|+||||+.+.|+..
T Consensus       608 ~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          608 RMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHHH
Confidence            45889999999999999999865

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=93.43  E-value=0.043  Score=51.33  Aligned_cols=27  Identities=26%  Similarity=0.224  Sum_probs=23.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      -|.|.|++|+||||+++.|+..++.++
T Consensus         7 ~i~~eG~~g~GKst~~~~l~~~l~~~~   33 (216)
T 3tmk_A            7 LILIEGLDRTGKTTQCNILYKKLQPNC   33 (216)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHCSSE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcccc
Confidence            478899999999999999999997643

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.43  E-value=0.026  Score=51.22  Aligned_cols=23  Identities=17%  Similarity=0.349  Sum_probs=20.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ++|||.|++|+|||++|..|...
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            47999999999999999999764

>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=93.42  E-value=0.03  Score=48.87  Aligned_cols=23  Identities=17%  Similarity=0.387  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -+|+|.|+||+|||+|...+...
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            36999999999999999999754

>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=93.39  E-value=0.023  Score=57.38  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+.|.||+|||||||.++|+...
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999999876

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=93.38  E-value=0.022  Score=54.59  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998765

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=93.37  E-value=0.042  Score=51.78  Aligned_cols=34  Identities=26%  Similarity=0.378  Sum_probs=26.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh--CCcchhhcCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS--GLDYAMMTGG  421 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l--~~~~~~v~~~  421 (466)
                      ..+++.|.+|+|||+++..|+..+  |..++.+++.
T Consensus        15 ~i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd~D   50 (262)
T 1yrb_A           15 MIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLD   50 (262)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEECC
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEeCC
Confidence            457889999999999999998766  6666666543

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=93.37  E-value=0.026  Score=54.39  Aligned_cols=22  Identities=27%  Similarity=0.566  Sum_probs=20.4

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .+.|.||+|+|||||.+.|+..
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999986

>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=93.37  E-value=0.026  Score=56.73  Aligned_cols=26  Identities=15%  Similarity=0.341  Sum_probs=22.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      ..+.|+||+|+|||||++.|+..+..
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl~~~  196 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAVFNT  196 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHTTC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            46889999999999999999998743

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=93.35  E-value=0.031  Score=48.82  Aligned_cols=24  Identities=21%  Similarity=0.421  Sum_probs=20.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..|+|+|++|+|||+|...+....
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            469999999999999999987643

>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=93.33  E-value=0.023  Score=55.21  Aligned_cols=23  Identities=17%  Similarity=0.231  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47899999999999999998765

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=93.32  E-value=0.026  Score=53.74  Aligned_cols=22  Identities=27%  Similarity=0.535  Sum_probs=20.4

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .+.|.||+|+|||||.+.|+..
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999985

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=93.32  E-value=0.021  Score=61.26  Aligned_cols=33  Identities=18%  Similarity=0.329  Sum_probs=26.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC----CcchhhcC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG----LDYAMMTG  420 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~----~~~~~v~~  420 (466)
                      ..|+|.|+||+||||+++.|+..++    .+++.+++
T Consensus       397 ~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~  433 (573)
T 1m8p_A          397 FTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLG  433 (573)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEH
T ss_pred             eEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECc
Confidence            3588999999999999999999885    56555543

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=93.31  E-value=0.03  Score=48.66  Aligned_cols=22  Identities=41%  Similarity=0.659  Sum_probs=19.8

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|+||+|||+|...+...
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCccHHHHHHHHhcC
Confidence            6999999999999999999654

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.24  E-value=0.024  Score=53.75  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998765

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=93.24  E-value=0.03  Score=48.36  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|++|+|||+|...+...
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            5899999999999999999754

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=93.24  E-value=0.024  Score=53.77  Aligned_cols=24  Identities=29%  Similarity=0.473  Sum_probs=21.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|.||+|+|||||.+.|+...
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358899999999999999998765

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=93.23  E-value=0.017  Score=52.04  Aligned_cols=23  Identities=17%  Similarity=0.235  Sum_probs=21.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|+||+|+||||+++.|+..+
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999887

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=93.22  E-value=0.059  Score=54.44  Aligned_cols=23  Identities=43%  Similarity=0.534  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ++|+.+|+|+|||+.+-.++...
T Consensus        25 ~~ll~~~tG~GKT~~~~~~~~~~   47 (494)
T 1wp9_A           25 NCLIVLPTGLGKTLIAMMIAEYR   47 (494)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            59999999999999887775443

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=93.22  E-value=0.067  Score=61.13  Aligned_cols=19  Identities=32%  Similarity=0.405  Sum_probs=16.1

Q ss_pred             ccccccCCCCCCchHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVARE  406 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~a  406 (466)
                      +++|+.+|+|+|||+++-.
T Consensus       102 ~~vLV~apTGSGKTlva~l  120 (1010)
T 2xgj_A          102 ESVLVSAHTSAGKTVVAEY  120 (1010)
T ss_dssp             CEEEEECCTTSCHHHHHHH
T ss_pred             CCEEEECCCCCChHHHHHH
Confidence            3699999999999997643

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=93.20  E-value=0.024  Score=54.00  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48899999999999999998775

>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=93.20  E-value=0.034  Score=48.07  Aligned_cols=23  Identities=17%  Similarity=0.255  Sum_probs=20.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|.|++|+|||+|...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            36999999999999999999755

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.19  E-value=0.027  Score=50.16  Aligned_cols=21  Identities=24%  Similarity=0.643  Sum_probs=19.4

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|.|+||+|||+|.+.++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999976

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.18  E-value=0.031  Score=48.27  Aligned_cols=22  Identities=18%  Similarity=0.463  Sum_probs=19.9

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|++|+|||+|...+...
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            5899999999999999999763

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=93.18  E-value=0.028  Score=57.11  Aligned_cols=23  Identities=39%  Similarity=0.644  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            47899999999999999999876

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=93.17  E-value=0.063  Score=59.47  Aligned_cols=24  Identities=29%  Similarity=0.378  Sum_probs=20.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|+||+|+||||+.+.++...
T Consensus       577 ~i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          577 ELVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHhhh
Confidence            358899999999999999998643

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=93.16  E-value=0.069  Score=52.33  Aligned_cols=26  Identities=15%  Similarity=0.308  Sum_probs=21.6

Q ss_pred             cccccccccCCCCCCchHHHHHHHHh
Q 012305          385 APFRNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       385 ~p~~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+.-|.|+|.||+|||+|...|...
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            34456889999999999999999754

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=93.15  E-value=0.025  Score=54.50  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Confidence            47899999999999999998766

>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=93.15  E-value=0.032  Score=48.68  Aligned_cols=22  Identities=18%  Similarity=0.495  Sum_probs=19.9

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .++|.|+||+|||+|.+.+...
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            5899999999999999999763

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.13  E-value=0.029  Score=56.52  Aligned_cols=23  Identities=39%  Similarity=0.562  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999999876

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=93.12  E-value=0.026  Score=53.10  Aligned_cols=23  Identities=26%  Similarity=0.292  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+..+
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999998876

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=93.10  E-value=0.034  Score=49.36  Aligned_cols=24  Identities=17%  Similarity=0.430  Sum_probs=21.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|+|++|+|||+|+..|....
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            469999999999999999997653

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=93.08  E-value=0.036  Score=47.70  Aligned_cols=23  Identities=22%  Similarity=0.353  Sum_probs=20.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|.|++|+|||+|...+....
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            48999999999999999997543

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.08  E-value=0.03  Score=56.55  Aligned_cols=23  Identities=35%  Similarity=0.515  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47799999999999999999876

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=93.08  E-value=0.036  Score=47.67  Aligned_cols=22  Identities=18%  Similarity=0.481  Sum_probs=20.0

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|++|+|||+|...+...
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            5899999999999999999764

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=93.07  E-value=0.036  Score=47.71  Aligned_cols=23  Identities=13%  Similarity=0.348  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|.|++|+|||+|...+...
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            36999999999999999999763

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=93.06  E-value=0.041  Score=60.08  Aligned_cols=18  Identities=39%  Similarity=0.706  Sum_probs=15.9

Q ss_pred             ccccccCCCCCCchHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~  405 (466)
                      ++++++||||+|||+.+-
T Consensus        41 ~~~lv~apTGsGKT~~~~   58 (702)
T 2p6r_A           41 KNLLLAMPTAAGKTLLAE   58 (702)
T ss_dssp             SCEEEECSSHHHHHHHHH
T ss_pred             CcEEEEcCCccHHHHHHH
Confidence            469999999999999873

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=93.06  E-value=0.036  Score=48.92  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=20.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|+|++|+|||+|+..+...
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            46999999999999999999764

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=93.06  E-value=0.03  Score=56.49  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCC
Confidence            47799999999999999999876

>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=93.01  E-value=0.027  Score=53.78  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+..+
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999998765

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.01  E-value=0.027  Score=54.73  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+..+
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999998765

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.00  E-value=0.027  Score=54.48  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+..+
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58899999999999999998775

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.00  E-value=0.027  Score=53.99  Aligned_cols=23  Identities=35%  Similarity=0.431  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998765

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.97  E-value=0.038  Score=48.24  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=20.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|.|+||+|||+|...+...
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            36999999999999999999754

>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=92.95  E-value=0.032  Score=56.54  Aligned_cols=23  Identities=39%  Similarity=0.593  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            47799999999999999999876

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=92.93  E-value=0.028  Score=53.99  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|.||+|+|||||.+.|+...
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhccC
Confidence            358899999999999999998765

>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=92.93  E-value=0.037  Score=47.89  Aligned_cols=21  Identities=24%  Similarity=0.533  Sum_probs=19.0

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|.|+||+|||+|...+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999999963

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=92.90  E-value=0.035  Score=49.13  Aligned_cols=23  Identities=17%  Similarity=0.447  Sum_probs=20.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|.|++|+|||+|.+.|...
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            46999999999999999999873

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=92.87  E-value=0.073  Score=53.39  Aligned_cols=19  Identities=32%  Similarity=0.412  Sum_probs=15.7

Q ss_pred             ccccccCCCCCCchHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVARE  406 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~a  406 (466)
                      +++++.+|+|+|||+..-.
T Consensus        75 ~~~lv~a~TGsGKT~~~~~   93 (410)
T 2j0s_A           75 RDVIAQSQSGTGKTATFSI   93 (410)
T ss_dssp             CCEEEECCTTSSHHHHHHH
T ss_pred             CCEEEECCCCCCchHHHHH
Confidence            4699999999999976543

>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=92.86  E-value=0.033  Score=56.43  Aligned_cols=23  Identities=43%  Similarity=0.629  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            47899999999999999999876

>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=92.85  E-value=0.031  Score=53.91  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            47899999999999999998765

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=92.84  E-value=0.033  Score=48.06  Aligned_cols=21  Identities=38%  Similarity=0.743  Sum_probs=18.9

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|.|+||+|||+|.+.+..
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            589999999999999999853

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.83  E-value=0.036  Score=48.31  Aligned_cols=22  Identities=27%  Similarity=0.446  Sum_probs=19.7

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      -.|+|.|++|+|||+|...|..
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            4699999999999999999954

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=92.82  E-value=0.059  Score=49.22  Aligned_cols=24  Identities=21%  Similarity=0.367  Sum_probs=21.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|.|++|+|||+++..|+..+
T Consensus        31 ~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           31 VAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            369999999999999999998875

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=92.82  E-value=0.039  Score=48.21  Aligned_cols=23  Identities=26%  Similarity=0.302  Sum_probs=20.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.+|+||+|+|||++..+|+--+
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            47899999999999999997655

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.82  E-value=0.042  Score=51.69  Aligned_cols=26  Identities=27%  Similarity=0.261  Sum_probs=22.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      .-|.|.|++|+||||+++.|+..++.
T Consensus        22 ~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           22 MFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            34788999999999999999987744

>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=92.81  E-value=0.041  Score=47.88  Aligned_cols=24  Identities=21%  Similarity=0.407  Sum_probs=21.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..|+|+|++|+|||+|...+....
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            469999999999999999997654

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=92.80  E-value=0.08  Score=55.04  Aligned_cols=22  Identities=36%  Similarity=0.634  Sum_probs=17.8

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      +++|+.+|+|+|||..+-..+.
T Consensus        20 ~~~l~~~~tGsGKT~~~~~~~~   41 (555)
T 3tbk_A           20 KNTIICAPTGCGKTFVSLLICE   41 (555)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEeCCCChHHHHHHHHHH
Confidence            3699999999999987665543

>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=92.80  E-value=0.041  Score=47.56  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=20.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|.|++|+|||+|...+...
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            36999999999999999999653

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=92.80  E-value=0.03  Score=53.94  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999998765

>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=92.78  E-value=0.073  Score=52.81  Aligned_cols=20  Identities=30%  Similarity=0.285  Sum_probs=16.4

Q ss_pred             ccccccCCCCCCchHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREI  407 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~al  407 (466)
                      +++++.+|||+|||+.+-..
T Consensus        46 ~~~lv~a~TGsGKT~~~~~~   65 (391)
T 1xti_A           46 MDVLCQAKSGMGKTAVFVLA   65 (391)
T ss_dssp             CCEEEECSSCSSHHHHHHHH
T ss_pred             CcEEEECCCCCcHHHHHHHH
Confidence            46999999999999875443

>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=92.76  E-value=0.042  Score=48.98  Aligned_cols=24  Identities=25%  Similarity=0.468  Sum_probs=20.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|+|++|+|||+|...|....
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            369999999999999999997643

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=92.76  E-value=0.051  Score=55.85  Aligned_cols=23  Identities=22%  Similarity=0.372  Sum_probs=20.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.++|+...
T Consensus        71 ~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           71 NVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            48899999999999999999843

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=92.76  E-value=0.026  Score=53.25  Aligned_cols=23  Identities=17%  Similarity=0.187  Sum_probs=20.9

Q ss_pred             ccccCCCCCCchHHHHHHHHhhC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +.|+||+|+|||++.++|+..+.
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            67899999999999999998773

>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=92.75  E-value=0.038  Score=48.09  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=20.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|+|++|+|||+|...+...
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            36999999999999999999754

>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=92.75  E-value=0.042  Score=48.32  Aligned_cols=23  Identities=17%  Similarity=0.488  Sum_probs=20.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|.|++|+|||+|...|....
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            69999999999999999997643

>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch repair, nucleotide-binding, DNA-binding, polymorphism, nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens} PDB: 2wwy_A*

Probab=92.74  E-value=0.39  Score=51.43  Aligned_cols=20  Identities=20%  Similarity=0.431  Sum_probs=15.9

Q ss_pred             ccccccCCCCCCchHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREI  407 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~al  407 (466)
                      +++|+.+|||+|||+.....
T Consensus        60 ~d~lv~~pTGsGKTl~~~lp   79 (591)
T 2v1x_A           60 KEVFLVMPTGGGKSLCYQLP   79 (591)
T ss_dssp             CCEEEECCTTSCTTHHHHHH
T ss_pred             CCEEEEECCCChHHHHHHHH
Confidence            35999999999999865433

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=92.73  E-value=0.031  Score=53.47  Aligned_cols=23  Identities=17%  Similarity=0.248  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998765

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=92.68  E-value=0.044  Score=48.57  Aligned_cols=22  Identities=14%  Similarity=0.437  Sum_probs=20.3

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|+|++|+|||+|+..|...
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6999999999999999999865

>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=92.67  E-value=0.04  Score=52.24  Aligned_cols=23  Identities=17%  Similarity=0.316  Sum_probs=21.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -|+|.|++|+||||+++.|+..+
T Consensus        29 ~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           29 FIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             EEEEEESTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999999887

>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=92.66  E-value=0.044  Score=48.05  Aligned_cols=23  Identities=17%  Similarity=0.433  Sum_probs=20.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|+|++|+|||+|...+...
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            47999999999999999999764

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=92.65  E-value=0.043  Score=51.16  Aligned_cols=28  Identities=32%  Similarity=0.339  Sum_probs=23.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|-|+|..|||||++++.|+. +|.+++.
T Consensus        11 ~iglTGgigsGKStv~~~l~~-~g~~vid   38 (210)
T 4i1u_A           11 AIGLTGGIGSGKTTVADLFAA-RGASLVD   38 (210)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH-TTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcEEE
Confidence            367999999999999999988 8777644

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.63  E-value=0.041  Score=48.02  Aligned_cols=23  Identities=22%  Similarity=0.257  Sum_probs=20.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|.|++|+|||+|...+...
T Consensus         9 ~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            9 PVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36999999999999999999753

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=92.62  E-value=0.076  Score=55.36  Aligned_cols=22  Identities=41%  Similarity=0.677  Sum_probs=17.7

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      +++|+.+|+|+|||..+-....
T Consensus        23 ~~~l~~~~tGsGKT~~~~~~~~   44 (556)
T 4a2p_A           23 KNALICAPTGSGKTFVSILICE   44 (556)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEcCCCChHHHHHHHHHH
Confidence            3699999999999988655543

>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=92.61  E-value=0.041  Score=47.94  Aligned_cols=23  Identities=17%  Similarity=0.423  Sum_probs=20.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|.|++|+|||+|...+...
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            46999999999999999999765

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=92.61  E-value=0.042  Score=61.24  Aligned_cols=23  Identities=43%  Similarity=0.651  Sum_probs=18.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+++.||||||||+++..+...+
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            47899999999999877776544

>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=92.59  E-value=0.027  Score=56.56  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            47899999999999999999876

>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=92.58  E-value=0.046  Score=47.81  Aligned_cols=23  Identities=17%  Similarity=0.471  Sum_probs=20.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|+|++|+|||+|...+...
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            46999999999999999999754

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=92.54  E-value=0.096  Score=53.41  Aligned_cols=23  Identities=35%  Similarity=0.557  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|.|+||||||+++..|++..
T Consensus       177 R~lIfg~~g~GKT~Ll~~Ia~~i  199 (427)
T 3l0o_A          177 RGMIVAPPKAGKTTILKEIANGI  199 (427)
T ss_dssp             EEEEEECTTCCHHHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHHHH
Confidence            58999999999999999998864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=92.53  E-value=0.034  Score=53.51  Aligned_cols=23  Identities=35%  Similarity=0.645  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+...
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998764

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=92.50  E-value=0.046  Score=48.40  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=20.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|.|+||+|||+|.+.+....
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            369999999999999999887654

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=92.47  E-value=0.11  Score=57.73  Aligned_cols=21  Identities=33%  Similarity=0.518  Sum_probs=17.6

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      +++++||||+|||+++..+..
T Consensus       111 ~vii~gpTGSGKTtllp~ll~  131 (773)
T 2xau_A          111 IMVFVGETGSGKTTQIPQFVL  131 (773)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999997666643

>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=92.46  E-value=0.048  Score=47.63  Aligned_cols=24  Identities=21%  Similarity=0.369  Sum_probs=20.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|.|++|+|||+|...+....
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            469999999999999999997543

>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=92.43  E-value=0.044  Score=48.26  Aligned_cols=24  Identities=29%  Similarity=0.486  Sum_probs=20.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|+|++|+|||+|...+....
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            369999999999999999997543

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=92.42  E-value=0.053  Score=47.69  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=20.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|+|++|+|||+|...+...
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            47999999999999999999865

>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=92.41  E-value=0.044  Score=48.54  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=20.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|+|++|+|||+|...+...
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            36899999999999999999764

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=92.41  E-value=0.04  Score=51.64  Aligned_cols=69  Identities=22%  Similarity=0.201  Sum_probs=37.6

Q ss_pred             ccccCCCCCCchH-HHHHHHHhh--CCcchhhcCC--C------ccc-chh----HHHHHHHHHHhhhhhccCceEEEec
Q 012305          390 MLFYGPPGTGKTM-VAREIARKS--GLDYAMMTGG--D------VAP-LGA----QAVTKIHEIFDWAKKSKKGLLLFID  453 (466)
Q Consensus       390 vLl~GppGTGKT~-lA~alA~~l--~~~~~~v~~~--~------l~~-~~~----e~~~~l~~lf~~A~~~~~~~iLflD  453 (466)
                      .+++||.|+|||+ +.+.+.+..  +..++.++..  +      +.. .|.    ........+++...  .+..+|+||
T Consensus        31 ~vitG~M~sGKTT~Llr~~~r~~~~g~kvli~kp~~D~R~~~~~I~Sr~G~~~~a~~v~~~~di~~~i~--~~~dvV~ID  108 (219)
T 3e2i_A           31 ECITGSMFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISKASEIMTHDL--TNVDVIGID  108 (219)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEEC-----------CBTTBCCEEEEESSGGGGGGSCC--TTCSEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCceEEEEeccCCcchhhhHHHhcCCceeeEEeCCHHHHHHHHh--cCCCEEEEe
Confidence            6789999999999 556654333  5555444321  0      110 110    00112234444332  347899999


Q ss_pred             ccccccc
Q 012305          454 EADAFLC  460 (466)
Q Consensus       454 Eid~l~~  460 (466)
                      |+.-|..
T Consensus       109 EaQFf~~  115 (219)
T 3e2i_A          109 EVQFFDD  115 (219)
T ss_dssp             CGGGSCT
T ss_pred             chhcCCH
Confidence            9987753

