Psyllid ID: psy1366

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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-----
Protein Sequence
LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVKS
Secondary Structure (PSIPRED)
ccccccccccccccccccccEEEEEEEEEEccccEEEEEEEEEEccccccEEEEEEccccccccccccccccccccccccccEEEEccccEEEEcEEEEEEcccccccccccEEEEEEEcccccccccccEEEEEEEEEcccccccccccccEEEEEEEEEEEEEccccccccccHHHHHHHHHHHHccccccHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccccccEEcccccEEEEcccccHHHHHHHHHHHHcccEEEEccccccccccEEEEEEEcccEEEccEEEEEEcccEEEcccccccccccHHHHHHHHccccHHEEEccEEEEccccc
Secondary Structure Prediction (SSPRO)
cccccEEEcHcHccHHHHccEEEEEEEEEEEcccccEEEEEEEEcccccEEEEEccccccccccccccccccccccccccccEEEEcccEEEEccEEEEEEEcccccccccccEEEEEccHHHHccccccEEEEEEEEEcccccccccccccEEEEEEHHHHEcccHHHccccccHHHHHHHHHHHcccccccHHHHHHHHHHHccHHccHHHHHHHHHHHHHcccccccccccEEEccEEEEEEccccHHHHHHHHHHHHHcccEEEEccccccccEEEEEEEcccccEEEEHHHHHEHcccEEEEEcHccccHHHHHHHHHHHHHccEEHHHccEEEEEcccc
Coil and Loop (DISEMBL)
lpicpqlhrtqfpnnedigslLQISGTVVRITVAKMLEFRREYVCtkckqcfyvkadfeqfysianplscgspsscdgtnfspvtsvdqdnykdYQEIKIQeraagvgsvpksIWVTLEDdlvdlarpgddvivCGAVLRRWRPVVKGVRSDIELCLSANyltvcndqssslvitpeLRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAggvgrggedgskvrAESHLllvgdpgtgkSEILKFAkrmsprsvlttgvgtttAGLTVSALRENGEWHLEAGALVLsdggvccidefssikehdrtSIHEAMEQQTISVAKdkeskkvkvks
Flexible Loop (DISEMBL)
lpicpqlhrtqfpnnedigsllqisgTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYKDYQEIKIqeraagvgsvpkSIWVTLEDDLVDLARPGDDVIvcgavlrrwrpvvkGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAEshlllvgdpgtgKSEILKfakrmsprsvlttgvgtttaGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEameqqtisvakdkeskkvkvks
Low Complexity Region (SEG)
LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGlylvklclavvlaggvgrggedgskvRAESHLLLVGDPGTGKSEILKFAKRMSPRsvlttgvgtttagltvsalRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIsvakdkeskkvkvks
Disordered region (IsUnstruct)
***************EDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCG***************VDQDNYKDYQEIKIQERAAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRG***********HLLLVGD******EILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSI********************************
Disordered Region (DISOPRED)
LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIAN********************VDQDNYKDYQEIKIQERAAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWR*****VRSDIELCLSANYLTV**************RAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKV**
Disordered Region (DISEMBL)
LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA************
Disordered Region (DISPRO)
LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVK***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVKS
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	345	2.2.26 [Sep-21-2011]
Q2KHI9	1134	DNA helicase MCM9 OS=Mus	yes	N/A	0.968	0.294	0.565	1e-116
F1M5F3	1124	DNA helicase MCM9 OS=Ratt	yes	N/A	0.968	0.297	0.562	1e-115
F1QDI9	1133	DNA helicase MCM9 OS=Dani	yes	N/A	0.968	0.294	0.559	1e-115
Q9NXL9	1143	DNA helicase MCM9 OS=Homo	yes	N/A	0.968	0.292	0.559	1e-115
F1N2W9	1139	DNA helicase MCM9 OS=Bos	yes	N/A	0.968	0.293	0.554	1e-115
I0IUP4	1169	DNA helicase MCM9 OS=Gall	yes	N/A	0.968	0.285	0.562	1e-113
F6RIX4	1117	DNA helicase MCM9 OS=Xeno	yes	N/A	0.968	0.299	0.545	1e-111
Q6NRM6	1143	DNA helicase MCM9 OS=Xeno	N/A	N/A	0.968	0.292	0.543	1e-111
Q9UXG1	686	Minichromosome maintenanc	yes	N/A	0.884	0.444	0.384	1e-54
P49735	887	DNA replication licensing	yes	N/A	0.872	0.339	0.358	3e-43

>sp|Q2KHI9|MCM9_MOUSE DNA helicase MCM9 OS=Mus musculus GN=Mcm9 PE=1 SV=2

 Score =  419 bits (1078), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 191/338 (56%), Positives = 260/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F V+ADFEQ
Sbjct: 103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKHVFMVEADFEQ 162

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYK--DYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+ + P SC S +SCD + FS ++ +     +  DYQEIKIQE+     VGS+P+S+ V
Sbjct: 163 YYTFSRPSSCPSLASCDSSKFSCLSDLSSSPARCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS +V+  
Sbjct: 223 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQRDVRCEVEIVLKANYVQVNNEQSSGMVMDE 282

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           + R E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 283 DTRKEFEDFWEHYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDAAGTRV 342

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 440

Mus musculus (taxid: 10090)

>sp|F1M5F3|MCM9_RAT DNA helicase MCM9 OS=Rattus norvegicus GN=Mcm9 PE=3 SV=2

 Score =  416 bits (1069), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 190/338 (56%), Positives = 259/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F VKADFEQ
Sbjct: 103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKYVFTVKADFEQ 162

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVT--SVDQDNYKDYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+ + P SC S  +CD + F+ ++  S      +DYQEIKIQE+     VGS+P+S+ V
Sbjct: 163 YYTFSRPSSCPSSDTCDSSKFTCLSDLSASPARCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ + G V++RW+P  + +R ++E+ L ANY+ V N+QSS +V+  
Sbjct: 223 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQRDMRCEVEIVLKANYVQVNNEQSSGMVMDE 282

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           + R E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 283 DARKEFEDFWEHYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDAAGTRV 342

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 440

Component of the MCM8-MCM9 complex, a complex involved in homologous recombination repair following DNA interstrand cross-links and plays a key role during gametogenesis. The MCM8-MCM9 complex probably acts as a hexameric helicase downstream of the Fanconi anemia proteins BRCA2 and RAD51 and is required to process aberrant forks into homologous recombination substrates and to orchestrate homologous recombination with resection, fork stabilization and fork restart.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|F1QDI9|MCM9_DANRE DNA helicase MCM9 OS=Danio rerio GN=mcm9 PE=2 SV=2

 Score =  415 bits (1066), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 189/338 (55%), Positives = 254/338 (75%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P   D+G  L ++GTV+R +V K+LE+ R+Y+C KC+  F V+A FEQ
Sbjct: 107 LPVCPELTRDHIPKARDVGHFLSVTGTVIRTSVTKVLEYERDYMCNKCRHVFSVQASFEQ 166

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNY--KDYQEIKIQERAA--GVGSVPKSIWV 116
           FY+   P SC S   C    F+ ++  D      KDYQEIKIQE+     VGS+P+S+ +
Sbjct: 167 FYTFTPPTSCPSEEGCGSFKFTCLSGSDAPPAACKDYQEIKIQEQVQKLSVGSIPRSMLI 226

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ V G V +RW+P+ +  R D+E+ L ANY+ V N+QS++ ++  
Sbjct: 227 ILEDDLVDSCKSGDDITVYGVVCQRWKPMFQDCRCDVEIVLKANYIEVNNEQSTTALVLE 286

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           +++ E  +FW+ HK+D +A RN IL S+CP ++G+Y+VKL +A+VLAGGV R    G+KV
Sbjct: 287 DIQKEFEEFWDSHKHDPIAGRNEILMSLCPQVFGMYVVKLAVAMVLAGGVQRIDASGTKV 346

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLT G+G+T AGLTV+A++++GEWHLEAGA
Sbjct: 347 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTAGIGSTNAGLTVAAVKDSGEWHLEAGA 406

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVLSDGG+CCIDEF+SIKEHDRTSIHEAMEQQTISVAK
Sbjct: 407 LVLSDGGLCCIDEFNSIKEHDRTSIHEAMEQQTISVAK 444

Component of the MCM8-MCM9 complex, a complex involved in homologous recombination repair following DNA interstrand cross-links and plays a key role during gametogenesis. The MCM8-MCM9 complex probably acts as a hexameric helicase required to process aberrant forks into homologous recombination substrates and to orchestrate homologous recombination with resection, fork stabilization and fork restart.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q9NXL9|MCM9_HUMAN DNA helicase MCM9 OS=Homo sapiens GN=MCM9 PE=1 SV=4

 Score =  414 bits (1065), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 189/338 (55%), Positives = 259/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F +KADFEQ
Sbjct: 103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKHVFVIKADFEQ 162