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=92.38  E-value=0.046  Score=56.66  Aligned_cols=34  Identities=21%  Similarity=0.138  Sum_probs=26.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      .-++|.|+||+|||+|+..++...   |.+++.++..
T Consensus       198 ~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlE  234 (444)
T 3bgw_A          198 NFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  234 (444)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSS
T ss_pred             cEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECC
Confidence            358899999999999999987665   5566555543

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=92.37  E-value=0.05  Score=47.70  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=19.9

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|++|+|||+|...+...
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            6999999999999999999754

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=92.35  E-value=0.042  Score=48.50  Aligned_cols=22  Identities=23%  Similarity=0.531  Sum_probs=20.1

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|+||+|||+|...|...
T Consensus         6 ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            6 KVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999864

>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=92.34  E-value=0.039  Score=56.28  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTCS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            48899999999999999999754

>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=92.24  E-value=0.056  Score=48.40  Aligned_cols=23  Identities=17%  Similarity=0.433  Sum_probs=20.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|.|++|+|||+|...+...
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            47999999999999999999754

>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=92.21  E-value=0.054  Score=48.15  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=20.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|+|++|+|||+|...+...-
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            369999999999999999997643

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=92.21  E-value=0.033  Score=59.39  Aligned_cols=25  Identities=32%  Similarity=0.523  Sum_probs=22.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..+.|+|++||||||++++|+..++
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCChHHHHHHHHHHhhc
Confidence            3588999999999999999999884

>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=92.19  E-value=0.054  Score=54.77  Aligned_cols=24  Identities=25%  Similarity=0.491  Sum_probs=21.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|++++||||+|||++++.++..+
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            479999999999999999997655

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=92.18  E-value=0.054  Score=48.10  Aligned_cols=24  Identities=25%  Similarity=0.458  Sum_probs=21.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|+|++|+|||+|...|....
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            469999999999999999997643

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=92.15  E-value=0.052  Score=50.54  Aligned_cols=23  Identities=22%  Similarity=0.341  Sum_probs=21.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -|.|.|++|+||||+++.|+..+
T Consensus         5 ~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            5 YIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37789999999999999999887

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=92.14  E-value=0.044  Score=48.34  Aligned_cols=22  Identities=23%  Similarity=0.501  Sum_probs=19.8

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|++|+|||+|...+...
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            5899999999999999999764

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=92.12  E-value=0.056  Score=47.28  Aligned_cols=23  Identities=17%  Similarity=0.163  Sum_probs=20.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|.|++|+|||+|...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            36999999999999999999754

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=92.05  E-value=0.048  Score=56.79  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|.||+|+|||||++.|+...
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            58899999999999999998765

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.04  E-value=0.057  Score=49.54  Aligned_cols=24  Identities=25%  Similarity=0.454  Sum_probs=21.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..++|.|++|+|||+|+..++...
T Consensus        39 ~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           39 VAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            468899999999999999998775

>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=92.02  E-value=0.028  Score=56.59  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47799999999999999999865

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=92.02  E-value=0.058  Score=47.76  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=20.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|+|++|+|||+|...|...
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46999999999999999999764

>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A*

Probab=92.00  E-value=0.076  Score=54.75  Aligned_cols=17  Identities=29%  Similarity=0.276  Sum_probs=15.2

Q ss_pred             ccccccCCCCCCchHHH
Q 012305          388 RNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA  404 (466)
                      +++|+.||+|+|||+.+
T Consensus         9 ~~vlv~a~TGSGKT~~~   25 (440)
T 1yks_A            9 MTTVLDFHPGAGKTRRF   25 (440)
T ss_dssp             CEEEECCCTTSSTTTTH
T ss_pred             CCEEEEcCCCCCHHHHH
Confidence            57999999999999974

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=91.99  E-value=0.051  Score=56.06  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=20.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ++.|+||+|+|||||.+.|+...
T Consensus        44 ~vaLvG~nGaGKSTLln~L~G~~   66 (427)
T 2qag_B           44 NILCVGETGLGKSTLMDTLFNTK   66 (427)
T ss_dssp             EEEEECSTTSSSHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            37899999999999999998753

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=91.98  E-value=0.057  Score=53.54  Aligned_cols=17  Identities=35%  Similarity=0.407  Sum_probs=14.8

Q ss_pred             ccccccCCCCCCchHHH
Q 012305          388 RNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA  404 (466)
                      +++++.+|+|+|||+.+
T Consensus        59 ~~~lv~~~TGsGKT~~~   75 (394)
T 1fuu_A           59 HDVLAQAQSGTGKTGTF   75 (394)
T ss_dssp             CCEEECCCSSHHHHHHH
T ss_pred             CCEEEECCCCChHHHHH
Confidence            36999999999999864

>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=91.97  E-value=0.06  Score=48.19  Aligned_cols=23  Identities=22%  Similarity=0.476  Sum_probs=20.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|.|++|+|||+|...+...
T Consensus        29 ~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           29 VKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            36999999999999999999764

>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=91.95  E-value=0.053  Score=48.67  Aligned_cols=23  Identities=26%  Similarity=0.288  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|+|++|+|||+|...+...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            36999999999999999999754

>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=91.93  E-value=0.056  Score=48.32  Aligned_cols=24  Identities=17%  Similarity=0.383  Sum_probs=20.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|+|++|+|||+|...+....
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            369999999999999999997543

>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=91.93  E-value=0.06  Score=47.90  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=20.0

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|+|++|+|||+|...+...
T Consensus        24 ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           24 ELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            6999999999999999999754

>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=91.93  E-value=0.062  Score=47.74  Aligned_cols=23  Identities=17%  Similarity=0.309  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|+|++|+|||+|...+...
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            47999999999999999999754

>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=91.92  E-value=0.061  Score=48.27  Aligned_cols=24  Identities=25%  Similarity=0.472  Sum_probs=21.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..|+|.|++|+|||+|...|....
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            9 LKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            469999999999999999997643

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=91.91  E-value=0.086  Score=51.93  Aligned_cols=23  Identities=35%  Similarity=0.449  Sum_probs=20.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -++|+|+.|+||||+.+.|....
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEEecCCCCHHHHHHHHHhhc
Confidence            57899999999999999998764

>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=91.91  E-value=0.055  Score=48.47  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=19.8

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|.|+||+|||+|...+..
T Consensus        25 ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           25 KLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            699999999999999999986

>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=91.89  E-value=0.062  Score=47.89  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|+|++|+|||+|...+...
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            36999999999999999999754

>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=91.89  E-value=0.062  Score=47.92  Aligned_cols=23  Identities=13%  Similarity=0.166  Sum_probs=20.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|.|++|+|||+|...+...
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            36999999999999999887654

>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=91.88  E-value=0.058  Score=48.07  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|+|++|+|||+|+..+....
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            69999999999999999997654

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=91.88  E-value=0.057  Score=60.14  Aligned_cols=21  Identities=48%  Similarity=0.737  Sum_probs=17.2

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .+|+.||||||||+++..+..
T Consensus       377 ~~lI~GppGTGKT~~i~~~i~  397 (802)
T 2xzl_A          377 LSLIQGPPGTGKTVTSATIVY  397 (802)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            478999999999998766643

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*

Probab=91.88  E-value=0.12  Score=55.90  Aligned_cols=22  Identities=36%  Similarity=0.634  Sum_probs=18.1

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      +++++++|+|+|||+.+-.++.
T Consensus        29 ~~~iv~~~TGsGKTl~~~~~i~   50 (696)
T 2ykg_A           29 KNTIICAPTGCGKTFVSLLICE   50 (696)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEcCCCchHHHHHHHHHH
Confidence            4699999999999997766543

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=91.86  E-value=0.047  Score=48.30  Aligned_cols=24  Identities=17%  Similarity=0.378  Sum_probs=20.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..|+|.|++|+|||+|...+....
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCc
Confidence            369999999999999999997653

>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=91.86  E-value=0.063  Score=47.87  Aligned_cols=22  Identities=27%  Similarity=0.507  Sum_probs=19.9

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|++|+|||+|+..+...
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            6999999999999999988754

>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=91.85  E-value=0.046  Score=47.82  Aligned_cols=23  Identities=13%  Similarity=0.200  Sum_probs=20.5

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|.|++|+|||+|...+...
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            36999999999999999999764

>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=91.84  E-value=0.063  Score=47.91  Aligned_cols=24  Identities=17%  Similarity=0.285  Sum_probs=21.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|+|.|++|+|||+|...+....
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            369999999999999999997653

>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B*

Probab=91.83  E-value=0.061  Score=61.75  Aligned_cols=20  Identities=25%  Similarity=0.403  Sum_probs=15.8

Q ss_pred             ccccccCCCCCCchHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREI  407 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~al  407 (466)
                      +++|+.+|+|+|||+++-.+
T Consensus        72 ~dvlv~apTGSGKTl~~lp~   91 (1054)
T 1gku_B           72 ESFAATAPTGVGKTSFGLAM   91 (1054)
T ss_dssp             CCEECCCCBTSCSHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHH
Confidence            46999999999999744333

>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=91.82  E-value=0.063  Score=48.24  Aligned_cols=23  Identities=13%  Similarity=0.351  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|+|++|+|||+|+..+...
T Consensus        29 ~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           29 YKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46999999999999999999754

>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=91.82  E-value=0.058  Score=47.33  Aligned_cols=23  Identities=17%  Similarity=0.332  Sum_probs=20.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|.|++|+|||+|...+...
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            36999999999999999999743

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=91.78  E-value=0.16  Score=45.63  Aligned_cols=65  Identities=22%  Similarity=0.151  Sum_probs=41.1

Q ss_pred             cccc-CCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch-------------hHHHHHHHHHHhhhhhccCceEEEe
Q 012305          390 MLFY-GPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG-------------AQAVTKIHEIFDWAKKSKKGLLLFI  452 (466)
Q Consensus       390 vLl~-GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~-------------~e~~~~l~~lf~~A~~~~~~~iLfl  452 (466)
                      |.|+ +-.|+|||+++-.||..+   |..++.++++.-....             ......+..++.....  .+++|||
T Consensus         4 i~v~s~kgG~GKTt~a~~la~~la~~g~~vlliD~D~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~--~yD~vii   81 (206)
T 4dzz_A            4 ISFLNPKGGSGKTTAVINIATALSRSGYNIAVVDTDPQMSLTNWSKAGKAAFDVFTAASEKDVYGIRKDLA--DYDFAIV   81 (206)
T ss_dssp             EEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTCHHHHHHTTSCCSSEEEECCSHHHHHTHHHHTT--TSSEEEE
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEECCCCCCHHHHHhcCCCCCcEEecCcHHHHHHHHHhcC--CCCEEEE
Confidence            5555 568899999999998776   7788888765321100             0001345556665542  3789999


Q ss_pred             cccc
Q 012305          453 DEAD  456 (466)
Q Consensus       453 DEid  456 (466)
                      |=-.
T Consensus        82 D~~~   85 (206)
T 4dzz_A           82 DGAG   85 (206)
T ss_dssp             ECCS
T ss_pred             ECCC
Confidence            9543

>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=91.76  E-value=0.043  Score=53.63  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=21.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|.||+|+|||||.+.|+...
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            358899999999999999998876

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}

Probab=91.73  E-value=0.12  Score=52.96  Aligned_cols=16  Identities=31%  Similarity=0.623  Sum_probs=14.3

Q ss_pred             ccccccCCCCCCchHH
Q 012305          388 RNMLFYGPPGTGKTMV  403 (466)
Q Consensus       388 ~~vLl~GppGTGKT~l  403 (466)
                      +++++.+|+|+|||+.
T Consensus        94 ~d~i~~a~TGsGKT~a  109 (434)
T 2db3_A           94 RDLMACAQTGSGKTAA  109 (434)
T ss_dssp             CCEEEECCTTSSHHHH
T ss_pred             CCEEEECCCCCCchHH
Confidence            4799999999999984

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=91.73  E-value=0.061  Score=51.15  Aligned_cols=26  Identities=19%  Similarity=0.167  Sum_probs=22.9

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      +.|+|++|||||++++.|...+|.++
T Consensus         4 i~ltG~~~sGK~tv~~~l~~~~g~~~   29 (241)
T 1dek_A            4 IFLSGVKRSGKDTTADFIMSNYSAVK   29 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            67899999999999999999877654

>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=91.68  E-value=0.066  Score=48.28  Aligned_cols=23  Identities=22%  Similarity=0.453  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|+|+||+|||+|...+...
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            36999999999999999999754

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=91.66  E-value=0.2  Score=50.45  Aligned_cols=23  Identities=17%  Similarity=0.215  Sum_probs=20.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|.|+|+||+|||+|.+.|...
T Consensus       180 ~~V~lvG~~naGKSTLln~L~~~  202 (364)
T 2qtf_A          180 PSIGIVGYTNSGKTSLFNSLTGL  202 (364)
T ss_dssp             CEEEEECBTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHHCC
Confidence            45889999999999999999754

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=91.63  E-value=0.061  Score=47.48  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|.|++|+|||+|...+...
T Consensus        19 ~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           19 LRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46999999999999999999753

>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=91.63  E-value=0.066  Score=56.50  Aligned_cols=38  Identities=24%  Similarity=0.183  Sum_probs=0.0

Q ss_pred             cccccccccCCCCCCchHHHHH--HHHhh--CCcchhhcCCC
Q 012305          385 APFRNMLFYGPPGTGKTMVARE--IARKS--GLDYAMMTGGD  422 (466)
Q Consensus       385 ~p~~~vLl~GppGTGKT~lA~a--lA~~l--~~~~~~v~~~~  422 (466)
                      .+...++|+||||||||||++.  ++...  +...+.+++.+
T Consensus        37 ~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g~~   78 (525)
T 1tf7_A           37 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEE   78 (525)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSS
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEeC

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=91.60  E-value=0.062  Score=48.44  Aligned_cols=23  Identities=22%  Similarity=0.434  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ..|+|.|++|+|||+|...|...
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            36999999999999999999754

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=91.57  E-value=0.063  Score=47.78  Aligned_cols=22  Identities=18%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      ..|+|+|++|+|||+|...+..
T Consensus        18 ~ki~v~G~~~~GKSsl~~~l~~   39 (199)
T 4bas_A           18 LQVVMCGLDNSGKTTIINQVKP   39 (199)
T ss_dssp             EEEEEECCTTSCHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            5799999999999999999854

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=91.56  E-value=0.061  Score=53.93  Aligned_cols=25  Identities=16%  Similarity=0.304  Sum_probs=22.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      .+.|.||+|+|||+|.+.|++....
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            4889999999999999999998843

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=91.55  E-value=0.057  Score=57.51  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=22.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ..|+|+|+||+||||+++.|+..++
T Consensus       373 ~~I~l~G~~GsGKSTia~~La~~L~  397 (546)
T 2gks_A          373 FCVWLTGLPCAGKSTIAEILATMLQ  397 (546)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEccCCCCCCHHHHHHHHHHHhh
Confidence            3588999999999999999998774

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=91.47  E-value=0.035  Score=50.20  Aligned_cols=22  Identities=18%  Similarity=0.416  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .+.|.|+||+|||+|.+.|+..
T Consensus        28 ~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           28 EVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             EEEEEECTTSSHHHHHTTTCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998653

---

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	466
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	1e-12
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	2e-11
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	3e-08
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	8e-08
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	1e-06
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	2e-05
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	4e-05
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	5e-05
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	5e-05
d1ny5a2	247	c.37.1.20 (A:138-384) Transcriptional activator si	9e-05
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	1e-04
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	1e-04
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	1e-04
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-04
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	3e-04
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	4e-04
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	0.001
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	0.001
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	0.001
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	0.002
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	0.003
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	0.003
d1rkba_	173	c.37.1.1 (A:) Adenylate kinase {Human (Homo sapien	0.003
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	0.004

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

 Score = 65.6 bits (160), Expect = 1e-12
 Identities = 27/95 (28%), Positives = 54/95 (56%), Gaps = 2/95 (2%)

Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VA 424
           +   +++L + +   K+     + +L  GPPGTGKT++A+ IA ++ + +  ++G D V 
Sbjct: 24  VAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE 83

Query: 425 PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
                  +++ ++F+ AKK+    ++FIDE DA  
Sbjct: 84  MFVGVGASRVRDMFEQAKKAAPC-IIFIDEIDAVG 117

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

 Score = 61.8 bits (150), Expect = 2e-11
 Identities = 25/95 (26%), Positives = 48/95 (50%), Gaps = 2/95 (2%)

Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD-VA 424
           L+  ++ L   +   ++     + +L  GPPG GKT +AR +A ++ + +   +G D V 
Sbjct: 21  LKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVE 80

Query: 425 PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
                   ++ ++F+ AK+     ++FIDE DA  
Sbjct: 81  MFVGVGAARVRDLFETAKRHAPC-IVFIDEIDAVG 114

>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 = 52.3 bits (124), Expect = 3e-08
 Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 7/97 (7%)

Query: 370 IQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQ 429
            Q L       K  + P  ++L +GPPG GKT +A  IA + G++  + +G  +      
Sbjct: 18  KQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK---- 73

Query: 430 AVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI 466
                      A   ++G +LFIDE        ++ +
Sbjct: 74  ---PGDLAAILANSLEEGDILFIDEIHRLSRQAEEHL 107

>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 = 51.6 bits (123), Expect = 8e-08
 Identities = 17/105 (16%), Positives = 31/105 (29%), Gaps = 7/105 (6%)

Query: 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGG 421
           LH  L +    +         +    R  LF GP  +GKT +A  +    G     +   
Sbjct: 129 LHCLLPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLP 188

Query: 422 D------VAPLGAQAVTKIHEIFDWAKKSKKGL-LLFIDEADAFL 459
                  +     Q +    ++     +S+       I+  D   
Sbjct: 189 LDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLR 233

>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 = 46.6 bits (109), Expect = 1e-06
 Identities = 10/57 (17%), Positives = 19/57 (33%), Gaps = 4/57 (7%)

Query: 362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
            +P L+   + L  +    + H A    +L    PG G   +   ++R         
Sbjct: 3   WYPWLRPDFEKLVASYQAGRGHHA----LLIQALPGMGDDALIYALSRYLLCQQPQG 55

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.0 bits (103), Expect = 2e-05
 Identities = 27/101 (26%), Positives = 51/101 (50%), Gaps = 6/101 (5%)

Query: 359 DIILHPSLQRRIQ-----HLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL 413
           DI     ++R +Q      +       K    P + +LFYGPPG GKT++A+ IA +   
Sbjct: 8   DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA 67

Query: 414 DYAMMTGGDVAPLGA-QAVTKIHEIFDWAKKSKKGLLLFID 453
           ++  + G ++  +   ++   + EIFD A+++   +L F +
Sbjct: 68  NFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDE 108

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

 Score = 43.1 bits (101), Expect = 4e-05
 Identities = 11/78 (14%), Positives = 27/78 (34%), Gaps = 6/78 (7%)

Query: 385 APFRNMLFYGPPGTGKTMVAREIARKSGLD--YAMMTGGD-VAPLGAQAVTKIHEIFDWA 441
                ++  G   +GKT +   +    G    YA +  G+ ++         + +I    
Sbjct: 121 YASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAM 180

Query: 442 KKSKKGLLLFIDEADAFL 459
            + +   ++ ID     +
Sbjct: 181 LQHR---VIVIDSLKNVI 195

>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 = 42.2 bits (98), Expect = 5e-05
 Identities = 21/110 (19%), Positives = 40/110 (36%), Gaps = 2/110 (1%)

Query: 352 EAIKNNGDIILHPSLQRRIQHLAKATANTKIHQ-APFRNMLFYGPPGTGKTMVAREIARK 410
            +   NG I     + R +         TK     P  ++L  GPP +GKT +A +IA +
Sbjct: 4   ASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEE 63

Query: 411 SGLDYAMMTGG-DVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFL 459
           S   +  +     +      A  +  +         +   + +D+ +  L
Sbjct: 64  SNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLL 113

>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 = 42.3 bits (98), Expect = 5e-05
 Identities = 21/95 (22%), Positives = 37/95 (38%), Gaps = 9/95 (9%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
           + I   ++    + L+ A    K+      ++L  GPPG GKT +A  IA +   +  + 
Sbjct: 10  EFIGQENV---KKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVT 66

Query: 419 TG------GDVAPLGAQAVTKIHEIFDWAKKSKKG 447
           +G      GD+A +            D   +  K 
Sbjct: 67  SGPVLVKQGDMAAILTSLERGDVLFIDEIHRLNKA 101

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 41.8 bits (98), Expect = 9e-05
 Identities = 23/112 (20%), Positives = 35/112 (31%), Gaps = 18/112 (16%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
           + +      + I    K  +  +        +L  G  G GK +VAR I + S       
Sbjct: 1   EYVFESPKMKEILEKIKKISCAEC------PVLITGESGVGKEVVARLIHKLSDRSKEPF 54

Query: 419 TGGDVAPLGAQAVTK-----IHEIFDWAKKSKKGLL-------LFIDEADAF 458
              +VA +                F  A  SK+G         LF+DE    
Sbjct: 55  VALNVASIPRDIFEAELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGEL 106

>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 = 41.3 bits (95), 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

>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 = 41.5 bits (96), Expect = 1e-04
 Identities = 16/115 (13%), Positives = 33/115 (28%), Gaps = 6/115 (5%)

Query: 354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGL 413
           I N  D      L   ++ L +     K         L  G PG+GKT +   I  ++  
Sbjct: 3   IVNFTDKQFENRLNDNLEELIQG----KKAVESPTAFLLGGQPGSGKTSLRSAIFEETQG 58

Query: 414 DYAMMTGGDVAPL--GAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI 466
           +  ++              + K++E       +     +             + +
Sbjct: 59  NVIVIDNDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRLSDQGYNLV 113

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.2 bits (95), Expect = 1e-04
 Identities = 25/80 (31%), Positives = 39/80 (48%)

Query: 380 TKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFD 439
             I   P R +L YGPPGTGKT++AR +A ++G  + ++ G ++    A           
Sbjct: 31  KAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAF 90

Query: 440 WAKKSKKGLLLFIDEADAFL 459
              +     ++FIDE DA  
Sbjct: 91  EEAEKNAPAIIFIDELDAIA 110

>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 = 41.0 bits (95), Expect = 2e-04
 Identities = 19/79 (24%), Positives = 32/79 (40%), Gaps = 7/79 (8%)

Query: 386 PFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTKIHEIFDW----- 440
             +N+L  GP G GKT +AR +A+ +   +  +       +G         I D      
Sbjct: 48  TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAG 107

Query: 441 --AKKSKKGLLLFIDEADA 457
                 ++  ++FIDE D 
Sbjct: 108 GAIDAVEQNGIVFIDEIDK 126

>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 = 40.1 bits (92), Expect = 3e-04
 Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 9/71 (12%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPF---------RNMLFYGPPGTGKTMVAREIAR 409
            +  +     ++++      N+K +             R  + YGPPG GKT  A  +A+
Sbjct: 15  QVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQ 74

Query: 410 KSGLDYAMMTG 420
           + G D      
Sbjct: 75  ELGYDILEQNA 85

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} 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: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 39.7 bits (92), Expect = 4e-04
 Identities = 24/128 (18%), Positives = 45/128 (35%), Gaps = 29/128 (22%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMM 418
           D++    +   +  LA   +  +IH A     LF G  G GKT +AR +A+    +  + 
Sbjct: 13  DVVGQEHV---LTALANGLSLGRIHHA----YLFSGTRGVGKTSIARLLAKGLNCETGIT 65

Query: 419 TGG----------------DVAPLGAQAVTKIHEIFDWAKKSK------KGLLLFIDEAD 456
                              D+  + A + TK+ +  D     +      +  +  IDE  
Sbjct: 66  ATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVH 125

Query: 457 AFLCDNQD 464
                + +
Sbjct: 126 MLSRHSFN 133

>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 = 38.2 bits (87), Expect = 0.001
 Identities = 6/45 (13%), Positives = 13/45 (28%)

Query: 366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK 410
            +   +       +              G  G GKT +A+   ++
Sbjct: 25  AEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKR 69

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 231

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]

 Score = 38.0 bits (87), Expect = 0.001
 Identities = 25/113 (22%), Positives = 43/113 (38%), Gaps = 13/113 (11%)

Query: 359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK-----SGL 413
           DI+    + +R++H         +      ++LF GPPG GKT  A  +AR+        
Sbjct: 25  DIVGQEHIVKRLKHY--------VKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRH 76

Query: 414 DYAMMTGGDVAPLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQDFI 466
           ++  +   D   +                      ++F+DEADA   D Q  +
Sbjct: 77  NFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQAL 129

>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 = 38.2 bits (88), Expect = 0.001
 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

>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 = 37.5 bits (85), Expect = 0.002
 Identities = 11/42 (26%), Positives = 17/42 (40%), Gaps = 1/42 (2%)

Query: 370 IQHLAKATAN-TKIHQAPFRNMLFYGPPGTGKTMVAREIARK 410
           +Q L     N  +     +      G PGTGKT+  R++   
Sbjct: 25  LQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL 66

>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

>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

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

 Score = 36.5 bits (83), Expect = 0.003
 Identities = 15/27 (55%), Positives = 19/27 (70%)

Query: 389 NMLFYGPPGTGKTMVAREIARKSGLDY 415
           N+L  G PG GKT + +E+A KSGL Y
Sbjct: 6   NILLTGTPGVGKTTLGKELASKSGLKY 32

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]} Length = 333

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

 Score = 36.8 bits (84), Expect = 0.004
 Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 5/36 (13%)

Query: 373 LAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIA 408
           L     +  I       +L +G  GTGK+   R +A
Sbjct: 19  LLLTAVDPGIG-----GVLVFGDRGTGKSTAVRALA 49

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	466
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.73
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.73
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.66
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.66
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.6
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.6
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.55
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.55
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.42
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.26
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.24
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.23
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.2
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.19
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.15
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.12
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.1
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.04
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	98.98
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.96
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.92
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.92
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.89
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.89
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.87
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.85
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.82
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.8
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	98.73
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.65
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.48
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.26
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.23
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.12
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.04
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.03
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.98
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.92
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.88
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.84
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.82
d1okkd2	207	GTPase domain of the signal recognition particle r	97.77
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.77
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.74
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.69
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.68
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.68
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.68
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.66
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.6
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.59
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.58
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.54
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.54
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.54
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.47
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.46
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.42
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.4
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.36
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.36
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.36
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.34
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.32
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.28
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.25
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.25
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.24
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.22
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.18
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.11
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.11
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.1
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.08
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.07
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.0
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.99
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.84
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.8
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.77
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.77
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.76
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.68
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.68
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.65
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	96.64
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.51
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.51
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.49
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.45
d1tuea_	205	Replication protein E1 helicase domain {Human papi	96.43
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.32
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	96.27
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.15
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.02
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.0
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.99
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.98
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.96
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.89
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.84
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.81
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.79
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.7
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	95.67
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.65
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.63
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.55
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	95.54
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.53
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.41
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	95.33
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.28
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.25
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	95.23
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.22
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.11
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.05
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.96
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.92
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	94.9
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.9
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.86
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.6
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.52
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.49
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.45
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.43
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.4
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.29
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	94.21
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	94.01
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.99
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.98
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.92
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.85
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.83
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.79
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.78
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.67
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	93.67
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.67
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.66
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.63
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.61
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.54
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.49
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	93.48
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	93.46
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.46
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.45
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.44
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.43
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	93.42
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.38
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.35
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.31
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.29
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.25
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.24
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	93.21
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.17
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.16
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.14
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.04
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.03
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.99
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.98
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.97
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.88
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	92.88
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.85
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	92.83
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.83
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.83
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.81
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.81
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.77
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.74
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.59
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.59
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	92.56
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.55
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.54
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	92.47
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	92.46
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	92.46
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	92.44
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	92.41
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.39
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.35
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.3
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.3
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.29
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.2
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.12
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.05
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.04
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	91.99
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	91.96
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.95
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	91.91
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.75
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	91.74
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.73
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	91.71
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	91.68
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.63
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	91.55
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.52
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	91.43
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.34
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.33
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	91.33
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.33
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.29
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	91.23
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	91.13
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.05
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	90.97
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	90.85
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	90.8
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.7
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	90.69
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	90.57
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	90.55
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	90.46
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	90.29
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	90.17
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	90.1
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.97
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	89.78
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.77
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	89.67
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	89.16
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	88.4
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	88.16
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	87.99
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	87.98
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	87.64
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	87.63
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	87.56
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	87.23
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	86.91
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	84.08
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	84.0
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.82
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	83.71
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	82.99
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	82.78
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	82.33
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	82.27
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	82.26
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	82.01
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	81.52
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	81.34
d1sdma_	364	Kinesin heavy chain-like protein {Potato (Solanum	81.26
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	81.19
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	81.08
d2ncda_	368	Kinesin motor Ncd (non-claret disjunctional) {Frui	80.53
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	80.21
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	80.03

>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=99.73  E-value=8.6e-19  Score=168.48  Aligned_cols=110  Identities=24%  Similarity=0.389  Sum_probs=93.7

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhccccc----cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTKI----HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~----~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      +..+|+||+|.+..++.|.+++.++.+...    +..+++++|||||||||||++|++||+.++.+++.++++++.. +.
T Consensus         7 ~~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~~   86 (256)
T d1lv7a_           7 IKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFV   86 (256)
T ss_dssp             SCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCC
T ss_pred             CCCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcch
Confidence            456789999999999999998877655432    2345689999999999999999999999999999999999864 56


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +++...++.+|+.|+... ++||||||||.++++|+
T Consensus        87 g~~~~~l~~~f~~A~~~~-P~il~iDeiD~l~~~r~  121 (256)
T d1lv7a_          87 GVGASRVRDMFEQAKKAA-PCIIFIDEIDAVGRQRG  121 (256)
T ss_dssp             CCCHHHHHHHHHHHHTTC-SEEEEETTHHHHTCCCS
T ss_pred             hHHHHHHHHHHHHHHHcC-CEEEEEEChhhhCccCC
Confidence            677889999999998765 89999999999988765

>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=99.73  E-value=4.2e-19  Score=169.81  Aligned_cols=110  Identities=22%  Similarity=0.377  Sum_probs=91.7

Q ss_pred             cccCCCCeeeCcchHHHHHHHHHhhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          353 AIKNNGDIILHPSLQRRIQHLAKATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       353 ~~~~l~~vVg~~~~~~~l~~~~~~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      |..+|+||+|.+++++.|.+++..+.++.    .+..+++++|||||||||||++|++||+.++.+|+.++++++.. +.
T Consensus         4 p~~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~   83 (247)
T d1ixza_           4 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV   83 (247)
T ss_dssp             CSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCT
T ss_pred             CCCcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhccc
Confidence            45689999999999999999887765542    22345689999999999999999999999999999999988754 55


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +++...++.+|+.|+... ++||||||||.|+++|.
T Consensus        84 g~~~~~l~~~f~~a~~~~-p~Ii~iDeid~l~~~r~  118 (247)
T d1ixza_          84 GVGAARVRDLFETAKRHA-PCIVFIDEIDAVGRKRG  118 (247)
T ss_dssp             THHHHHHHHHHHHHTTSS-SEEEEEETHHHHHC---
T ss_pred             cHHHHHHHHHHHHHHHcC-CEEEEEEChhhhCccCC
Confidence            678889999999998766 89999999999988764

>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=99.66  E-value=2.1e-17  Score=158.76  Aligned_cols=107  Identities=28%  Similarity=0.511  Sum_probs=90.5

Q ss_pred             CCCCeeeCcchHHHHHHHHHh-hcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-chhH
Q 012305          356 NNGDIILHPSLQRRIQHLAKA-TANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LGAQ  429 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~-~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~~e  429 (466)
                      +|+||+|.+..++.|++.+.. +.++.    .+..+++++|||||||||||++++++|..++.+|+.++++++.. +.++
T Consensus         2 ~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g~   81 (258)
T d1e32a2           2 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE   81 (258)
T ss_dssp             CGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTTH
T ss_pred             ChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhccccccc
Confidence            589999999999999987653 44432    23356689999999999999999999999999999999988754 5667


Q ss_pred             HHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          430 AVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       430 ~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      ....++.+|+.|+... ++||||||+|.++++|.
T Consensus        82 ~~~~l~~~f~~A~~~~-p~il~iDeid~l~~~r~  114 (258)
T d1e32a2          82 SESNLRKAFEEAEKNA-PAIIFIDELDAIAPKRE  114 (258)
T ss_dssp             HHHHHHHHHHHHHHTC-SEEEEESSGGGTCCHHH
T ss_pred             HHHHHHHHHHHHHhcC-CeEEEehhhhhhccCCC
Confidence            7889999999999766 89999999999987764

>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=99.66  E-value=1.9e-17  Score=163.12  Aligned_cols=106  Identities=23%  Similarity=0.356  Sum_probs=85.0

Q ss_pred             CeeeCcchHHHHHHHHHh------hccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc---cchhH
Q 012305          359 DIILHPSLQRRIQHLAKA------TANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA---PLGAQ  429 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~------~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~---~~~~e  429 (466)
                      .||||+++++.|...+..      +.....+..|++++|||||||||||++|++||+.++.+|+.++++.+.   .++++
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~   94 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   94 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeee
Confidence            489999999999876521      112222345779999999999999999999999999999999998874   36777


Q ss_pred             HHHHHHHHHhhhhhc----cCceEEEeccccccccccCC
Q 012305          430 AVTKIHEIFDWAKKS----KKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       430 ~~~~l~~lf~~A~~~----~~~~iLflDEid~l~~~r~~  464 (466)
                      +...++.+|..+...    .+++||||||||.+++.+.+
T Consensus        95 ~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~  133 (309)
T d1ofha_          95 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEY  133 (309)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSC
T ss_pred             ccccccccchhhhcccccccCCceEEehhhhhhhhhccC
Confidence            788889999887642    23689999999999987765

>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=99.60  E-value=9.1e-17  Score=154.87  Aligned_cols=108  Identities=28%  Similarity=0.482  Sum_probs=89.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHH-hhcccc----ccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-ch
Q 012305          354 IKNNGDIILHPSLQRRIQHLAK-ATANTK----IHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-LG  427 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~-~~~~~~----~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-~~  427 (466)
                      ..+|++|+|.+++++.|.+.+. .+.++.    .+..++++||||||||||||+++++||..+|.+|+.++++++.. +.
T Consensus         3 ~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~   82 (265)
T d1r7ra3           3 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF   82 (265)
T ss_dssp             CCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCT
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccc
Confidence            4589999999999999988654 333322    22345589999999999999999999999999999999888743 55


Q ss_pred             hHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          428 AQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       428 ~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ++....++.+|..|+... ++||||||+|.++.++
T Consensus        83 ~~~~~~l~~~f~~A~~~~-p~il~ideid~l~~~~  116 (265)
T d1r7ra3          83 GESEANVREIFDKARQAA-PCVLFFDELDSIAKAR  116 (265)
T ss_dssp             TTHHHHHHHHHHHHHHTC-SEEEEESSGGGTCCHH
T ss_pred             cchHHHHHHHHHHHHhcC-CcceeHHhhhhccccC
Confidence            677788999999998766 7999999999998765

>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=99.60  E-value=3.8e-16  Score=148.87  Aligned_cols=105  Identities=25%  Similarity=0.291  Sum_probs=78.9

Q ss_pred             CCCeeeCcchHHHHH-HHHHhhccccc-cccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc--cchhHHHH
Q 012305          357 NGDIILHPSLQRRIQ-HLAKATANTKI-HQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA--PLGAQAVT  432 (466)
Q Consensus       357 l~~vVg~~~~~~~l~-~~~~~~~~~~~-~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~--~~~~e~~~  432 (466)
                      .+.+||..+.+..+. +....+...+. ...|+++||||||||||||++|++||+.++.+|+.++++++.  ..+.....
T Consensus         8 ~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~~   87 (246)
T d1d2na_           8 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQ   87 (246)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHH
T ss_pred             ccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchhh
Confidence            356888665555543 33333333332 234678999999999999999999999999999999987642  34444456


Q ss_pred             HHHHHHhhhhhccCceEEEecccccccccc
Q 012305          433 KIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       433 ~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      .++.+|+.|..+. ++||||||||.+++.+
T Consensus        88 ~i~~if~~A~~~~-p~il~iDEid~l~~~~  116 (246)
T d1d2na_          88 AMKKIFDDAYKSQ-LSCVVVDDIERLLDYV  116 (246)
T ss_dssp             HHHHHHHHHHTSS-EEEEEECCHHHHTTCB
T ss_pred             hhhhhhhhhhhcc-cceeehhhhhhHhhhc
Confidence            7899999999766 8999999999987654

>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=99.55  E-value=5.6e-16  Score=145.62  Aligned_cols=99  Identities=24%  Similarity=0.376  Sum_probs=75.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +.+|+++||++++++.|..++...   ...+.++.|+|||||||||||++|++||++++.++..+++.+....+     .
T Consensus         5 P~~~~divGqe~~~~~l~~~i~~~---~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~~-----~   76 (238)
T d1in4a2           5 PKSLDEFIGQENVKKKLSLALEAA---KMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQG-----D   76 (238)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHH---HHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHH-----H
T ss_pred             CCcHHHcCChHHHHHHHHHHHHHH---HhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccHH-----H
Confidence            457899999999999998776542   22334456899999999999999999999999999999887764322     2


Q ss_pred             HHHHHhhhhhccCceEEEeccccccccccC
Q 012305          434 IHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       434 l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      +...+..   ...++++||||++.+.+..+
T Consensus        77 ~~~~~~~---~~~~~~~~ide~~~~~~~~~  103 (238)
T d1in4a2          77 MAAILTS---LERGDVLFIDEIHRLNKAVE  103 (238)
T ss_dssp             HHHHHHH---CCTTCEEEEETGGGCCHHHH
T ss_pred             HHHHHHh---hccCCchHHHHHHHhhhHHH
Confidence            3333332   34478999999999976543

>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=99.55  E-value=8.3e-16  Score=144.63  Aligned_cols=99  Identities=25%  Similarity=0.471  Sum_probs=74.7

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcccchhHHHHH
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAPLGAQAVTK  433 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~~~~e~~~~  433 (466)
                      +.+|+++||++++++.|..++....   .+..++.|+|||||||||||++|+++|+.++.++..++++++...+. ....
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~---~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~~~-~~~~   80 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAK---ARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGD-LAAI   80 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHT---TSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSHHH-HHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHH---hcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccchh-hHHH
Confidence            4579999999999999988765533   33445678999999999999999999999999999999887654321 1111


Q ss_pred             HHHHHhhhhhccCceEEEecccccccccc
Q 012305          434 IHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       434 l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      +..      ....++++||||+|.+....
T Consensus        81 ~~~------~~~~~~i~~iDe~~~~~~~~  103 (239)
T d1ixsb2          81 LAN------SLEEGDILFIDEIHRLSRQA  103 (239)
T ss_dssp             HHT------TCCTTCEEEEETGGGCCHHH
T ss_pred             HHh------hccCCCeeeeecccccchhH
Confidence            111      12336799999999997654

>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=99.42  E-value=2.7e-14  Score=140.40  Aligned_cols=73  Identities=15%  Similarity=0.185  Sum_probs=61.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC--CcchhhcCCCccc-chhHHHHHHHHHHhhhhhccCceEEEeccccccccccC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG--LDYAMMTGGDVAP-LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~--~~~~~v~~~~l~~-~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .++|||||||||||++|++||..++  .+|+.++++++.. +.+++...++.+|+.++.   ++||||||||.+.+.|+
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~---~~ilf~DEid~~~~~r~  199 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ---HRVIVIDSLKNVIGAAG  199 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH---CSEEEEECCTTTC----
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh---ccEEEeehhhhhccccc
Confidence            3466799999999999999999986  6788999998764 777889999999999974   67999999999998885

>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=99.26  E-value=3e-12  Score=120.32  Aligned_cols=109  Identities=21%  Similarity=0.315  Sum_probs=74.1

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccc---------cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANT---------KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA  424 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~---------~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~  424 (466)
                      +.+|+++||++..++.|..++..+...         ..+..+.+++|||||||||||++|++||++++.+++.++++++.
T Consensus        10 P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~~   89 (253)
T d1sxja2          10 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVR   89 (253)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccch
Confidence            446899999999999998876543321         11223446899999999999999999999999999999988764


Q ss_pred             cchhHHHHHHHHHH-------------hhhhhccCceEEEeccccccccccC
Q 012305          425 PLGAQAVTKIHEIF-------------DWAKKSKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       425 ~~~~e~~~~l~~lf-------------~~A~~~~~~~iLflDEid~l~~~r~  463 (466)
                      .... ....+...+             .......+..++++||+|.+....+
T Consensus        90 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~  140 (253)
T d1sxja2          90 SKTL-LNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDR  140 (253)
T ss_dssp             CHHH-HHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTST
T ss_pred             hhHH-HHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchh
Confidence            3110 000000000             0111233468999999999876554

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.24  E-value=8.8e-13  Score=122.88  Aligned_cols=99  Identities=27%  Similarity=0.435  Sum_probs=65.4

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC-----CcchhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG-----LDYAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~~~~l~~~~~  428 (466)
                      +.+|+|+||++.++..|..++..   .     ...|+|||||||||||++|++|++.++     .+++.+++++....  
T Consensus        20 P~~~~diig~~~~~~~l~~~i~~---~-----~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~--   89 (231)
T d1iqpa2          20 PQRLDDIVGQEHIVKRLKHYVKT---G-----SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGI--   89 (231)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHH---T-----CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHH--
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc---C-----CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccch--
Confidence            34789999999999988876542   1     223799999999999999999999874     35666777653211  