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYK--DYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+   P SC S  SCD + F+ ++ +     +  DYQEIKIQE+     VGS+P+S+ V
Sbjct: 163 YYTFCRPSSCPSLESCDSSKFTCLSGLSSSPTRCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS +++  
Sbjct: 223 ILEDDLVDSCKSGDDLTIYGIVMQRWKPFQQDVRCEVEIVLKANYIQVNNEQSSGIIMDE 282

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           E++ E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 283 EVQKEFEDFWEYYKSDPFAGRNVILASLCPQVFGMYLVKLAVAMVLAGGIQRTDATGTRV 342

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 440

Homo sapiens (taxid: 9606)

>sp|F1N2W9|MCM9_BOVIN DNA helicase MCM9 OS=Bos taurus GN=MCM9 PE=3 SV=2

 Score =  414 bits (1063), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 187/337 (55%), Positives = 258/337 (76%), Gaps = 3/337 (0%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F V+ADFEQ
Sbjct: 103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKILEFERDYMCNKCKHVFVVQADFEQ 162

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNY-KDYQEIKIQERAA--GVGSVPKSIWVT 117
           +Y+   P SC S  +CD + F+ ++ +      +DYQEIKIQE+     VGS+P+S+ V 
Sbjct: 163 YYTFFRPSSCPSLENCDSSKFTCLSDLSSPTRCRDYQEIKIQEQVQRLSVGSIPRSMQVI 222

Query: 118 LEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPE 177
           LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N++S+ + +  E
Sbjct: 223 LEDDLVDSCKSGDDITIYGVVMQRWKPFKQDVRCEVEIVLKANYIQVNNEESAGVNMDEE 282

Query: 178 LRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVR 237
           +R E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++VR
Sbjct: 283 VRKEFEDFWEHYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDATGTRVR 342

Query: 238 AESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGAL 297
            ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGAL
Sbjct: 343 GESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGAL 402

Query: 298 VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           VL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 403 VLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 439

Component of the MCM8-MCM9 complex, a complex involved in homologous recombination repair following DNA interstrand cross-links and plays a key role during gametogenesis. The MCM8-MCM9 complex probably acts as a hexameric helicase downstream of the Fanconi anemia proteins BRCA2 and RAD51 and is required to process aberrant forks into homologous recombination substrates and to orchestrate homologous recombination with resection, fork stabilization and fork restart.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|I0IUP4|MCM9_CHICK DNA helicase MCM9 OS=Gallus gallus GN=MCM9 PE=1 SV=2

 Score =  409 bits (1050), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 190/338 (56%), Positives = 250/338 (73%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LPICP+L R   P   D+G  L ++GTV+R ++ K+LEF R Y+C KCK  F  KADFEQ
Sbjct: 105 LPICPELTREHIPKTRDVGHFLSVTGTVIRTSLVKVLEFERSYICNKCKHVFVAKADFEQ 164

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNY--KDYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+   P +C +   C+ T F+ ++         +DYQEIKIQE+     VGS+P+ + V
Sbjct: 165 YYAFCRPSACLNEEGCNSTKFTCLSGTSSSPSSCRDYQEIKIQEQVQRLSVGSIPRCMVV 224

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ V G V++RW+P  +  R D+EL L ANY+ V N+Q + + I  
Sbjct: 225 VLEDDLVDSCKSGDDITVYGVVMQRWKPFHQDARCDLELVLKANYVKVNNEQLAGVTIDE 284

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           E+R E   FWE H+ + LA RN ILAS+CP ++GLYLVKL +A+VLAGGV R    G+++
Sbjct: 285 EVRKEFEDFWEKHRNNPLAGRNEILASLCPQVFGLYLVKLAVAMVLAGGVQRIDATGTRI 344

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLT G+G+T+AGLTV+A+++ GEW+LEAGA
Sbjct: 345 RGESHLLLVGDPGTGKSQFLKYAVKITPRSVLTAGIGSTSAGLTVTAVKDFGEWNLEAGA 404

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+DGG+CCIDEF+SIKEHDRTSIHEAMEQQTISVAK
Sbjct: 405 LVLADGGLCCIDEFNSIKEHDRTSIHEAMEQQTISVAK 442

Component of the MCM8-MCM9 complex, a complex involved in homologous recombination repair following DNA interstrand cross-links and plays a key role during gametogenesis. The MCM8-MCM9 complex probably acts as a hexameric helicase required to process aberrant forks into homologous recombination substrates and to orchestrate homologous recombination with resection, fork stabilization and fork restart.