Q ss_pred             HHH-HHHHHHHhh-hhhccCceEEEecccccccccc
Q 012305          429 QAV-TKIHEIFDW-AKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       429 e~~-~~l~~lf~~-A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ... ......... ......+.||||||+|.+..+.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~~~~  125 (231)
T d1iqpa2          90 NVIREKVKEFARTKPIGGASFKIIFLDEADALTQDA  125 (231)
T ss_dssp             HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHH
T ss_pred             hHHHHHHHHHHhhhhccCCCceEEeehhhhhcchhH
Confidence            111 111111111 1112346899999999987654

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.23  E-value=1.5e-12  Score=120.85  Aligned_cols=102  Identities=23%  Similarity=0.241  Sum_probs=66.3

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-----chhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-----YAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-----~~~v~~~~l~~~~~  428 (466)
                      +..|+|+||++++++.|..++..   .   ..  .|+|||||||||||++|+.+++.++..     ++.+++++...  .
T Consensus        11 P~~~~d~ig~~~~~~~L~~~~~~---~---~~--~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~--~   80 (224)
T d1sxjb2          11 PQVLSDIVGNKETIDRLQQIAKD---G---NM--PHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRG--I   80 (224)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHS---C---CC--CCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCS--H
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHc---C---CC--CeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCC--c
Confidence            45789999999998888776432   1   12  379999999999999999999988543     55566655422  1


Q ss_pred             HHHHH-HHHHHhhhh--hccCceEEEeccccccccccCCC
Q 012305          429 QAVTK-IHEIFDWAK--KSKKGLLLFIDEADAFLCDNQDF  465 (466)
Q Consensus       429 e~~~~-l~~lf~~A~--~~~~~~iLflDEid~l~~~r~~~  465 (466)
                      ..... +......-.  ...+..+|||||+|.+....++.
T Consensus        81 ~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~  120 (224)
T d1sxjb2          81 DVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQA  120 (224)
T ss_dssp             HHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHT
T ss_pred             eehhhHHHHHHHhhccCCCcceEEEEEecccccchhHHHH
Confidence            11111 111111110  12235799999999998765544

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.20  E-value=2.9e-12  Score=125.86  Aligned_cols=101  Identities=17%  Similarity=0.227  Sum_probs=73.5

Q ss_pred             CCeeeCcchHHHHHHHHHhhc-cccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc-----------
Q 012305          358 GDIILHPSLQRRIQHLAKATA-NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP-----------  425 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~-~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~-----------  425 (466)
                      ..||||+++++.|...+.... .......|..++||+||||||||.+|+.||..++.+|+.++++.+..           
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l~g~~  101 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAP  101 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCC
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhhcccC
Confidence            458999999999988654333 23344566678999999999999999999999999999988776532           


Q ss_pred             ---chhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          426 ---LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       426 ---~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                         .|....+.+..   ... ..+++||+|||||.++++-
T Consensus       102 ~gy~g~~~~~~l~~---~~~-~~~~~vvl~DeieKa~~~V  137 (315)
T d1r6bx3         102 PGYVGFDQGGLLTD---AVI-KHPHAVLLLDEIEKAHPDV  137 (315)
T ss_dssp             SCSHHHHHTTHHHH---HHH-HCSSEEEEEETGGGSCHHH
T ss_pred             CCccccccCChhhH---HHH-hCccchhhhcccccccchH
Confidence               22222222333   333 3458999999999988653

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=99.19  E-value=4.4e-12  Score=126.97  Aligned_cols=103  Identities=17%  Similarity=0.283  Sum_probs=72.2

Q ss_pred             CeeeCcchHHHHHHHHHh----------hc------------cccccccccccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          359 DIILHPSLQRRIQHLAKA----------TA------------NTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~----------~~------------~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      .||||+++++.+...+..          +.            .......|+.|+||+||||||||.+|+.||..++.+|+
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~i   97 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA   97 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhccccee
Confidence            389999999988765421          00            01123567899999999999999999999999999999


Q ss_pred             hhcCCCccc---chhHHHHHHHHHHhhhh---hccCceEEEeccccccccc
Q 012305          417 MMTGGDVAP---LGAQAVTKIHEIFDWAK---KSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       417 ~v~~~~l~~---~~~e~~~~l~~lf~~A~---~~~~~~iLflDEid~l~~~  461 (466)
                      .++++.+..   .|.+..+.+..++..+.   ...+++||||||+|.+.+.
T Consensus        98 r~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~  148 (364)
T d1um8a_          98 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRL  148 (364)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC---
T ss_pred             ehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhccc
Confidence            988877654   44444566777765432   2334799999999997653

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.15  E-value=4.4e-12  Score=117.60  Aligned_cols=99  Identities=26%  Similarity=0.360  Sum_probs=61.8

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-----chhhcCCCcccchh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-----YAMMTGGDVAPLGA  428 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-----~~~v~~~~l~~~~~  428 (466)
                      +..|+|+||++++++.|..++..      +..|  |+|||||||||||++++++++.++..     ++.++.++..  +.
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~------~~~~--~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~--~~   79 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDE------GKLP--HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDR--GI   79 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHT------TCCC--CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCC--SH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc------CCCC--eEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccC--Ce
Confidence            45789999999999888776532      1222  79999999999999999999987432     2333333322  11


Q ss_pred             HHHHH-HHHHHhhh-hhccCceEEEecccccccccc
Q 012305          429 QAVTK-IHEIFDWA-KKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       429 e~~~~-l~~lf~~A-~~~~~~~iLflDEid~l~~~r  462 (466)
                      ..... ....+... .......+|||||+|.+....
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~~~  115 (227)
T d1sxjc2          80 DVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAA  115 (227)
T ss_dssp             HHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHH
T ss_pred             eeeecchhhccccccccCCCeEEEEEeccccchhhH
Confidence            11111 11111111 112224699999999987553

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.12  E-value=8.9e-12  Score=117.15  Aligned_cols=103  Identities=17%  Similarity=0.251  Sum_probs=64.5

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchh-------------hcC
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAM-------------MTG  420 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~-------------v~~  420 (466)
                      +..|+|+||++++++.|..++..       +.++.++|||||||||||++|+.+++.++.+...             +..
T Consensus         8 P~~~~dlig~~~~~~~L~~~i~~-------~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~   80 (239)
T d1njfa_           8 PQTFADVVGQEHVLTALANGLSL-------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQ   80 (239)
T ss_dssp             CSSGGGSCSCHHHHHHHHHHHHT-------TCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHH
T ss_pred             CCCHHHccChHHHHHHHHHHHHc-------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHc
Confidence            35789999999999988766432       2233469999999999999999999988432110             000


Q ss_pred             C---Ccccc---hhHHHHHHHHHHhhhhh---ccCceEEEeccccccccccC
Q 012305          421 G---DVAPL---GAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAFLCDNQ  463 (466)
Q Consensus       421 ~---~l~~~---~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l~~~r~  463 (466)
                      +   ++...   .......++.+++.+..   .++..||||||+|.|....+
T Consensus        81 ~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q  132 (239)
T d1njfa_          81 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSF  132 (239)
T ss_dssp             TCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHH
T ss_pred             CCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHH
Confidence            0   11100   00112234445544432   23457999999999975543

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.10  E-value=1.5e-11  Score=120.77  Aligned_cols=100  Identities=18%  Similarity=0.267  Sum_probs=69.1

Q ss_pred             CeeeCcchHHHHHHHHHhh-ccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------
Q 012305          359 DIILHPSLQRRIQHLAKAT-ANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------  425 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~-~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------  425 (466)
                      .|+||+++++.|...+... .....+..|..++||+||||||||.+|+.||..+   +.+++.++++.+..         
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~~L~g  103 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIG  103 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC--
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhhhhhcC
Confidence            3899999999997755433 3334445666689999999999999999999988   56777777766532         


Q ss_pred             -----chhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          426 -----LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       426 -----~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                           .|.+..+   .+.+..+. .+++||||||||.+.++-
T Consensus       104 ~~~gyvG~~~~~---~l~~~~~~-~p~~Vvl~DEieK~~~~v  141 (315)
T d1qvra3         104 APPGYVGYEEGG---QLTEAVRR-RPYSVILFDEIEKAHPDV  141 (315)
T ss_dssp             ---------------CHHHHHHH-CSSEEEEESSGGGSCHHH
T ss_pred             CCCCCcCcccCC---hHHHHHHh-CCCcEEEEehHhhcCHHH
Confidence                 1111112   23344444 448999999999987653

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.04  E-value=5.3e-11  Score=110.37  Aligned_cols=99  Identities=22%  Similarity=0.343  Sum_probs=62.1

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh------CCcchhhcCCCcccch
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS------GLDYAMMTGGDVAPLG  427 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l------~~~~~~v~~~~l~~~~  427 (466)
                      +..|+++||++++++.|..++.   +.   .  ..++|||||||||||++++++++.+      +..++.++++......
T Consensus         8 P~~~~diig~~~~~~~l~~~i~---~~---~--~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~   79 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLK---SA---N--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGIS   79 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTT---CT---T--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHH---cC---C--CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccch
Confidence            4578999999999888876532   11   1  2369999999999999999999986      3344445544432210


Q ss_pred             hHHHHHHHHHH------------hhhhhccCceEEEecccccccccc
Q 012305          428 AQAVTKIHEIF------------DWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       428 ~e~~~~l~~lf------------~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                       .....+....            .... ..+..+|||||+|.+....
T Consensus        80 -~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~viiiDe~d~l~~~~  124 (237)
T d1sxjd2          80 -IVREKVKNFARLTVSKPSKHDLENYP-CPPYKIIILDEADSMTADA  124 (237)
T ss_dssp             -HHTTHHHHHHHSCCCCCCTTHHHHSC-CCSCEEEEETTGGGSCHHH
T ss_pred             -HHHHHHHHHhhhhhhhhhHHHHhhcc-ccCceEEEEecccccCHHH
Confidence             1111111111            1111 2235699999999987653

>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=98.98  E-value=1.6e-11  Score=122.63  Aligned_cols=75  Identities=20%  Similarity=0.061  Sum_probs=56.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc--chhHHHHHHHHHHhhhhh-----ccCceEEEecccccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP--LGAQAVTKIHEIFDWAKK-----SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~--~~~e~~~~l~~lf~~A~~-----~~~~~iLflDEid~l~~  460 (466)
                      +++|||||||||||++|++||+.+|.+|+.+++++.-.  +..........+|+.+..     ...+.++||||||.|..
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~~l~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~DeiD~l~~  234 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLRD  234 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHHHHGGGTTCSCEEETTCCCSTTTTTTCCCCSHHHHHHTTHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHHHHHhHHHHHHHHHHHHHHhhhhccCCCCeEEEehHhhccc
Confidence            68999999999999999999999999999999988643  223333444456666532     12358999999999865


Q ss_pred             cc
Q 012305          461 DN  462 (466)
Q Consensus       461 ~r  462 (466)
                      .+
T Consensus       235 ~~  236 (362)
T d1svma_         235 YL  236 (362)
T ss_dssp             HH
T ss_pred             cc
Confidence            43

>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=98.96  E-value=2.2e-10  Score=105.95  Aligned_cols=105  Identities=18%  Similarity=0.226  Sum_probs=65.1

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccch
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLG  427 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~  427 (466)
                      .++.++|+++|..+.....+..+...+.++..   .+..++||||||||||+|+.++++.+   +..++.++..++....
T Consensus         3 ln~~~tFdnF~vg~~N~~a~~~~~~~~~~~~~---~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~   79 (213)
T d1l8qa2           3 LNPKYTLENFIVGEGNRLAYEVVKEALENLGS---LYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAM   79 (213)
T ss_dssp             CCTTCCSSSCCCCTTTHHHHHHHHHHHHTTTT---SCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHH
T ss_pred             CCCCCChhhccCCCcHHHHHHHHHHHHhCcCC---CCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHH
Confidence            35678999987655555555444444433322   23459999999999999999999988   4455555554443211


Q ss_pred             hHH--HHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          428 AQA--VTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       428 ~e~--~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                      .+.  ......+++...   ..++|+||+||.+.++
T Consensus        80 ~~~~~~~~~~~~~~~~~---~~dll~iDDi~~i~~~  112 (213)
T d1l8qa2          80 VEHLKKGTINEFRNMYK---SVDLLLLDDVQFLSGK  112 (213)
T ss_dssp             HHHHHHTCHHHHHHHHH---TCSEEEEECGGGGTTC
T ss_pred             HHHHHccchhhHHHHHh---hccchhhhhhhhhcCc
Confidence            111  111223333322   2579999999998764

>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=98.92  E-value=8.1e-10  Score=103.25  Aligned_cols=108  Identities=13%  Similarity=0.112  Sum_probs=70.6

Q ss_pred             cccccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC----CcchhhcCCCccc-
Q 012305          351 VEAIKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG----LDYAMMTGGDVAP-  425 (466)
Q Consensus       351 ~~~~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~----~~~~~v~~~~l~~-  425 (466)
                      ..+.+.++.++|.+...+.|..++...-.  ..+.++.++|||||||||||++++.|++.+.    ..++.+++..... 
T Consensus         9 l~~~y~p~~l~~Re~ei~~l~~~l~~~l~--~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~   86 (276)
T d1fnna2           9 FSPSYVPKRLPHREQQLQQLDILLGNWLR--NPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNF   86 (276)
T ss_dssp             GSTTCCCSCCTTCHHHHHHHHHHHHHHHH--STTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHh--CCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhh
Confidence            45566667889988888888776654322  2234567899999999999999999999873    3444554433211 


Q ss_pred             -----------------chhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          426 -----------------LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       426 -----------------~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                                       .+.........+++.........++++|++|.+..
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~  138 (276)
T d1fnna2          87 TAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAP  138 (276)
T ss_dssp             HHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCH
T ss_pred             hhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhh
Confidence                             11111223344445555555578889999998764

>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=98.92  E-value=6.8e-10  Score=104.41  Aligned_cols=111  Identities=14%  Similarity=0.112  Sum_probs=68.5

Q ss_pred             ccccCCCCeeeCcchHHHHHHHH-HhhccccccccccccccccCCCCCCchHHHHHHHHhhC---------CcchhhcCC
Q 012305          352 EAIKNNGDIILHPSLQRRIQHLA-KATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG---------LDYAMMTGG  421 (466)
Q Consensus       352 ~~~~~l~~vVg~~~~~~~l~~~~-~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~---------~~~~~v~~~  421 (466)
                      .+.+.++.++|.+.-.+.|..++ ..+.+...+..++.+++||||||||||++++++++.++         ..++.+++.
T Consensus        10 ~~~~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (287)
T d1w5sa2          10 DENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAF   89 (287)
T ss_dssp             STTCCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGG
T ss_pred             CCccCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccc
Confidence            34455677888888778877654 44444444444455788999999999999999998872         122222322


Q ss_pred             Ccc------------------cchhHHHHHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          422 DVA------------------PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       422 ~l~------------------~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                      ...                  ..+.........++........+.++++||+|.+....
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~  148 (287)
T d1w5sa2          90 NAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSP  148 (287)
T ss_dssp             GCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCT
T ss_pred             cccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEecccc
Confidence            211                  11111222233444444445557899999999987543

>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=98.89  E-value=8.6e-10  Score=100.24  Aligned_cols=98  Identities=19%  Similarity=0.322  Sum_probs=69.3

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcc-
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVA-  424 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~-  424 (466)
                      .++.+||.+.-+..+..++.   ....     .|+||+||||+|||.++..||...          +..++.++.+.+. 
T Consensus        20 ~ld~~igRd~Ei~~l~~iL~---r~~k-----~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiA   91 (195)
T d1jbka_          20 KLDPVIGRDEEIRRTIQVLQ---RRTK-----NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVA   91 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHT---SSSS-----CEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHT
T ss_pred             CCCCCcCcHHHHHHHHHHHh---ccCC-----CCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhc
Confidence            45778998776666655432   2222     269999999999999999999865          4556666655442 


Q ss_pred             --cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 --PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 --~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                        .+.++-...+..+++.+.......||||||++.|.+.
T Consensus        92 g~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~  130 (195)
T d1jbka_          92 GAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGA  130 (195)
T ss_dssp             TTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT-
T ss_pred             cCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcC
Confidence              2445666778888887755444579999999999753

>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=98.89  E-value=1.9e-10  Score=117.72  Aligned_cols=83  Identities=23%  Similarity=0.371  Sum_probs=61.9

Q ss_pred             eeeCcchHHHHHHHHHh------hccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCccc---chhHH
Q 012305          360 IILHPSLQRRIQHLAKA------TANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVAP---LGAQA  430 (466)
Q Consensus       360 vVg~~~~~~~l~~~~~~------~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~~---~~~e~  430 (466)
                      ||||+++++.|.-.+..      +.........+.||||.||||||||++|+.||+.++.||+.++|..+..   .|.+-
T Consensus        16 VvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fTeaGYvG~DV   95 (443)
T d1g41a_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEV   95 (443)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCCCT
T ss_pred             ccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceeeecceeecch
Confidence            89999999998765421      1112223345679999999999999999999999999999999998865   33444


Q ss_pred             HHHHHHHHhhhh
Q 012305          431 VTKIHEIFDWAK  442 (466)
Q Consensus       431 ~~~l~~lf~~A~  442 (466)
                      .+.++.+.+.+.
T Consensus        96 esii~~L~~~a~  107 (443)
T d1g41a_          96 DSIIRDLTDSAM  107 (443)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHh
Confidence            556666665543

>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=98.87  E-value=1.6e-10  Score=109.30  Aligned_cols=94  Identities=21%  Similarity=0.299  Sum_probs=68.1

Q ss_pred             CeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCcccchhHH--H--
Q 012305          359 DIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAPLGAQA--V--  431 (466)
Q Consensus       359 ~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~~~~e~--~--  431 (466)
                      ++||++..++.+..-+..+...+.+      |||+||||||||++|++|+..+   ..+++.++|..+.......  .  
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~p------vlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~lfg~   74 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECP------VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGY   74 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSC------EEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCB
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCC------EEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHHhcCc
Confidence            4789999999998877777666665      9999999999999999999887   3467778887664321110  0  


Q ss_pred             ---------HHHHHHHhhhhhccCceEEEecccccccccc
Q 012305          432 ---------TKIHEIFDWAKKSKKGLLLFIDEADAFLCDN  462 (466)
Q Consensus       432 ---------~~l~~lf~~A~~~~~~~iLflDEid~l~~~r  462 (466)
                               ....++|+.+.    +++|||||||.|....
T Consensus        75 ~~~~~~~~~~~~~g~l~~a~----gGtL~l~~i~~L~~~~  110 (247)
T d1ny5a2          75 EKGAFTGAVSSKEGFFELAD----GGTLFLDEIGELSLEA  110 (247)
T ss_dssp             CTTSSTTCCSCBCCHHHHTT----TSEEEEESGGGCCHHH
T ss_pred             ccCCcCCcccccCCHHHccC----CCEEEEeChHhCCHHH
Confidence                     01123455543    7899999999987653

>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=98.85  E-value=3e-10  Score=106.10  Aligned_cols=51  Identities=22%  Similarity=0.369  Sum_probs=39.2

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +..|+++||++.+...|..+..   .    ...+.++|||||||||||++++++++.+
T Consensus         7 P~~~~diig~~~~~~~L~~~~~---~----~~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSD---Q----PRDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTT---C----TTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHH---c----CCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            3468999999988877764421   1    1112379999999999999999999986

>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=98.82  E-value=2.3e-09  Score=102.35  Aligned_cols=97  Identities=18%  Similarity=0.237  Sum_probs=70.9

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCcc-
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVA-  424 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~-  424 (466)
                      .++.+||.+.-...+..++..   ...     .|+||+||||+|||.++..||...          +..++.++++.+. 
T Consensus        16 ~ld~~igRd~Ei~~l~~iL~r---~~k-----~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~lia   87 (268)
T d1r6bx2          16 GIDPLIGREKELERAIQVLCR---RRK-----NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA   87 (268)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS---SSS-----CEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C
T ss_pred             CCCcccChHHHHHHHHHHHhc---Ccc-----CCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhc
Confidence            457789998776666655321   111     369999999999999999999875          4567777776654 


Q ss_pred             --cchhHHHHHHHHHHhhhhhccCceEEEeccccccccc
Q 012305          425 --PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLCD  461 (466)
Q Consensus       425 --~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~~  461 (466)
                        .+.++-...+..+++.+...+ ..||||||++.|++.
T Consensus        88 g~~~~g~~e~r~~~i~~~~~~~~-~iIlfiDeih~l~~~  125 (268)
T d1r6bx2          88 GTKYRGDFEKRFKALLKQLEQDT-NSILFIDEIHTIIGA  125 (268)
T ss_dssp             CCCCSSCHHHHHHHHHHHHSSSS-CEEEEETTTTTTTTS
T ss_pred             cCccchhHHHHHHHHHHHhhccC-CceEEecchHHHhcC
Confidence              245566778889999887655 789999999999753

>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=98.80  E-value=1.2e-09  Score=102.72  Aligned_cols=44  Identities=20%  Similarity=0.278  Sum_probs=37.7

Q ss_pred             cccccccccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc
Q 012305          381 KIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA  424 (466)
Q Consensus       381 ~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~  424 (466)
                      ......+++||||||||||||++|++||..++.+|+.++++++.
T Consensus        26 ~~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~~   69 (273)
T d1gvnb_          26 KKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFK   69 (273)
T ss_dssp             CCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHH
T ss_pred             ccCCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHHH
Confidence            33444568899999999999999999999999999999987653

>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=98.73  E-value=1.2e-09  Score=107.19  Aligned_cols=50  Identities=22%  Similarity=0.305  Sum_probs=38.6

Q ss_pred             ccCCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          354 IKNNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.+|||++.++..|.-.+.   ....     .||||+||||||||++|+.++..+
T Consensus         3 ~~~f~~I~Gq~~~kral~laa~---~~~~-----h~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_           3 VFPFSAIVGQEDMKLALLLTAV---DPGI-----GGVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHH---CGGG-----CCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             CCChhhccCcHHHHHHHHHHHh---ccCC-----CeEEEECCCCccHHHHHHHHHHhC
Confidence            4578999999998886653221   1111     379999999999999999999876

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.65  E-value=1.4e-08  Score=101.77  Aligned_cols=97  Identities=22%  Similarity=0.351  Sum_probs=63.0

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh----------CCcchhhcCCCccc
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS----------GLDYAMMTGGDVAP  425 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l----------~~~~~~v~~~~l~~  425 (466)
                      .++.+||.+.-+.++..++..  ..+      .|+||+||||+|||.++..||...          +..++.++.+.+..
T Consensus        20 ~ld~~~gr~~ei~~~~~~L~r--~~k------~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~a   91 (387)
T d1qvra2          20 KLDPVIGRDEEIRRVIQILLR--RTK------NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA   91 (387)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHC--SSC------CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----
T ss_pred             CCCCCcCcHHHHHHHHHHHhc--CCC------CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhc
Confidence            467799988777776665331  112      259999999999999999998765          45567777766542


Q ss_pred             ---chhHHHHHHHHHHhhhhhccCceEEEecccccccc
Q 012305          426 ---LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       426 ---~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~l~~  460 (466)
                         +.++-...+..++..+.....+.||||||++.+++
T Consensus        92 g~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~  129 (387)
T d1qvra2          92 GAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVG  129 (387)
T ss_dssp             ------CHHHHHHHHHHHHHTTCSSEEEEECCC-----
T ss_pred             ccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhc
Confidence               34566677888888776655468899999999975

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.48  E-value=2.8e-08  Score=90.94  Aligned_cols=78  Identities=14%  Similarity=0.203  Sum_probs=45.8

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCc------c-------hhhc---CCCcccc---h---hHHHHHHHHHHhhhhh-
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLD------Y-------AMMT---GGDVAPL---G---AQAVTKIHEIFDWAKK-  443 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~------~-------~~v~---~~~l~~~---~---~e~~~~l~~lf~~A~~-  443 (466)
                      +.++||+||||+|||++|+.+++.+...      .       ..+.   ..++...   .   .-....++.+.+.+.. 
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~~~~~~~  103 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEH  103 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccccccchhhHHhhhhhhc
Confidence            3459999999999999999999977211      0       0000   0111000   0   0113344445544332 


Q ss_pred             --ccCceEEEeccccccccccCC
Q 012305          444 --SKKGLLLFIDEADAFLCDNQD  464 (466)
Q Consensus       444 --~~~~~iLflDEid~l~~~r~~  464 (466)
                        .+...|+||||+|.|....++
T Consensus       104 ~~~~~~kviIide~d~l~~~a~n  126 (207)
T d1a5ta2         104 ARLGGAKVVWVTDAALLTDAAAN  126 (207)
T ss_dssp             CTTSSCEEEEESCGGGBCHHHHH
T ss_pred             cccCccceEEechhhhhhhhhhH
Confidence              234579999999999876543

>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=98.26  E-value=5.2e-07  Score=83.55  Aligned_cols=52  Identities=19%  Similarity=0.209  Sum_probs=40.0

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      ..++++|.....+.+...            ..++++||||+|||||++++.++..++..+..++
T Consensus        10 ~~~~f~GR~~el~~l~~~------------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~   61 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL------------RAPITLVLGLRRTGKSSIIKIGINELNLPYIYLD   61 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT------------CSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEE
T ss_pred             ChhhCCChHHHHHHHHhc------------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEE
Confidence            447899998877776531            1246999999999999999999998877655443

>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=98.23  E-value=3.8e-07  Score=82.75  Aligned_cols=75  Identities=12%  Similarity=0.140  Sum_probs=50.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC------CcchhhcCCCcccchhHHHHHHHHHHhhhhh---ccCceEEEecccccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG------LDYAMMTGGDVAPLGAQAVTKIHEIFDWAKK---SKKGLLLFIDEADAF  458 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~------~~~~~v~~~~l~~~~~e~~~~l~~lf~~A~~---~~~~~iLflDEid~l  458 (466)
                      .++|||||||||||++|..+++...      .+|+.+.... ...+   ...++.+.+.+..   .+...|+||||+|.|
T Consensus        16 ~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~-~~I~---Id~IR~i~~~~~~~~~~~~~KviIId~ad~l   91 (198)
T d2gnoa2          16 ISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG-ENIG---IDDIRTIKDFLNYSPELYTRKYVIVHDCERM   91 (198)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS-SCBC---HHHHHHHHHHHTSCCSSSSSEEEEETTGGGB
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCc-CCCC---HHHHHHHHHHHhhCcccCCCEEEEEeCcccc
Confidence            4899999999999999999998762      1344444321 1123   3344555555443   234579999999999


Q ss_pred             ccccCCCC
Q 012305          459 LCDNQDFI  466 (466)
Q Consensus       459 ~~~r~~~l  466 (466)
                      ....+++|
T Consensus        92 ~~~aqNaL   99 (198)
T d2gnoa2          92 TQQAANAF   99 (198)
T ss_dssp             CHHHHHHT
T ss_pred             chhhhhHH
Confidence            87666543

>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=98.12  E-value=3.6e-07  Score=77.70  Aligned_cols=31  Identities=29%  Similarity=0.689  Sum_probs=27.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      ++|+|+|||||||||+|+.||..++.+|+..
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            4699999999999999999999999987643

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.04  E-value=1.2e-06  Score=76.29  Aligned_cols=25  Identities=32%  Similarity=0.701  Sum_probs=22.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      +|+|+||||||||||++.|+..++.
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            4899999999999999999998843

>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=98.03  E-value=5.9e-07  Score=78.02  Aligned_cols=31  Identities=16%  Similarity=0.260  Sum_probs=28.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +.|+|.|||||||||+|+.|+..+|.+++..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~~~~~~i~~   38 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAVFNTTSAWE   38 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHTTCEEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            6899999999999999999999999887644

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.98  E-value=9.5e-07  Score=76.21  Aligned_cols=30  Identities=50%  Similarity=0.883  Sum_probs=27.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +++|+|||||||||+|+.|+..+|++|+.+
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~~~i~~   35 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGLKYINV   35 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEec
Confidence            689999999999999999999999988653

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.92  E-value=5.3e-06  Score=75.72  Aligned_cols=73  Identities=25%  Similarity=0.287  Sum_probs=49.2

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWAK  442 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A~  442 (466)
                      +.-++|+||||+||||++-.||..+   |..+..++++..-.                     .+.+....+....+.++
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~a~   88 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQAAK   88 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHHHH
Confidence            3458899999999999998898766   67777777765411                     11122334455555554


Q ss_pred             hccCceEEEecccccccc
Q 012305          443 KSKKGLLLFIDEADAFLC  460 (466)
Q Consensus       443 ~~~~~~iLflDEid~l~~  460 (466)
                      ... .++||||-++....
T Consensus        89 ~~~-~d~ilIDTaGr~~~  105 (211)
T d2qy9a2          89 ARN-IDVLIADTAGRLQN  105 (211)
T ss_dssp             HTT-CSEEEECCCCCGGG
T ss_pred             HcC-CCEEEeccCCCccc
Confidence            333 78999999987654

>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=97.88  E-value=1.1e-06  Score=76.20  Aligned_cols=34  Identities=29%  Similarity=0.556  Sum_probs=30.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGD  422 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~  422 (466)
                      -|+|.|||||||||+|+.|++.+|.+++.+++.+
T Consensus         6 iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d~   39 (176)
T d1zp6a1           6 ILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDD   39 (176)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEecHHH
Confidence            4889999999999999999999999988876643

>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=97.84  E-value=2.4e-06  Score=74.24  Aligned_cols=31  Identities=32%  Similarity=0.562  Sum_probs=28.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +|++|.|+||+||||+++.||..+|++|+.+
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            4689999999999999999999999998864

>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=97.82  E-value=2.9e-06  Score=73.34  Aligned_cols=24  Identities=33%  Similarity=0.686  Sum_probs=22.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +||+|+||||||||++++.++..+
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            589999999999999999999887

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.77  E-value=1e-05  Score=73.54  Aligned_cols=72  Identities=24%  Similarity=0.287  Sum_probs=45.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCccc---------------------chhHHHHHHHHHHhhhhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDVAP---------------------LGAQAVTKIHEIFDWAKK  443 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l~~---------------------~~~e~~~~l~~lf~~A~~  443 (466)
                      +.++|+||||+||||++-.||..+   |..+..++++..-.                     .+.+....+......++.
T Consensus         7 ~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~~~~~~   86 (207)
T d1okkd2           7 RVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQAMKA   86 (207)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHHHHHHHHHHHH
Confidence            458899999999999988888776   66777666655311                     011112222222222332


Q ss_pred             ccCceEEEecccccccc
Q 012305          444 SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~  460 (466)
                      .. .++||||-++....
T Consensus        87 ~~-~d~ilIDTaGr~~~  102 (207)
T d1okkd2          87 RG-YDLLFVDTAGRLHT  102 (207)
T ss_dssp             HT-CSEEEECCCCCCTT
T ss_pred             CC-CCEEEcCccccchh
Confidence            23 68999999987654

>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=97.77  E-value=3.9e-06  Score=72.91  Aligned_cols=30  Identities=27%  Similarity=0.571  Sum_probs=27.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +++|.|+|||||||+++.||..+|++|+.+
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            577889999999999999999999998754

>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=97.74  E-value=4.3e-06  Score=72.98  Aligned_cols=31  Identities=32%  Similarity=0.583  Sum_probs=27.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      ++|+|.|+|||||||+++.||..+|.+|+..
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            3588999999999999999999999998753

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.69  E-value=1.6e-05  Score=72.56  Aligned_cols=37  Identities=22%  Similarity=0.277  Sum_probs=29.0

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      +..++|+||||+||||++-.||..+   |..+..++++..
T Consensus        11 p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~   50 (213)
T d1vmaa2          11 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTF   50 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeeccc
Confidence            3468899999999999988888766   666667766553

>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=97.68  E-value=6.3e-06  Score=70.91  Aligned_cols=31  Identities=16%  Similarity=0.268  Sum_probs=26.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +-|+|+||||+||||+|+.|+..++.+++.+
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~   34 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAF   34 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCeEEe
Confidence            4588999999999999999999998776543

>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=97.68  E-value=5.8e-06  Score=70.75  Aligned_cols=27  Identities=22%  Similarity=0.415  Sum_probs=24.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      -|+|+|||||||||+|+.|+..++..+
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~~~~   30 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLDNSA   30 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSSEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCE
Confidence            488999999999999999999997654

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.68  E-value=1.7e-05  Score=72.27  Aligned_cols=37  Identities=22%  Similarity=0.282  Sum_probs=25.1

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      +.-++|+||||+||||++-.||..+   |..+..++++..
T Consensus        12 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~   51 (211)
T d1j8yf2          12 PYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVY   51 (211)
T ss_dssp             SEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeecc
Confidence            3458889999999999988888776   667777776553

>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=97.66  E-value=7.1e-06  Score=70.65  Aligned_cols=31  Identities=26%  Similarity=0.370  Sum_probs=26.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +-++|+|||||||||+++.|+..++..++..
T Consensus         7 ~iivl~G~~GsGKsT~a~~La~~l~~~~~~~   37 (171)
T d1knqa_           7 HIYVLMGVSGSGKSAVASEVAHQLHAAFLDG   37 (171)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHTCEEEEG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeech
Confidence            3477899999999999999999998765443

>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=97.60  E-value=1.1e-05  Score=69.59  Aligned_cols=26  Identities=46%  Similarity=0.569  Sum_probs=23.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      -+|+|+|||||||||+++.|+..++.
T Consensus         6 ~~I~i~G~~GsGKTT~~~~La~~l~~   31 (174)
T d1y63a_           6 INILITGTPGTGKTSMAEMIAAELDG   31 (174)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            47999999999999999999999853

>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=97.59  E-value=9e-06  Score=71.98  Aligned_cols=30  Identities=23%  Similarity=0.310  Sum_probs=26.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .|+|.|||||||||+|+.|+..+|.+++.+
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~~~~~is~   34 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKYQLAHISA   34 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHHCCEECCH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEeh
Confidence            588999999999999999999998876543

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.58  E-value=2.9e-05  Score=70.44  Aligned_cols=35  Identities=23%  Similarity=0.275  Sum_probs=28.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      -++|+||||+||||++-.||..+   |..+..++++..
T Consensus        12 vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~   49 (207)
T d1ls1a2          12 LWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQ   49 (207)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccc
Confidence            36789999999999999998777   677777776654

>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=97.54  E-value=8e-06  Score=70.31  Aligned_cols=25  Identities=20%  Similarity=0.332  Sum_probs=22.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      .|+|+|+|||||||+|+.|+..++.
T Consensus         8 ~I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           8 TIFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4889999999999999999999854

>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=97.54  E-value=1.2e-05  Score=70.08  Aligned_cols=29  Identities=31%  Similarity=0.523  Sum_probs=25.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      +|+|.||||+||||+|+.|+..+|..++.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~   30 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHIS   30 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceec
Confidence            48899999999999999999999887654

>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=97.54  E-value=1.3e-05  Score=70.39  Aligned_cols=30  Identities=37%  Similarity=0.623  Sum_probs=26.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +++|.|||||||||+|+.|+..+|..++.+
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            488999999999999999999998776543

>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=97.47  E-value=1.9e-05  Score=69.79  Aligned_cols=30  Identities=27%  Similarity=0.440  Sum_probs=25.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .++|.|||||||||+|+.||..+|..++.+
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            477889999999999999999998776543

>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=97.46  E-value=1.6e-05  Score=70.37  Aligned_cols=30  Identities=27%  Similarity=0.386  Sum_probs=26.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|+|.||||+||||+|+.|+..+|..++.
T Consensus         7 ~iI~i~G~pGSGKsT~a~~La~~~g~~~i~   36 (194)
T d1qf9a_           7 NVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            468899999999999999999999876443

>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=97.42  E-value=2.5e-05  Score=69.34  Aligned_cols=30  Identities=17%  Similarity=0.330  Sum_probs=26.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      ..|+|.||||+||||+|+.|+..+|..++.
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~g~~~is   38 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLS   38 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            358889999999999999999999876543

>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=97.40  E-value=2.4e-05  Score=68.70  Aligned_cols=29  Identities=34%  Similarity=0.508  Sum_probs=25.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|+|.||||+||||+|+.|+..+|..++.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~~~is   30 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGTPHIS   30 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceee
Confidence            37899999999999999999999887654

>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=97.36  E-value=2.7e-05  Score=69.28  Aligned_cols=29  Identities=28%  Similarity=0.445  Sum_probs=25.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .++|.||||+||||+|+.||..+|..++.
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~g~~~is   36 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHFELKHLS   36 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHBCCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHCCeEEc
Confidence            57888999999999999999999876543

>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=97.36  E-value=3.6e-05  Score=66.41  Aligned_cols=25  Identities=20%  Similarity=0.327  Sum_probs=22.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +-|+|.|||||||||+++.|+..++
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3588999999999999999999884

>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=97.36  E-value=2.6e-05  Score=68.11  Aligned_cols=29  Identities=28%  Similarity=0.413  Sum_probs=25.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      +++|.||||+||||+|+.|+.++|..++.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~   30 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQIS   30 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            47889999999999999999999876553

>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=97.34  E-value=1.1e-05  Score=70.81  Aligned_cols=26  Identities=23%  Similarity=0.290  Sum_probs=22.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      .|+|+|+||+||||+|+.|+..++..
T Consensus        21 vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          21 TVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            46688999999999999999998543

>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=97.32  E-value=3.2e-05  Score=67.83  Aligned_cols=30  Identities=27%  Similarity=0.457  Sum_probs=25.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      .++|.||||+||||+|+.|+..+|..++.+
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            377889999999999999999998765443

>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=97.28  E-value=4e-05  Score=67.66  Aligned_cols=28  Identities=29%  Similarity=0.444  Sum_probs=25.3

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      -|+|.||||+||||+|+.||..+|..++
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~g~~~i   30 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKYGYTHL   30 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceE
Confidence            4789999999999999999999987764

>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=97.25  E-value=4.1e-05  Score=67.88  Aligned_cols=29  Identities=28%  Similarity=0.447  Sum_probs=25.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      .|+|.|||||||||+|+.|+..+|.+++.
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~~g~~~is   38 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQKYGYTHLS   38 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeEe
Confidence            48899999999999999999999876543

>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=97.25  E-value=4.7e-05  Score=67.51  Aligned_cols=24  Identities=25%  Similarity=0.535  Sum_probs=21.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      -|+|+|.||+||||+|+.|++.++
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            378999999999999999998873

>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=97.24  E-value=4.5e-05  Score=68.19  Aligned_cols=28  Identities=21%  Similarity=0.387  Sum_probs=24.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      -|.+.|||||||+|+|+.|+..+|.+++
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~i   32 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLL   32 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            4677899999999999999999988764

>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=97.22  E-value=4.9e-05  Score=63.98  Aligned_cols=23  Identities=43%  Similarity=0.616  Sum_probs=20.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -|+|+||||+||||+|+.|....
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            47889999999999999987655

>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=97.18  E-value=0.00023  Score=66.89  Aligned_cols=49  Identities=16%  Similarity=0.204  Sum_probs=34.3

Q ss_pred             CCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh
Q 012305          358 GDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       358 ~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+++|.+.-+++|...+.......     .+.|.|||..|+|||++|+.+.+..
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~~~~~-----~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEMCDLD-----SFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSS-----SEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             CceeCcHHHHHHHHHHHHhccCCC-----ceEEEEECCCCCCHHHHHHHHHHhh
Confidence            346787777777766544322221     2357899999999999999998763

>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=97.11  E-value=7.3e-05  Score=67.16  Aligned_cols=28  Identities=36%  Similarity=0.612  Sum_probs=24.0

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchh
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAM  417 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~  417 (466)
                      |.+.|||||||||+|+.|+.++|.+++.
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            4466999999999999999999987544

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.11  E-value=0.00018  Score=65.25  Aligned_cols=28  Identities=25%  Similarity=0.306  Sum_probs=23.3

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.|. ..++|+||||||||+++..++...
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~qia~~~   50 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVSRFVENA   50 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4444 468899999999999999998776

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=97.10  E-value=9.5e-05  Score=61.53  Aligned_cols=30  Identities=20%  Similarity=0.324  Sum_probs=23.3

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      ++..+|.+|+|+|||+++-.+....|..++
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~~~~~~~vl   37 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAYAAQGYKVL   37 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHHHTTTCCEE
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHcCCcEE
Confidence            467899999999999988766666655433

>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=97.08  E-value=0.00044  Score=68.26  Aligned_cols=129  Identities=19%  Similarity=0.180  Sum_probs=94.9

Q ss_pred             hHHHHHhhcccHHHHhhcchhhhhhchhhhhhHHHHhhhhHH---HHHHHHHhhHHHHhHhhhhhhhhhhhhhhhhcccc
Q 012305          155 DELARKRLQTDHEAQRRHNTELVKMQEESSIRKEQARRSTEE---QIQAQQRLTEKERAEIERETIRVKAMAEAEGRAHE  231 (466)
Q Consensus       155 d~l~r~r~q~E~e~~~~~~e~~~~~qees~~r~E~~r~~~~e---~~~~~r~~~e~e~~~~~~~~~~~~~~~e~e~~~~~  231 (466)
                      +.+.|+..+++++..++.++.    +..+..|+..+..++..   ++..++.+|..++..++....+++.++..+.....
T Consensus       256 ~~ler~I~qLe~E~~aL~ke~----d~~s~~rl~~le~el~~lee~~~~L~~~w~~ek~~l~~i~~Lk~~Le~lr~~le~  331 (387)
T d1qvra2         256 DALERKKLQLEIEREALKKEK----DPDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIEL  331 (387)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCS----SHHHHSCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcc----chHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567777888888888888873    34455565555555444   88889999999999999999999999999988888