Gallus gallus (taxid: 9031)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|F6RIX4|MCM9_XENTR DNA helicase MCM9 OS=Xenopus tropicalis GN=mcm9 PE=3 SV=1

 Score =  402 bits (1032), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 184/337 (54%), Positives = 254/337 (75%), Gaps = 3/337 (0%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P   D+G  L ++GTV+R ++ K+LE+ ++++C KCK    VKADFEQ
Sbjct: 105 LPVCPELTREHIPRTRDVGHFLSVTGTVIRTSLVKVLEYEQDFMCNKCKHVVTVKADFEQ 164

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVT-SVDQDNYKDYQEIKIQERAA--GVGSVPKSIWVT 117
           +Y+   P++C +   C+ + F+ ++ S    + +DYQEIKIQE+     VGS+P+S+ V 
Sbjct: 165 YYTFKPPITCSNEEGCNSSKFTCLSDSSTPASCRDYQEIKIQEQVQRLSVGSIPRSMIVV 224

Query: 118 LEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPE 177
           LEDDLVD  + GDDV V G V++RW+P+    R D+E+ L ANY+ V N+Q   +VI  E
Sbjct: 225 LEDDLVDSCKSGDDVTVYGVVMQRWKPLYIDTRCDLEIVLKANYIAVNNEQPCGVVINEE 284

Query: 178 LRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVR 237
           +R E   FWE ++   L  RN ILAS+CP ++G+++VKL +A+VLAGGV R    G++VR
Sbjct: 285 VRKEYEGFWEKYRNSPLEGRNEILASLCPQVFGMFVVKLAVAMVLAGGVQRIDSAGTRVR 344

Query: 238 AESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGAL 297
            ESHLLLVGDPGTGKS+ LK+A +++PRSVLT G+G+T+AGLTV+A++++GEW+LEAGAL
Sbjct: 345 GESHLLLVGDPGTGKSQFLKYAVKITPRSVLTAGIGSTSAGLTVTAVKDSGEWNLEAGAL 404

Query: 298 VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           VL+DGG+CCIDEF+SIKEHDRTSIHEAMEQQTISVAK
Sbjct: 405 VLADGGLCCIDEFNSIKEHDRTSIHEAMEQQTISVAK 441

Component of the MCM8-MCM9 complex, a complex involved in homologous recombination repair following DNA interstrand cross-links and plays a key role during gametogenesis. The MCM8-MCM9 complex probably acts as a hexameric helicase required to process aberrant forks into homologous recombination substrates and to orchestrate homologous recombination with resection, fork stabilization and fork restart. In eggs, required for MCM2-7 loading onto chromatin during DNA replication. Probably not required for DNA replication in other cells.

Xenopus tropicalis (taxid: 8364)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q6NRM6|MCM9_XENLA DNA helicase MCM9 OS=Xenopus laevis GN=mcm9 PE=1 SV=1

 Score =  401 bits (1031), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 183/337 (54%), Positives = 255/337 (75%), Gaps = 3/337 (0%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P   D+G  L ++GTV+R ++ K+LE+ ++++C KCK    VKADFEQ
Sbjct: 105 LPVCPELTREHIPRTRDVGHFLSVTGTVIRTSLVKVLEYEQDFMCNKCKHVVTVKADFEQ 164

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVT-SVDQDNYKDYQEIKIQERAA--GVGSVPKSIWVT 117
            Y+   P++C +   C+ T F+ ++ S    + +DYQEIKIQE+     VGS+P+S+ V 
Sbjct: 165 HYTFKPPIACSNEEGCNSTKFTCLSDSSSPASCRDYQEIKIQEQVQRLSVGSIPRSMIVV 224

Query: 118 LEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPE 177
           LEDDLVD  + GDD+ V G V++RW+P+   +R D+E+ L ANY++V N+Q   +VI  E
Sbjct: 225 LEDDLVDSCKSGDDITVYGVVMQRWKPLYIDMRCDLEIVLKANYISVNNEQPCGVVINEE 284

Query: 178 LRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVR 237
           +R E   FW  ++ + L  RN ILAS+CP ++G+++VKL +A+VLAGGV R    G++VR
Sbjct: 285 VRKEYEDFWVKYRNNPLEGRNEILASLCPQVFGMFVVKLAVAMVLAGGVQRIDSAGTRVR 344

Query: 238 AESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGAL 297
            ESHLLLVGDPGTGKS+ LK+A +++PRSVLT G+G+T+AGLTV+A++++GEW+LEAGAL
Sbjct: 345 GESHLLLVGDPGTGKSQFLKYAAKITPRSVLTAGIGSTSAGLTVTAVKDSGEWNLEAGAL 404