Q ss_pred             cccchhhhhhHHHHHhhchhHHHHHHHhhhhhhhhhhhhhhhccccceeeeechhhhhhhheeecccCceehhhhhhhhh
Q 012305          232 AKLTEDHNRRMLIERINGEREKWLAAINTTFSHIEEGVRSLLTDRNKLVMTVGGATALAAGIYTTREGARVTWGYVNRIL  311 (466)
Q Consensus       232 ~~~~~d~~~~~~~~~~~~~r~~~l~~i~~~~~~l~~~~~~l~~d~~~~~~~v~~~~~~~~~V~~~k~g~~~~~~~v~~~l  311 (466)
                      +.++.|+..      +.+.++..++.+.+....+....    .+..++...|+               .+.+..+|++|+
T Consensus       332 A~r~gd~e~------AaeL~y~~ip~le~el~~l~~~~----~~~~lvr~~Vt---------------eedIA~VVSrWT  386 (387)
T d1qvra2         332 AERQYDLNR------AAELRYGELPKLEAEVEALSEKL----RGARFVRLEVT---------------EEDIAEIVSRWT  386 (387)
T ss_dssp             HTTTTCHHH------HHHHHTTHHHHHHHHHHHHHHHS----SSCSSCCSEEC---------------HHHHHHHHHTTS
T ss_pred             HHHcccHHH------HHHHhhchHHHHHHHHHHHHHHh----cCCCCCcCccC---------------HHHHHHHHHhhh
Confidence            888888877      45788888888887655443221    22223333444               466888999998


Q ss_pred             C
Q 012305          312 G  312 (466)
Q Consensus       312 g  312 (466)
                      |
T Consensus       387 G  387 (387)
T d1qvra2         387 G  387 (387)
T ss_dssp             S
T ss_pred             C
Confidence            7

>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=97.07  E-value=8.2e-05  Score=65.12  Aligned_cols=28  Identities=25%  Similarity=0.318  Sum_probs=23.7

Q ss_pred             cccccccCCCCCCchHHHHHHHHhhCCc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      +.-|||+|+|||||||+|+.++...+..
T Consensus        14 p~liil~G~pGsGKST~a~~l~~~~~~~   41 (172)
T d1yj5a2          14 PEVVVAVGFPGAGKSTFIQEHLVSAGYV   41 (172)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHTGGGTCE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhcCCE
Confidence            3568899999999999999998877654

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.00  E-value=9.8e-05  Score=71.38  Aligned_cols=68  Identities=15%  Similarity=0.155  Sum_probs=42.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcchhhcCCCcc-----------cchhHHHHHHHHHHhhhhhccCceEEEecccc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDYAMMTGGDVA-----------PLGAQAVTKIHEIFDWAKKSKKGLLLFIDEAD  456 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~~l~-----------~~~~e~~~~l~~lf~~A~~~~~~~iLflDEid  456 (466)
                      +|+|++||+|+|||++.++|....+...-.++..+..           .+.....-....++..+.+.+ ++.|++.|+-
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR~~-pd~iivgEiR  245 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMR-PDRIILGELR  245 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSC-CSEEEESCCC
T ss_pred             CCEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhccC-CCcccCCccC
Confidence            3699999999999999999998884322222211111           111111223456666666555 7899999984

>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=96.99  E-value=0.00011  Score=62.62  Aligned_cols=30  Identities=23%  Similarity=0.390  Sum_probs=24.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v  418 (466)
                      .+.|+|+||||||||++.|+..+   |..+..+
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~   36 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLI   36 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEe
Confidence            57899999999999999999876   4544433

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=96.84  E-value=0.00024  Score=58.17  Aligned_cols=18  Identities=28%  Similarity=0.220  Sum_probs=15.3

Q ss_pred             ccccccCCCCCCchHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~  405 (466)
                      .+++|++|||+|||..+-
T Consensus         8 ~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             CEEEECCCTTSSTTTTHH
T ss_pred             CcEEEEcCCCCChhHHHH
Confidence            469999999999997663

>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=96.80  E-value=0.00058  Score=61.44  Aligned_cols=34  Identities=18%  Similarity=0.347  Sum_probs=27.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh----CCcchhhcCCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGGD  422 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~~  422 (466)
                      .|+|+|.||+|||++|+.|+..+    +.+++.++++.
T Consensus        26 vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~   63 (208)
T d1m7ga_          26 TIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDN   63 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchH
Confidence            58999999999999999998766    55666666544

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.00036  Score=65.28  Aligned_cols=77  Identities=25%  Similarity=0.385  Sum_probs=45.9

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc-cc-----chh----------HHHHHHHHHHhhhhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV-AP-----LGA----------QAVTKIHEIFDWAKK  443 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l-~~-----~~~----------e~~~~l~~lf~~A~~  443 (466)
                      +.|. +-++|+||||||||++|-.++...   |..++.++...- .+     +|.          .......++.+....
T Consensus        50 Gi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~  129 (263)
T d1u94a1          50 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  129 (263)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHh
Confidence            4444 457899999999999998887666   455555543321 10     111          111222223333333


Q ss_pred             ccCceEEEecccccccc
Q 012305          444 SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~  460 (466)
                      ..+.++|+||=|..+.+
T Consensus       130 ~~~~~liViDSi~al~~  146 (263)
T d1u94a1         130 SGAVDVIVVDSVAALTP  146 (263)
T ss_dssp             HTCCSEEEEECGGGCCC
T ss_pred             cCCCCEEEEECcccccc
Confidence            45578999999998875

>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=96.77  E-value=0.00066  Score=67.26  Aligned_cols=92  Identities=12%  Similarity=0.148  Sum_probs=52.9

Q ss_pred             CCCCeeeCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhCCc-chhhcCCCccc---------
Q 012305          356 NNGDIILHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSGLD-YAMMTGGDVAP---------  425 (466)
Q Consensus       356 ~l~~vVg~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~~~-~~~v~~~~l~~---------  425 (466)
                      .|+++-..+.....+..+.         ..|..-|||.||+|+||||+..++...++.+ .-.++..|...         
T Consensus       136 ~l~~LG~~~~~~~~l~~l~---------~~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~~~~q~  206 (401)
T d1p9ra_         136 DLHSLGMTAHNHDNFRRLI---------KRPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQT  206 (401)
T ss_dssp             CGGGSCCCHHHHHHHHHHH---------TSSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEE
T ss_pred             hhhhhcccHHHHHHHHHHH---------hhhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccCCCCee
Confidence            4556655555555555442         2233459999999999999999998887432 11222222211         


Q ss_pred             -chhHHHHHHHHHHhhhhhccCceEEEeccccc
Q 012305          426 -LGAQAVTKIHEIFDWAKKSKKGLLLFIDEADA  457 (466)
Q Consensus       426 -~~~e~~~~l~~lf~~A~~~~~~~iLflDEid~  457 (466)
                       ............+..+-+.. ++||+|.||-.
T Consensus       207 ~v~~~~~~~~~~~l~~~lR~d-PDvi~igEiRd  238 (401)
T d1p9ra_         207 QVNPRVDMTFARGLRAILRQD-PDVVMVGEIRD  238 (401)
T ss_dssp             ECBGGGTBCHHHHHHHHGGGC-CSEEEESCCCS
T ss_pred             eecCCcCCCHHHHHHHHHhhc-CCEEEecCcCC
Confidence             11111122344444444445 79999999864

>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=0.0003  Score=61.19  Aligned_cols=43  Identities=23%  Similarity=0.253  Sum_probs=28.0

Q ss_pred             HHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhhC
Q 012305          368 RRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       368 ~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +++..+.....+.+..+ | .-|-|.||+|+||||+|+.|+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~-~-~iIgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_           5 DRIDFLCKTILAIKTAG-R-LVLGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             HHHHHHHHHHHTSCCSS-S-EEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCC-C-EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34444444443333322 2 1355899999999999999998774

>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=96.68  E-value=0.00096  Score=59.31  Aligned_cols=22  Identities=36%  Similarity=0.561  Sum_probs=18.6

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      ..++|+|+||+|||+|+..++.
T Consensus        27 ~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          27 RSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            4588999999999999977654

>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=96.68  E-value=0.00021  Score=61.66  Aligned_cols=25  Identities=24%  Similarity=0.300  Sum_probs=22.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      -++|.|+||+||||+++.|+..++.
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3678999999999999999998843

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=96.65  E-value=0.00068  Score=66.19  Aligned_cols=19  Identities=37%  Similarity=0.590  Sum_probs=16.2

Q ss_pred             cccccCCCCCCchHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREI  407 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~al  407 (466)
                      -++|+||||||||+++..+
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4889999999999987554

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.64  E-value=0.0007  Score=61.54  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=17.4

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      +++++.+|||+|||+++-..+-
T Consensus        59 ~~~~i~apTGsGKT~~~~~~~~   80 (237)
T d1gkub1          59 ESFAATAPTGVGKTSFGLAMSL   80 (237)
T ss_dssp             CCEECCCCBTSCSHHHHHHHHH
T ss_pred             CCEEEEecCCChHHHHHHHHHH
Confidence            4699999999999987655443

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.51  E-value=0.00081  Score=63.04  Aligned_cols=77  Identities=26%  Similarity=0.301  Sum_probs=46.1

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC-ccc---------------chhHHHHHHHHHHhhhhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD-VAP---------------LGAQAVTKIHEIFDWAKK  443 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~-l~~---------------~~~e~~~~l~~lf~~A~~  443 (466)
                      +.|. +-..|+||||||||++|..++...   |..++.++... +.+               ........+..+.+....
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~  135 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            4444 457799999999999998776655   44445544322 110               111112222233333333


Q ss_pred             ccCceEEEecccccccc
Q 012305          444 SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~  460 (466)
                      ..+.++|+||=+..+.+
T Consensus       136 ~~~~~liIiDSi~al~~  152 (269)
T d1mo6a1         136 SGALDIVVIDSVAALVP  152 (269)
T ss_dssp             TTCEEEEEEECSTTCCC
T ss_pred             cCCCCEEEEeccccccc
Confidence            45689999999999885

>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=96.51  E-value=0.00049  Score=60.75  Aligned_cols=26  Identities=19%  Similarity=0.477  Sum_probs=22.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      .|+|+||||+|||++++.|+..++..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~   27 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSI   27 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCc
Confidence            38999999999999999999887543

>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=96.49  E-value=0.00051  Score=60.36  Aligned_cols=24  Identities=25%  Similarity=0.542  Sum_probs=21.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .|+|+||||+|||++++.|+....
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            499999999999999999998864

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.45  E-value=0.00064  Score=60.78  Aligned_cols=30  Identities=23%  Similarity=0.212  Sum_probs=24.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMM  418 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v  418 (466)
                      +.+|.+|+|+|||.++-.++..++.+++.+
T Consensus        87 ~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv  116 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAMAAINELSTPTLIV  116 (206)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEE
T ss_pred             CcEEEeCCCCCceehHHhHHHHhcCceeEE
Confidence            467889999999999998888887664433

>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=96.43  E-value=0.00054  Score=61.30  Aligned_cols=28  Identities=21%  Similarity=0.312  Sum_probs=24.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      ..++|||||+||||+++.+|.+.++..+
T Consensus        54 n~i~~~GP~~TGKS~f~~sl~~~l~G~v   81 (205)
T d1tuea_          54 NCLVFCGPANTGKSYFGMSFIHFIQGAV   81 (205)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHHHHTCEE
T ss_pred             eEEEEECCCCccHHHHHHHHHHHhCCEE
Confidence            4688999999999999999999986544

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.32  E-value=0.0011  Score=62.03  Aligned_cols=77  Identities=26%  Similarity=0.354  Sum_probs=46.0

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCCC-ccc-----chh----------HHHHHHHHHHhhhhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGD-VAP-----LGA----------QAVTKIHEIFDWAKK  443 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~-l~~-----~~~----------e~~~~l~~lf~~A~~  443 (466)
                      +.|. +-..||||||||||++|..++...   |..++.++... +.+     +|.          .......++.+..-.
T Consensus        53 Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~  132 (268)
T d1xp8a1          53 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  132 (268)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHh
Confidence            3444 347799999999999999887665   55555554322 111     111          111222223333333


Q ss_pred             ccCceEEEecccccccc
Q 012305          444 SKKGLLLFIDEADAFLC  460 (466)
Q Consensus       444 ~~~~~iLflDEid~l~~  460 (466)
                      ..+.++|+||=+.++.+
T Consensus       133 ~~~~~liIiDSi~al~~  149 (268)
T d1xp8a1         133 SGAIDVVVVDSVAALTP  149 (268)
T ss_dssp             TTCCSEEEEECTTTCCC
T ss_pred             cCCCcEEEEeccccccc
Confidence            45588999999999875

>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=96.27  E-value=0.0017  Score=56.90  Aligned_cols=21  Identities=48%  Similarity=0.621  Sum_probs=17.2

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      |+|+++|+|+|||.++-.++.
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHHHHHH
Confidence            589999999999987665554

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.15  E-value=0.0021  Score=58.82  Aligned_cols=24  Identities=29%  Similarity=0.415  Sum_probs=20.8

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.++|+||+++|||++.|.++-..
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            468999999999999999996544

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.02  E-value=0.0013  Score=58.51  Aligned_cols=25  Identities=24%  Similarity=0.353  Sum_probs=22.1

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      |-|+||+|+||||+++.|+..++..
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            5589999999999999999998654

>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=96.00  E-value=0.0012  Score=57.20  Aligned_cols=28  Identities=21%  Similarity=0.221  Sum_probs=23.0

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.|+ ..++|+||||+|||+|+..++.+.
T Consensus        19 Gi~~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          19 GIETGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4343 468899999999999999998765

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=95.99  E-value=0.0021  Score=59.43  Aligned_cols=42  Identities=19%  Similarity=0.282  Sum_probs=28.7

Q ss_pred             hHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHh
Q 012305          366 LQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       366 ~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ....+.++...+.....   ..-+|+|+|.||+|||++..+|.+.
T Consensus        14 ~~~~l~e~~~~l~~~~~---~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          14 TQTKLLELLGNLKQEDV---NSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHHHTTC---CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHhhcCC---CCcEEEEECCCCCcHHHHHHHHhCC
Confidence            34445555555444322   2246999999999999999999754

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=95.98  E-value=0.0046  Score=59.32  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|-|+||||+|||+|...|+..+
T Consensus        56 ~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          56 RLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHH
Confidence            47799999999999999998776

>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=95.96  E-value=0.0014  Score=55.96  Aligned_cols=30  Identities=17%  Similarity=0.205  Sum_probs=24.4

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      +-++|++|+|||||+..|...+   |..+..+.
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            5689999999999999998887   55655553

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.89  E-value=0.0024  Score=56.31  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ++|+|+|+||+|||+|...|...
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            47999999999999999999764

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.84  E-value=0.001  Score=59.55  Aligned_cols=27  Identities=19%  Similarity=0.215  Sum_probs=22.0

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      +.|. +.++|+||||||||+++..++..
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4444 46899999999999999988654

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=95.81  E-value=0.0053  Score=58.74  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=20.4

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|=|+||||+|||+|...|+..+
T Consensus        53 ~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          53 RVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEeeeCCCCCCHHHHHHHHHHHH
Confidence            46799999999999999998765

>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=95.79  E-value=0.0014  Score=56.94  Aligned_cols=23  Identities=26%  Similarity=0.520  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -|+|.||||+|||++++.|...+
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            37899999999999999998876

>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=95.70  E-value=0.0016  Score=58.71  Aligned_cols=28  Identities=25%  Similarity=0.253  Sum_probs=22.7

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.|. .-++|+||||||||+|+-.++.+.
T Consensus        32 Glp~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          32 GIETQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4554 468899999999999999887654

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=95.67  E-value=0.0042  Score=56.32  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=19.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|+||...|||++.|.++-..
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~   59 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIA   59 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHHH
Confidence            48999999999999999986544

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.65  E-value=0.0079  Score=55.85  Aligned_cols=51  Identities=29%  Similarity=0.367  Sum_probs=33.0

Q ss_pred             eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchh
Q 012305          362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAM  417 (466)
Q Consensus       362 g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~  417 (466)
                      +.++..+.+.++...+.....     -+.||+|.+|||||.++-..+...   |+.++.
T Consensus        84 LT~~Q~~ai~ei~~d~~~~~~-----m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~  137 (264)
T d1gm5a3          84 LTNAQKRAHQEIRNDMISEKP-----MNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAF  137 (264)
T ss_dssp             CCHHHHHHHHHHHHHHHSSSC-----CCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEE
T ss_pred             CCchHHHHHHHHHHHhhccCc-----ceeeeeccccccccHHHHHHHHHHHhcccceeE
Confidence            446666667766555433222     368999999999999877665433   554433

>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=95.63  E-value=0.0023  Score=57.51  Aligned_cols=28  Identities=18%  Similarity=0.144  Sum_probs=23.0

Q ss_pred             cccc-ccccccCCCCCCchHHHHHHHHhh
Q 012305          384 QAPF-RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       384 ~~p~-~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.|. ..++|+||||||||+++..++.+.
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4555 468899999999999999998654

>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=95.55  E-value=0.005  Score=56.66  Aligned_cols=33  Identities=18%  Similarity=0.214  Sum_probs=25.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh----CCcchhhcCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS----GLDYAMMTGG  421 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l----~~~~~~v~~~  421 (466)
                      -++|.|+||+|||+++..++...    |.+++.++..
T Consensus        37 l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E   73 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLE   73 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeec
Confidence            48899999999999988887543    6666655543

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.54  E-value=0.0035  Score=55.20  Aligned_cols=18  Identities=39%  Similarity=0.706  Sum_probs=15.6

Q ss_pred             ccccccCCCCCCchHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~  405 (466)
                      +++++.+|||+|||+++-
T Consensus        41 ~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          41 KNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             SCEEEECSSHHHHHHHHH
T ss_pred             CCEEEEcCCCCchhHHHH
Confidence            369999999999998763

>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=95.53  E-value=0.007  Score=55.41  Aligned_cols=24  Identities=29%  Similarity=0.432  Sum_probs=20.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .-.+|+|+||||||+|+-.||...
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            347899999999999999887654

>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=95.41  E-value=0.0018  Score=54.81  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|+||+|||+|...|...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4899999999999999998653

>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=95.33  E-value=0.005  Score=57.34  Aligned_cols=25  Identities=36%  Similarity=0.638  Sum_probs=22.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      .++|||||+||||+++.+|...+|.
T Consensus       106 ~~~l~G~~~tGKS~f~~~i~~~lg~  130 (267)
T d1u0ja_         106 TIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            5789999999999999999999854

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.28  E-value=0.0031  Score=52.30  Aligned_cols=23  Identities=22%  Similarity=0.353  Sum_probs=19.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|+|+||||||+|...+...-
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999986543

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=95.25  E-value=0.0035  Score=56.10  Aligned_cols=30  Identities=30%  Similarity=0.525  Sum_probs=23.6

Q ss_pred             ccccCCCCCCchHHHHHHHHhh--CCcchhhc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS--GLDYAMMT  419 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l--~~~~~~v~  419 (466)
                      ++|.||+|+|||||...|..++  +..+..+|
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~~~~~~~ivn   34 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   34 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhCCeEEEEe
Confidence            6899999999999999998766  34444443

>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=95.23  E-value=0.015  Score=52.94  Aligned_cols=51  Identities=24%  Similarity=0.205  Sum_probs=33.0

Q ss_pred             eCcchHHHHHHHHHhhccccccccccccccccCCCCCCchHHHHHHHHhh---CCcchh
Q 012305          362 LHPSLQRRIQHLAKATANTKIHQAPFRNMLFYGPPGTGKTMVAREIARKS---GLDYAM  417 (466)
Q Consensus       362 g~~~~~~~l~~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~  417 (466)
                      ..++....+..+...+.....     .+.||+|.+|+|||.++-..+...   |+.++.
T Consensus        56 lt~~Q~~~~~~i~~~~~~~~~-----~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~  109 (233)
T d2eyqa3          56 TTPDQAQAINAVLSDMCQPLA-----MDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAV  109 (233)
T ss_dssp             CCHHHHHHHHHHHHHHHSSSC-----CEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEE
T ss_pred             cchhHHHHHHHHHHHHhccCc-----cCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEE
Confidence            445666666666555544322     368999999999999876665443   554433

>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=95.22  E-value=0.0079  Score=52.42  Aligned_cols=22  Identities=23%  Similarity=0.502  Sum_probs=20.3

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|+|+||+|||+|..+|.+.
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            6999999999999999999765

>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=95.11  E-value=0.0042  Score=54.04  Aligned_cols=23  Identities=17%  Similarity=0.508  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|+||+|+|||++++.|....
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             cEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999998765

>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=95.05  E-value=0.0091  Score=51.08  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=19.9

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|.||+|||+|.++|.+.
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999754

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=94.96  E-value=0.0047  Score=57.19  Aligned_cols=17  Identities=35%  Similarity=0.428  Sum_probs=14.5

Q ss_pred             ccccccCCCCCCchHHH
Q 012305          388 RNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA  404 (466)
                      .++|+.|+||||||+++
T Consensus        15 ~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SEEEECCCTTSCHHHHH
T ss_pred             CCEEEEeeCCccHHHHH
Confidence            35899999999999864

>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=94.92  E-value=0.01  Score=49.51  Aligned_cols=22  Identities=23%  Similarity=0.531  Sum_probs=19.4

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|+||+|||+|..+|...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999744

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=94.90  E-value=0.0075  Score=55.78  Aligned_cols=15  Identities=40%  Similarity=0.510  Sum_probs=13.6

Q ss_pred             ccccccCCCCCCchH
Q 012305          388 RNMLFYGPPGTGKTM  402 (466)
Q Consensus       388 ~~vLl~GppGTGKT~  402 (466)
                      +++|+.+|||+|||+
T Consensus        10 ~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2          10 RLTIMDLHPGAGKTK   24 (305)
T ss_dssp             CEEEECCCTTSSTTT
T ss_pred             CcEEEEECCCCCHHH
Confidence            569999999999996

>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=94.90  E-value=0.0069  Score=54.00  Aligned_cols=30  Identities=17%  Similarity=0.356  Sum_probs=24.0

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      |.|.|+.|+||||+++.|+..+   |.+++.+.
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            5566999999999999999987   56665543

>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=94.86  E-value=0.0042  Score=53.96  Aligned_cols=25  Identities=28%  Similarity=0.339  Sum_probs=20.2

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      |-++|++|+||||+|+.|. ..|.++
T Consensus         6 IgitG~~gSGKstva~~l~-~~g~~~   30 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLR-SWGYPV   30 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHH-HTTCCE
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeE
Confidence            4478999999999999994 466654

>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=94.60  E-value=0.0055  Score=54.37  Aligned_cols=24  Identities=25%  Similarity=0.272  Sum_probs=21.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .-++|+||||+|||+++..+|...
T Consensus        35 ~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          35 SVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH
Confidence            468899999999999999998766

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.52  E-value=0.0063  Score=50.63  Aligned_cols=22  Identities=27%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|+|+||||||+|.+.+...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998654

>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=94.49  E-value=0.0066  Score=54.08  Aligned_cols=23  Identities=17%  Similarity=0.463  Sum_probs=20.6

Q ss_pred             ccccCCCCCCchHHHHHHHHhhC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      ++|+||+|+|||+|.+.|.....
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            78899999999999999988753

>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=94.45  E-value=0.0066  Score=52.93  Aligned_cols=23  Identities=30%  Similarity=0.523  Sum_probs=20.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      ++|||.|++|+|||++|-.+...
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            47999999999999999888764

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.43  E-value=0.0069  Score=49.95  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -++|+|+||||||+|...|...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3889999999999999998764

>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=94.40  E-value=0.0083  Score=51.35  Aligned_cols=26  Identities=27%  Similarity=0.441  Sum_probs=23.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLD  414 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~  414 (466)
                      -|+|.|+=|+|||++++.+++.+|..
T Consensus        35 ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          35 MVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             EEEEecCCCccHHHHHHHHHhhcccc
Confidence            48899999999999999999999764

>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=94.29  E-value=0.013  Score=51.06  Aligned_cols=31  Identities=19%  Similarity=0.291  Sum_probs=25.1

Q ss_pred             ccccCCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          390 MLFYGPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      |.|.|+.|+||||+++.|+..+   |.+++.+..
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            5678999999999999999877   566655543

>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=94.21  E-value=0.0066  Score=57.69  Aligned_cols=35  Identities=17%  Similarity=0.189  Sum_probs=26.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC-----CcchhhcCCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG-----LDYAMMTGGDV  423 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~-----~~~~~v~~~~l  423 (466)
                      -|-|.|++|+||||+|+.|...+.     ..+..++.+++
T Consensus        82 iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          82 IISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             EEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            466899999999999999998873     34555555544

>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=94.01  E-value=0.024  Score=49.94  Aligned_cols=16  Identities=44%  Similarity=0.607  Sum_probs=14.2

Q ss_pred             ccccccCCCCCCchHH
Q 012305          388 RNMLFYGPPGTGKTMV  403 (466)
Q Consensus       388 ~~vLl~GppGTGKT~l  403 (466)
                      +++++.+|+|||||+.
T Consensus        39 ~dvi~~a~tGsGKTla   54 (206)
T d1s2ma1          39 RDILARAKNGTGKTAA   54 (206)
T ss_dssp             CCEEEECCTTSCHHHH
T ss_pred             CCEEEecCCcchhhhh
Confidence            5799999999999963

>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=93.99  E-value=0.0095  Score=50.79  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=19.1

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|+|+||||||+|+..+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3889999999999999988644

>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=93.98  E-value=0.0067  Score=53.91  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|+|||||.+.|+..+
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            47799999999999999998866

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=93.92  E-value=0.0044  Score=52.93  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|+|+||+|||+|...+...
T Consensus        14 kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4999999999999999998643

>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=93.85  E-value=0.0092  Score=54.58  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=20.0

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      +.|.||+||||||+.+.|+..+
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5588999999999999999877

>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=93.83  E-value=0.0083  Score=52.33  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=20.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .+|||.||+|+|||++|-.+...
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            47999999999999999888654

>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=93.79  E-value=0.0097  Score=51.49  Aligned_cols=23  Identities=30%  Similarity=0.521  Sum_probs=20.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .+|||.|++|+|||+++-.+...
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            47999999999999999887665

>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=93.78  E-value=0.0075  Score=51.01  Aligned_cols=21  Identities=24%  Similarity=0.477  Sum_probs=18.9

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|+|+||+|||+|...|..
T Consensus        15 kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            499999999999999999854

>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=93.67  E-value=0.01  Score=53.96  Aligned_cols=23  Identities=39%  Similarity=0.644  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            47899999999999999998766

>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=93.67  E-value=0.031  Score=49.34  Aligned_cols=20  Identities=25%  Similarity=0.220  Sum_probs=16.5

Q ss_pred             cccccCCCCCCchHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIA  408 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA  408 (466)
                      ++++..|+|+|||+..-...
T Consensus        44 d~iv~a~TGsGKT~~~~l~~   63 (208)
T d1hv8a1          44 NIVAQARTGSGKTASFAIPL   63 (208)
T ss_dssp             EEEEECCSSSSHHHHHHHHH
T ss_pred             Ceeeechhcccccceeeccc
Confidence            69999999999999765444

>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=93.67  E-value=0.012  Score=54.88  Aligned_cols=16  Identities=38%  Similarity=0.559  Sum_probs=14.2

Q ss_pred             cccccCCCCCCchHHH
Q 012305          389 NMLFYGPPGTGKTMVA  404 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA  404 (466)
                      ++|+.|+||||||+++
T Consensus        26 ~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CEEEEECTTSCHHHHH
T ss_pred             CEEEEecCCccHHHHH
Confidence            4999999999999864

>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=93.66  E-value=0.0082  Score=56.42  Aligned_cols=35  Identities=17%  Similarity=0.317  Sum_probs=23.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCCCc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGGDV  423 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~~l  423 (466)
                      -|-++|++|+|||++++.|...+   +.+.+.+.++++
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   43 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCC
Confidence            36789999999999999998876   445555555554

>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=93.63  E-value=0.012  Score=49.56  Aligned_cols=22  Identities=18%  Similarity=0.373  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|+||+|||+|+..+...
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999988753

>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=93.61  E-value=0.026  Score=52.85  Aligned_cols=23  Identities=39%  Similarity=0.605  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|.|++|||||+++..+++..
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHHH
Confidence            59999999999999999998866

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.54  E-value=0.011  Score=50.92  Aligned_cols=20  Identities=30%  Similarity=0.438  Sum_probs=18.5

Q ss_pred             ccccCCCCCCchHHHHHHHH
Q 012305          390 MLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~  409 (466)
                      |+|.|+||||||+|++.+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            88999999999999998875

>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=93.49  E-value=0.013  Score=49.30  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=19.3

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|++|+|||+|...+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4889999999999999988654

>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=93.48  E-value=0.0096  Score=54.11  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.6

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+|||||||.+.|+...
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCcchhhHhccCCC
Confidence            48899999999999999998765

>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=93.46  E-value=0.023  Score=53.19  Aligned_cols=22  Identities=32%  Similarity=0.691  Sum_probs=18.4

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      |-|.|++||||||++..|...+
T Consensus        30 IGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          30 IFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHH
Confidence            3478999999999999886655

>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=93.46  E-value=0.013  Score=51.75  Aligned_cols=25  Identities=32%  Similarity=0.535  Sum_probs=20.5

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      |-|+|++|+|||++++.|. .+|.++
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~v   30 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINV   30 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEE
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcE
Confidence            4589999999999999886 566654

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.45  E-value=0.013  Score=49.58  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=19.6

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -|+|.|++|||||+|+..+...
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3899999999999999998754

>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=93.44  E-value=0.011  Score=50.00  Aligned_cols=22  Identities=18%  Similarity=0.371  Sum_probs=19.8

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|+|.||+|||+|...+...
T Consensus        17 kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          17 KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5999999999999999998754

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.43  E-value=0.014  Score=49.25  Aligned_cols=22  Identities=18%  Similarity=0.437  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|+|++|||||+|+..+...
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999998764

>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=93.42  E-value=0.0083  Score=52.05  Aligned_cols=25  Identities=24%  Similarity=0.319  Sum_probs=22.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      -|.|-|+.|+||||+++.|++.++.
T Consensus        11 ~I~ieG~~GsGKTTl~~~L~~~l~~   35 (197)
T d2vp4a1          11 TVLIEGNIGSGKTTYLNHFEKYKND   35 (197)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGGTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4778899999999999999998854

>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=93.38  E-value=0.012  Score=53.75  Aligned_cols=23  Identities=43%  Similarity=0.629  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+-|.||+||||||+.++|+...
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            47899999999999999998765

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.35  E-value=0.014  Score=49.18  Aligned_cols=21  Identities=24%  Similarity=0.501  Sum_probs=18.8

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|.|.||+|||+|+..+...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999998754

>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=93.31  E-value=0.014  Score=51.54  Aligned_cols=26  Identities=27%  Similarity=0.390  Sum_probs=20.6

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcch
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYA  416 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~  416 (466)
                      |-++|++||||||+++.|. .+|.+++
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vi   30 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLV   30 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEE
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEE
Confidence            4479999999999999886 4666543

>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=93.29  E-value=0.013  Score=53.50  Aligned_cols=23  Identities=39%  Similarity=0.593  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+-|.||+||||||+.+.|+...
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            47899999999999999998876

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.25  E-value=0.015  Score=49.20  Aligned_cols=22  Identities=23%  Similarity=0.513  Sum_probs=19.5

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      |+|.|++|||||+|...+....
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8899999999999999987643

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.24  E-value=0.013  Score=49.67  Aligned_cols=21  Identities=24%  Similarity=0.588  Sum_probs=18.9

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|.|+||+|||+|.+.|..
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            388999999999999999964

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=93.21  E-value=0.013  Score=57.17  Aligned_cols=33  Identities=33%  Similarity=0.563  Sum_probs=24.7

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh---CCcchhhc
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      .+|++++|+||+|||+++..+...+   |.+++.++
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD   85 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVD   85 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEe
Confidence            3689999999999999987775444   55555443

>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=93.17  E-value=0.016  Score=49.40  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|+||||||+|+..+...
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999988653

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.16  E-value=0.014  Score=49.43  Aligned_cols=21  Identities=29%  Similarity=0.613  Sum_probs=19.2

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|+|++|+|||+|++.+...
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999999763

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.14  E-value=0.015  Score=52.20  Aligned_cols=26  Identities=19%  Similarity=0.167  Sum_probs=22.6

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDY  415 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~  415 (466)
                      |-|+|+.||||||+|+.|+..+|..+
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~   29 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVK   29 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeE
Confidence            67899999999999999998877543

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=93.04  E-value=0.01  Score=53.87  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+.|.||+||||||+.+.|+...
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            48899999999999999999876

>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=93.03  E-value=0.011  Score=53.97  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=20.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+-|.||+||||||+++.|+...
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHcCCc
Confidence            47899999999999999998765

>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=92.99  E-value=0.018  Score=48.62  Aligned_cols=21  Identities=19%  Similarity=0.317  Sum_probs=18.8

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|.|.+|||||+|+..+...
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988753

>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=92.98  E-value=0.016  Score=49.10  Aligned_cols=21  Identities=19%  Similarity=0.441  Sum_probs=19.0

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|.|.||||||+|...+...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999988653

>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=92.97  E-value=0.018  Score=48.78  Aligned_cols=20  Identities=25%  Similarity=0.517  Sum_probs=18.4

Q ss_pred             ccccCCCCCCchHHHHHHHH
Q 012305          390 MLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~  409 (466)
                      |+|.|+||+|||+|+..+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            88999999999999999864

>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=92.88  E-value=0.017  Score=48.73  Aligned_cols=21  Identities=19%  Similarity=0.510  Sum_probs=19.2

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|.|++|||||+|+..+...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998764

>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=92.88  E-value=0.017  Score=50.73  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=20.3

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      |.|-|++|+||||+++.|+..+
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6778999999999999999877

>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=92.85  E-value=0.017  Score=48.61  Aligned_cols=21  Identities=24%  Similarity=0.510  Sum_probs=19.1

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |++.|+||+|||+|+..+...
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999998764

>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=92.83  E-value=0.014  Score=53.67  Aligned_cols=24  Identities=29%  Similarity=0.501  Sum_probs=21.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|||||||++.|+..+
T Consensus        42 e~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CEEEEECCCCChHHHHHHHHhccc
Confidence            358899999999999999998776

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.83  E-value=0.014  Score=49.80  Aligned_cols=21  Identities=19%  Similarity=0.474  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|+|+||+|||+|..+|.+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999975

>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=92.83  E-value=0.019  Score=48.57  Aligned_cols=22  Identities=14%  Similarity=0.412  Sum_probs=19.3

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -|+|.|.+|||||+|+..+...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999998754

>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=92.81  E-value=0.017  Score=48.74  Aligned_cols=21  Identities=19%  Similarity=0.480  Sum_probs=18.6

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|.|.||||||+|...+...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988653

>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=92.81  E-value=0.014  Score=54.58  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=21.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|+|||||.+.|+..+
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhCCC
Confidence            458899999999999999998876

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=92.77  E-value=0.019  Score=49.65  Aligned_cols=21  Identities=14%  Similarity=0.327  Sum_probs=19.4

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|+|+||+|||+|..+|.+
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            699999999999999999974

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.74  E-value=0.02  Score=49.10  Aligned_cols=20  Identities=25%  Similarity=0.534  Sum_probs=18.5

Q ss_pred             ccccCCCCCCchHHHHHHHH
Q 012305          390 MLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~  409 (466)
                      |+|+|.||||||+|+..+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999998865

>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=92.59  E-value=0.017  Score=48.88  Aligned_cols=21  Identities=29%  Similarity=0.558  Sum_probs=18.9

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|.|+||+|||+|...+..
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            599999999999999998844

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.59  E-value=0.021  Score=48.23  Aligned_cols=21  Identities=24%  Similarity=0.442  Sum_probs=18.8

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|+|++|+|||+|+..+...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999988653

>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=92.56  E-value=0.016  Score=52.92  Aligned_cols=24  Identities=29%  Similarity=0.473  Sum_probs=21.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|+|||||++.|+..+
T Consensus        29 e~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            358899999999999999998766

>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=92.55  E-value=0.022  Score=47.65  Aligned_cols=21  Identities=19%  Similarity=0.376  Sum_probs=19.0

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|.|++|+|||+|+..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            889999999999999998754

>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=92.54  E-value=0.02  Score=48.68  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|.+|||||+|+..+...
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4999999999999999988654

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=92.47  E-value=0.061  Score=44.61  Aligned_cols=29  Identities=28%  Similarity=0.506  Sum_probs=20.4

Q ss_pred             cccCCCCCCchH-HHHHHHHh--hCCcchhhc
Q 012305          391 LFYGPPGTGKTM-VAREIARK--SGLDYAMMT  419 (466)
Q Consensus       391 Ll~GppGTGKT~-lA~alA~~--l~~~~~~v~  419 (466)
                      +++||-.+|||+ |.+.+.+.  .|..++.++
T Consensus         6 ~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ik   37 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLHRLEYADVKYLVFK   37 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEccccCHHHHHHHHHHHHHHHCCCcEEEEE
Confidence            678999999999 66666433  366655544

>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=92.46  E-value=0.017  Score=49.02  Aligned_cols=24  Identities=17%  Similarity=0.149  Sum_probs=20.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      -.+|+||+|+|||++..+|.--++
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Confidence            478899999999999999987663

>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=92.46  E-value=0.015  Score=53.05  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=21.7

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|+|||||++.|...+
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            358899999999999999998876

>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=92.44  E-value=0.063  Score=49.82  Aligned_cols=25  Identities=24%  Similarity=0.247  Sum_probs=22.3

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|||-|.|..|+|||+|+.+|...+
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            4789999999999999999997655

>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=92.41  E-value=0.016  Score=53.29  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=21.4

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|||||||++.|...+
T Consensus        41 e~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhccc
Confidence            458899999999999999998766

>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=92.39  E-value=0.021  Score=48.25  Aligned_cols=22  Identities=36%  Similarity=0.674  Sum_probs=18.7

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      |+|.|++|+|||+|+..+....
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEECCCCcCHHHHHHHHhCCc
Confidence            7899999999999999986543

>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=92.35  E-value=0.022  Score=47.98  Aligned_cols=22  Identities=14%  Similarity=0.276  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|++|||||+|...+...
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998653

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.30  E-value=0.025  Score=48.00  Aligned_cols=22  Identities=18%  Similarity=0.453  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|+||||||+|+..+...
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3899999999999999888653

>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=92.30  E-value=0.022  Score=48.26  Aligned_cols=20  Identities=30%  Similarity=0.567  Sum_probs=18.5

Q ss_pred             ccccCCCCCCchHHHHHHHH
Q 012305          390 MLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~  409 (466)
                      |+|.|.||+|||+|+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998864

>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=92.29  E-value=0.012  Score=53.96  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=21.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+.|.||+||||||+.+.|+...
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            48899999999999999998865

>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=92.20  E-value=0.025  Score=48.13  Aligned_cols=21  Identities=24%  Similarity=0.488  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|+|.+|+|||+|...+..
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            499999999999999999865

>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=92.12  E-value=0.024  Score=47.46  Aligned_cols=20  Identities=25%  Similarity=0.476  Sum_probs=18.3

Q ss_pred             ccccCCCCCCchHHHHHHHH
Q 012305          390 MLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~  409 (466)
                      |+|.|.+|||||+|++.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999864

>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=92.05  E-value=0.027  Score=47.37  Aligned_cols=22  Identities=18%  Similarity=0.442  Sum_probs=19.4

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      |+|+|.+|||||+|...+...-
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999987543

>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=92.04  E-value=0.028  Score=47.31  Aligned_cols=22  Identities=18%  Similarity=0.434  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|.+|||||+|.+.+...
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3889999999999999998653

>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=91.99  E-value=0.034  Score=50.94  Aligned_cols=36  Identities=22%  Similarity=0.297  Sum_probs=29.5

Q ss_pred             ccccccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      +++-++|.|-=|+||||++-.+|..+   |+.++.++++
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            34668889999999999999998877   7777777655

>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=91.96  E-value=0.088  Score=48.50  Aligned_cols=25  Identities=28%  Similarity=0.539  Sum_probs=21.9

Q ss_pred             cccccccCCCCCCchHHHHHHHHhh
Q 012305          387 FRNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       387 ~~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|||.+.|..|+|||+|+.+|....
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHHc
Confidence            4789999999999999999996554

>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=91.95  E-value=0.021  Score=52.66  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=20.5

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+-|.||+|+|||||+++|+...
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            47899999999999999998755

>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=91.91  E-value=0.026  Score=48.00  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -|+|.|++|||||+|...+...
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3889999999999999888764

>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=91.75  E-value=0.03  Score=47.56  Aligned_cols=20  Identities=30%  Similarity=0.536  Sum_probs=18.4

Q ss_pred             ccccCCCCCCchHHHHHHHH
Q 012305          390 MLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~  409 (466)
                      |+|.|++|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999998864

>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=91.74  E-value=0.032  Score=47.13  Aligned_cols=23  Identities=17%  Similarity=0.433  Sum_probs=19.9

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      --|+|+|.+|+|||+|+..+...
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            35899999999999999998653

>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=91.73  E-value=0.028  Score=48.76  Aligned_cols=21  Identities=24%  Similarity=0.513  Sum_probs=18.7

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|.|++|||||+|+..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            889999999999999988653

>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=91.71  E-value=0.031  Score=47.06  Aligned_cols=22  Identities=14%  Similarity=0.415  Sum_probs=19.0

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|.+|||||+|...+...
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999987654

>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=91.68  E-value=0.028  Score=49.15  Aligned_cols=20  Identities=30%  Similarity=0.409  Sum_probs=16.5

Q ss_pred             cccccCCCCCCchHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIA  408 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA  408 (466)
                      ++++.-|||+|||.......
T Consensus        42 ~vlv~apTGsGKT~~~~~~~   61 (206)
T d1oywa2          42 DCLVVMPTGGGKSLCYQIPA   61 (206)
T ss_dssp             CEEEECSCHHHHHHHHHHHH
T ss_pred             CEEEEcCCCCCCcchhhhhh
Confidence            69999999999998765443

>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=91.55  E-value=0.049  Score=48.23  Aligned_cols=30  Identities=23%  Similarity=0.294  Sum_probs=24.5

Q ss_pred             ccccCCCCCCchHHHHHHHHhhCCcchhhc
Q 012305          390 MLFYGPPGTGKTMVAREIARKSGLDYAMMT  419 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~~~~~~v~  419 (466)
                      |.|-|+-||||||+++.|+..+...+..+.
T Consensus         6 I~iEG~DGsGKST~~~~L~~~L~~~~~~~~   35 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYKKLQPNCKLLK   35 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTTSEEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhCCEEEE
Confidence            678899999999999999999865544433

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.52  E-value=0.034  Score=47.00  Aligned_cols=22  Identities=23%  Similarity=0.471  Sum_probs=19.2

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|.+|||||+|...+...
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999988753

>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=91.43  E-value=0.034  Score=49.50  Aligned_cols=26  Identities=15%  Similarity=0.236  Sum_probs=23.1

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSGL  413 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~~  413 (466)
                      +-+.|-|+-||||||+++.|+.+++.
T Consensus         3 k~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            45789999999999999999999854

>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=91.34  E-value=0.021  Score=48.83  Aligned_cols=21  Identities=29%  Similarity=0.493  Sum_probs=18.8

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|+|+|+||+|||+|...+..
T Consensus        19 KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          19 RILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEEETTSSHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            599999999999999998843

>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=91.33  E-value=0.023  Score=48.28  Aligned_cols=20  Identities=35%  Similarity=0.572  Sum_probs=8.5

Q ss_pred             ccccCCCCCCchHHHHHHHH
Q 012305          390 MLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~  409 (466)
                      |+|.|.||||||+|...+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999987764

>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=91.33  E-value=0.026  Score=51.36  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=20.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+-|.||+|+||||+.++|+..+
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47799999999999999998776

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=91.33  E-value=0.032  Score=48.42  Aligned_cols=32  Identities=19%  Similarity=0.303  Sum_probs=25.7

Q ss_pred             ccccccCC-CCCCchHHHHHHHHhh---CCcchhhc
Q 012305          388 RNMLFYGP-PGTGKTMVAREIARKS---GLDYAMMT  419 (466)
Q Consensus       388 ~~vLl~Gp-pGTGKT~lA~alA~~l---~~~~~~v~  419 (466)
                      +.++++|- ||+|||+++-.||..+   |+.++.+.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEC
Confidence            35889998 6999999999998887   66666554

>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=91.29  E-value=0.033  Score=47.68  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=18.9

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+|.|.+|+|||+|+..+...
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999988764

>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=91.23  E-value=0.037  Score=47.28  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -|+|+|.+|||||+|...+...
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5999999999999999988654

>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=91.05  E-value=0.035  Score=46.81  Aligned_cols=22  Identities=18%  Similarity=0.406  Sum_probs=19.7

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|.||+|||+|..+|.+.
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4889999999999999999753

>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=90.97  E-value=0.038  Score=49.92  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=20.2

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+-|.||+|+|||||.+.|+...
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47799999999999999998744

>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=90.85  E-value=0.039  Score=47.34  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=20.0

Q ss_pred             ccccccCCCCCCchHHHHHHHHh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -.|+|.|.+|+|||+|...+...
T Consensus        10 ~Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          10 LKCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhhC
Confidence            35899999999999999998754

>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=90.80  E-value=0.021  Score=50.66  Aligned_cols=25  Identities=12%  Similarity=0.215  Sum_probs=22.2

Q ss_pred             ccccccCCCCCCchHHHHHHHHhhC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      +-|.|-|+-||||||+++.|+..+.
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            3478999999999999999999883

>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=90.69  E-value=0.019  Score=52.95  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=21.3

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+.|+||+|+|||||++.|...+
T Consensus        45 e~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcC
Confidence            358999999999999999998766

>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=90.57  E-value=0.042  Score=47.33  Aligned_cols=22  Identities=18%  Similarity=0.241  Sum_probs=18.8

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      -|+|.|++|+|||+|...+...
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3889999999999999887654

>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=90.55  E-value=0.027  Score=47.71  Aligned_cols=21  Identities=29%  Similarity=0.464  Sum_probs=17.4

Q ss_pred             ccccCCCCCCchHHHHHHHHh
Q 012305          390 MLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~  410 (466)
                      |++.|++|+|||+|...+...
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            888999999999999887543

>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=90.46  E-value=0.034  Score=50.55  Aligned_cols=23  Identities=35%  Similarity=0.431  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+-|.||+|+|||||.++|+..+
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46699999999999999998877

>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=90.29  E-value=0.046  Score=46.49  Aligned_cols=22  Identities=27%  Similarity=0.480  Sum_probs=19.5

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|.|.|.||+|||+|..+|.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4889999999999999999753

>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=90.17  E-value=0.039  Score=50.60  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .+-|.||+|+|||||+++|+...
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHCCC
Confidence            47899999999999999998766

>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=90.10  E-value=0.022  Score=47.22  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=19.6

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|.|.|.||+|||+|..+|...
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999764

>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=89.97  E-value=0.038  Score=46.98  Aligned_cols=21  Identities=24%  Similarity=0.479  Sum_probs=19.1

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      +|.|.|.||+|||+|..+|.+
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999964

>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=89.78  E-value=0.043  Score=46.77  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=18.7

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|-|.|+||+|||+|..+|.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999854

>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=89.77  E-value=0.053  Score=46.43  Aligned_cols=19  Identities=21%  Similarity=0.558  Sum_probs=17.8

Q ss_pred             cccccCCCCCCchHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREI  407 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~al  407 (466)
                      -|+|.|.+|+|||+|...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3899999999999999998

>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=89.67  E-value=0.03  Score=47.21  Aligned_cols=21  Identities=19%  Similarity=0.412  Sum_probs=18.8

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      .|.|+|+||+|||+|.++|..
T Consensus        18 ~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          18 EVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEECTTSSHHHHHTTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            699999999999999998843

>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=89.16  E-value=0.064  Score=48.26  Aligned_cols=23  Identities=22%  Similarity=0.228  Sum_probs=19.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+|.|++|+|||+|..+|....
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCCHHHHHHhhcchh
Confidence            47899999999999999996543

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=88.40  E-value=0.24  Score=43.33  Aligned_cols=25  Identities=24%  Similarity=0.275  Sum_probs=21.4

Q ss_pred             ccccccccCCCCCCchHHHHHHHHh
Q 012305          386 PFRNMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       386 p~~~vLl~GppGTGKT~lA~alA~~  410 (466)
                      |+-||.+.|-+++|||+|+.+|...
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHH
Confidence            4568999999999999999999543

>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=88.16  E-value=0.16  Score=46.90  Aligned_cols=23  Identities=35%  Similarity=0.384  Sum_probs=18.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .++|.|++|||||+++..+....
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTC
T ss_pred             eEeeccCCCCChHHHHHHHHhhh
Confidence            58999999999999987654443

>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=87.99  E-value=0.082  Score=46.80  Aligned_cols=22  Identities=18%  Similarity=0.468  Sum_probs=19.1

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|||.|++|+|||++.+.+...
T Consensus         8 KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999988543

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.98  E-value=0.092  Score=48.20  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=19.1

Q ss_pred             ccccCCCCCCchHHHHHHHHhh
Q 012305          390 MLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -+|+||.|+|||++..+|.-.+
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~l   48 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVF   48 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            5799999999999999996544

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.64  E-value=0.1  Score=46.47  Aligned_cols=27  Identities=33%  Similarity=0.461  Sum_probs=21.9

Q ss_pred             cccccCCCCCCchHHHHHHHHhh-CCcc
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS-GLDY  415 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l-~~~~  415 (466)
                      -++|+|..|+|||||.+.+.+.. +..+
T Consensus         5 v~iitGFLGaGKTTll~~lL~~~~~~ri   32 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNEQHGYKI   32 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSCCCCCE
T ss_pred             EEEEeeCCCCCHHHHHHHHHhcCCCCcE
Confidence            58899999999999999987754 3443

>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=87.63  E-value=0.11  Score=44.26  Aligned_cols=24  Identities=17%  Similarity=0.223  Sum_probs=20.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      -.|++.|++|+|||+|...+...-
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            469999999999999999886643

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=87.56  E-value=0.11  Score=47.02  Aligned_cols=34  Identities=32%  Similarity=0.499  Sum_probs=27.6

Q ss_pred             ccccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          388 RNMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      +-++++|-=|+||||++-.||..+   |+.++.|+++
T Consensus        21 ~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~D   57 (279)
T d1ihua2          21 GLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSD   57 (279)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            457788999999999988887766   7777777765

>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=87.23  E-value=0.098  Score=49.91  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=19.2

Q ss_pred             ccccCCCCCCchHHHHHHHHhhC
Q 012305          390 MLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       390 vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      -+|+||+|+|||++..+|+=-+|
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~lg   50 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVLG   50 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            47899999999999999974443

>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=86.91  E-value=0.11  Score=44.14  Aligned_cols=23  Identities=17%  Similarity=0.392  Sum_probs=20.1

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      .|+|.|.+|+|||+|...+....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999996554

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=84.08  E-value=0.068  Score=48.25  Aligned_cols=23  Identities=26%  Similarity=0.494  Sum_probs=18.7

Q ss_pred             cccccCCCCCCchHHHHHHHHhh
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS  411 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l  411 (466)
                      ..+|.|++|+|||+|..+|....
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            46788999999999999996544

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=84.00  E-value=0.18  Score=42.48  Aligned_cols=22  Identities=18%  Similarity=0.478  Sum_probs=18.9

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .|+|.|..|+|||++.+.+...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4899999999999999987543

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.82  E-value=0.25  Score=47.88  Aligned_cols=22  Identities=23%  Similarity=0.382  Sum_probs=20.1

Q ss_pred             ccccccCCCCCCchHHHHHHHH
Q 012305          388 RNMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       388 ~~vLl~GppGTGKT~lA~alA~  409 (466)
                      -+|.|.|.||+|||+|..+|..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4699999999999999999964

>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=83.71  E-value=0.18  Score=45.49  Aligned_cols=33  Identities=18%  Similarity=0.378  Sum_probs=27.0

Q ss_pred             cccccCCCCCCchHHHHHHHHhh---CCcchhhcCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKS---GLDYAMMTGG  421 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l---~~~~~~v~~~  421 (466)
                      .|.|+|-=||||||++-.||..+   |+.++.++++
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D   38 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecC
Confidence            46678999999999998887776   7777777764

>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=82.99  E-value=0.33  Score=45.42  Aligned_cols=46  Identities=15%  Similarity=0.208  Sum_probs=27.6

Q ss_pred             ccCCCCeeeCcchHHHHHH-----HHHhhccccccccccccccccCCCCCCchHHH
Q 012305          354 IKNNGDIILHPSLQRRIQH-----LAKATANTKIHQAPFRNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~~-----~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA  404 (466)
                      ...|+.|.+...-...+-.     ++..+-...     ...|+-||++|+|||++.
T Consensus        43 ~f~FD~vf~~~~~q~~vf~~~~~~lv~~~l~G~-----n~~i~aYGqtgSGKTyT~   93 (323)
T d1bg2a_          43 PYAFDRVFQSSTSQEQVYNDCAKKIVKDVLEGY-----NGTIFAYGQTSSGKTHTM   93 (323)
T ss_dssp             EEECSEEECTTCCHHHHHHHHTHHHHHHHHTTC-----CEEEEEECSTTSSHHHHH
T ss_pred             eeECCEEECCCCCHHHHHHHHHHHHHHHHHcCC-----CcceeeecccCCCCceec
Confidence            3467777665544444422     333322222     136889999999999875

>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=82.78  E-value=0.15  Score=47.99  Aligned_cols=17  Identities=41%  Similarity=0.768  Sum_probs=14.7

Q ss_pred             cccccCCCCCCchHHHH
Q 012305          389 NMLFYGPPGTGKTMVAR  405 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~  405 (466)
                      .-||+|.+|||||||..
T Consensus        16 valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          16 VAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEEECTTSCHHHHTC
T ss_pred             EEEEEccCCCCcccccc
Confidence            37999999999999763

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=82.33  E-value=0.37  Score=46.94  Aligned_cols=33  Identities=18%  Similarity=0.317  Sum_probs=28.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhCCcchhhcCC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSGLDYAMMTGG  421 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~~~~~~v~~~  421 (466)
                      +.+|+|-+|+|||.++-.+...++.+++.|+..
T Consensus        33 ~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~n   65 (413)
T d1t5la1          33 HQTLLGATGTGKTFTISNVIAQVNKPTLVIAHN   65 (413)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTCCEEEECSS
T ss_pred             cEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeCC
Confidence            488999999999999999999999887777543

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=82.27  E-value=0.19  Score=47.18  Aligned_cols=15  Identities=47%  Similarity=0.924  Sum_probs=13.9

Q ss_pred             ccccCCCCCCchHHH
Q 012305          390 MLFYGPPGTGKTMVA  404 (466)
Q Consensus       390 vLl~GppGTGKT~lA  404 (466)
                      -||+|.+|||||||.
T Consensus        17 alfFGLSGTGKTTLs   31 (313)
T d2olra1          17 AVFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEEECSTTSSHHHHH
T ss_pred             EEEEccCCCCcccce
Confidence            689999999999987

>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=82.26  E-value=0.33  Score=46.06  Aligned_cols=46  Identities=17%  Similarity=0.143  Sum_probs=27.7

Q ss_pred             ccCCCCeeeCcchHHHHH-----HHHHhhccccccccccccccccCCCCCCchHHH
Q 012305          354 IKNNGDIILHPSLQRRIQ-----HLAKATANTKIHQAPFRNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       354 ~~~l~~vVg~~~~~~~l~-----~~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA  404 (466)
                      ...||.+.+...-.+.|.     .++..+-....     ..|+-||++|+|||++.
T Consensus        47 ~f~FD~vf~~~~~q~~vy~~~~~plv~~~l~G~n-----~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          47 SFTFDRVFDMSCKQSDIFDFSIKPTVDDILNGYN-----GTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             EEECSEEECTTCCHHHHHHHHTHHHHHHHTTTCC-----EEEEEECSTTSSHHHHH
T ss_pred             eEECCeEcCCCCCHHHHHHHHHHHHHHHhhccCc-----eeEEecccCCCCcceee
Confidence            356777776655444443     23333322221     25888999999999764

>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=82.01  E-value=0.55  Score=43.31  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=18.4

Q ss_pred             cccccCCCCCCchHHHHHHHHh
Q 012305          389 NMLFYGPPGTGKTMVAREIARK  410 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~  410 (466)
                      .++|.|++|+|||+++..++..
T Consensus        70 r~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          70 RELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             BCEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEeecCCCCChHHHHHHHHHh
Confidence            5899999999999998777543

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.52  E-value=0.37  Score=39.28  Aligned_cols=30  Identities=20%  Similarity=0.336  Sum_probs=19.5

Q ss_pred             ccccCCCCCCchHH-HHHHHHh--hCCcchhhc
Q 012305          390 MLFYGPPGTGKTMV-AREIARK--SGLDYAMMT  419 (466)
Q Consensus       390 vLl~GppGTGKT~l-A~alA~~--l~~~~~~v~  419 (466)
                      -|++||-.+|||+- .+.+.+.  .|..++.++
T Consensus         5 ~li~GpMfsGKTt~Li~~~~~~~~~g~~v~~ik   37 (133)
T d1xbta1           5 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIK   37 (133)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             EEEEecccCHHHHHHHHHHHHHHHcCCcEEEEe
Confidence            36789999999994 4444332  266555554

>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=81.34  E-value=0.25  Score=46.75  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=21.8

Q ss_pred             cccccCCCCCCchHHHHHHHHhhC
Q 012305          389 NMLFYGPPGTGKTMVAREIARKSG  412 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~~l~  412 (466)
                      .|.|-|+-|+||||+++.|++.++
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~   31 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAAS   31 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGG
T ss_pred             EEEEECCccCCHHHHHHHHHHHhc
Confidence            477889999999999999999884

>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=81.26  E-value=0.16  Score=48.64  Aligned_cols=16  Identities=38%  Similarity=0.748  Sum_probs=14.3

Q ss_pred             cccccCCCCCCchHHH
Q 012305          389 NMLFYGPPGTGKTMVA  404 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA  404 (466)
                      .|+-||++|+|||++.
T Consensus        77 ~i~aYGqTGSGKTyTm   92 (364)
T d1sdma_          77 CIFAYGQTGSGKTFTI   92 (364)
T ss_dssp             EEEEECSTTSSHHHHH
T ss_pred             eeeccccCCCCccccc
Confidence            6888999999999874

>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=81.19  E-value=0.32  Score=45.92  Aligned_cols=45  Identities=18%  Similarity=0.236  Sum_probs=26.5

Q ss_pred             cCCCCeeeCcchHHHHHH----HHHhhccccccccccccccccCCCCCCchHHH
Q 012305          355 KNNGDIILHPSLQRRIQH----LAKATANTKIHQAPFRNMLFYGPPGTGKTMVA  404 (466)
Q Consensus       355 ~~l~~vVg~~~~~~~l~~----~~~~~~~~~~~~~p~~~vLl~GppGTGKT~lA  404 (466)
                      ..||.+.+...-.+.+.+    ++..+-+.     ....|+-||.+|+|||++.
T Consensus        52 f~FD~vf~~~~~q~~vy~~v~~~v~~~l~G-----~n~~i~aYGqtgSGKT~T~  100 (342)
T d1f9va_          52 FKFDKIFDQQDTNVDVFKEVGQLVQSSLDG-----YNVCIFAYGQTGSGKTFTM  100 (342)
T ss_dssp             EEESEEECTTCCHHHHHHHHHHHHGGGGGT-----CCEEEEEECCTTSSHHHHH
T ss_pred             eecCeEeCCCCCHHHHHHHhhhhhcchhcc-----cccceeeeeccCCcccccc
Confidence            457777665444444433    32222221     1235778999999999876

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=81.08  E-value=0.32  Score=42.28  Aligned_cols=31  Identities=26%  Similarity=0.438  Sum_probs=23.4

Q ss_pred             cccc-CCCCCCchHHHHHHHHhh---CCcchhhcC
Q 012305          390 MLFY-GPPGTGKTMVAREIARKS---GLDYAMMTG  420 (466)
Q Consensus       390 vLl~-GppGTGKT~lA~alA~~l---~~~~~~v~~  420 (466)
                      |.|+ |-.|+|||+++..||..+   |.+++.+++
T Consensus         4 Iav~s~KGGvGKTtia~nlA~~la~~g~~VlliD~   38 (232)
T d1hyqa_           4 ITVASGKGGTGKTTITANLGVALAQLGHDVTIVDA   38 (232)
T ss_dssp             EEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEeC
Confidence            4555 779999999999888777   666666554

>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=80.53  E-value=0.18  Score=48.42  Aligned_cols=16  Identities=38%  Similarity=0.713  Sum_probs=14.1

Q ss_pred             cccccCCCCCCchHHH
Q 012305          389 NMLFYGPPGTGKTMVA  404 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA  404 (466)
                      .|+-||++|+|||++.
T Consensus       127 ti~aYGqtGSGKT~Tm  142 (368)
T d2ncda_         127 CIFAYGQTGSGKTYTM  142 (368)
T ss_dssp             EEEEECSTTSSHHHHH
T ss_pred             eEEeeccCCCccceEe
Confidence            5888999999999864

>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=80.21  E-value=0.37  Score=41.96  Aligned_cols=16  Identities=38%  Similarity=0.519  Sum_probs=14.3

Q ss_pred             ccccccCCCCCCchHH
Q 012305          388 RNMLFYGPPGTGKTMV  403 (466)
Q Consensus       388 ~~vLl~GppGTGKT~l  403 (466)
                      +++++..|+|||||+.
T Consensus        39 ~dvl~~A~TGsGKTla   54 (207)
T d1t6na_          39 MDVLCQAKSGMGKTAV   54 (207)
T ss_dssp             CCEEEECCTTSCHHHH
T ss_pred             CCeEEEeccccccccc
Confidence            5799999999999974

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=80.03  E-value=0.28  Score=41.45  Aligned_cols=21  Identities=24%  Similarity=0.480  Sum_probs=19.3

Q ss_pred             cccccCCCCCCchHHHHHHHH
Q 012305          389 NMLFYGPPGTGKTMVAREIAR  409 (466)
Q Consensus       389 ~vLl~GppGTGKT~lA~alA~  409 (466)
                      +|-|.|.|++|||+|..+|.+
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            688999999999999999974