Query: 298 VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           VL+DGG+CCIDEF+SIKEHDRTSIHEAMEQQTISVAK
Sbjct: 405 VLADGGLCCIDEFNSIKEHDRTSIHEAMEQQTISVAK 441

Xenopus laevis (taxid: 8355)

>sp|Q9UXG1|MCM_SULSO Minichromosome maintenance protein MCM OS=Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) GN=MCM PE=1 SV=1

 Score =  214 bits (544), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 126/328 (38%), Positives = 193/328 (58%), Gaps = 23/328 (7%)

Query: 17  DIGSLLQISGTVVRITVAKMLEFRREY--VCTKCKQCFYVKADFEQFYSIANPL---SCG 71
           DIG L+ I G +V++T  K   ++  Y  +   C Q F    D E    +  P     CG
Sbjct: 116 DIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTICPKCG 175

Query: 72  SPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPG 129
            P         P    ++    D+Q+  IQER   V  G +P+ + + LEDDLVD ARPG
Sbjct: 176 KPGQF---RLIP----EKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPG 228

Query: 130 DDVIVCGAV-LRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWED 188
           D V V G + +++  PV +G R+  ++ +  + + V       ++I+ E   ++    +D
Sbjct: 229 DRVKVTGILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQKVLDEVIISEEDEKKIKDLAKD 288

Query: 189 HKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDP 248
                   R+ I++SI P+IYG + +K  LA+ L GGV +  ED +++R + H+L++GDP
Sbjct: 289 P-----WIRDRIISSIAPSIYGHWELKEALALALFGGVPKVLED-TRIRGDIHILIIGDP 342

Query: 249 GTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALREN--GEWHLEAGALVLSDGGVCC 306
           GT KS++L+F  R++PR+V TTG G+T AGLT + +RE   GE++LEAGALVL+DGG+  
Sbjct: 343 GTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIAV 402

Query: 307 IDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           IDE   +++ DR +IHEAMEQQT+S+AK
Sbjct: 403 IDEIDKMRDEDRVAIHEAMEQQTVSIAK 430

Presumptive replicative helicase. Has ATPase and DNA helicase activities. The latter preferentially melts 5'-tailed oligonucleotides and is stimulated by the SSB protein (single-stranded DNA binding protein). The active ATPase sites in the MCM ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The helicase function is proposed to use a partially sequential mode of ATP hydrolysis; the complex appears to tolerate multiple catalytically inactive subunits.

Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) (taxid: 273057)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P49735|MCM2_DROME DNA replication licensing factor Mcm2 OS=Drosophila melanogaster GN=Mcm2 PE=1 SV=1

 Score =  176 bits (445), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 123/343 (35%), Positives = 183/343 (53%), Gaps = 42/343 (12%)

Query: 6   QLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIA 65
           +LH  Q      +G +   +G + +++V K       Y C KC    YV   F Q  S  
Sbjct: 284 KLHLNQLVRT--LGVVTATTGVLPQLSVIK-------YDCVKCG---YVLGPFVQ--SQN 329

Query: 66  NPLSCGSPSSCDGTN-FSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDL 122
             +  GS   C  T  FS   +++Q  Y++YQ+I +QE    +  G +P+S  V L  DL
Sbjct: 330 TEIKPGSCPECQSTGPFS--INMEQTLYRNYQKITLQESPGRIPAGRIPRSKDVILLADL 387

Query: 123 VDLARPGDDVIVCGAVLRRWR---------PVVKGVRSDIELCLSANYLTVCNDQSSSLV 173
            D  +PGD++ V G     +          PV   V       + AN++ V + +     
Sbjct: 388 CDQCKPGDELEVTGIYTNNYDGSLNTDQGFPVFATV-------IIANHVVVKDSKQVVQS 440

Query: 174 ITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDG 233
           +T E  A + +  +D +   +  R  ++AS+ P+IYG   +K  LA+ L GG  +   + 
Sbjct: 441 LTDEDIATIQKLSKDPR---IVER--VVASMAPSIYGHDYIKRALALALFGGESKNPGEK 495

Query: 234 SKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE--NGEWH 291
            KVR + +LL+ GDPGT KS+ LK+ ++++PR+V TTG G +  GLT    R   + EW 
Sbjct: 496 HKVRGDINLLICGDPGTAKSQFLKYTEKVAPRAVFTTGQGASAVGLTAYVRRNPVSREWT 555

Query: 292 LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LEAGALVL+D GVC IDEF  + + DRTSIHEAMEQQ+IS++K
Sbjct: 556 LEAGALVLADQGVCLIDEFDKMNDQDRTSIHEAMEQQSISISK 598

Acts as component of the Mcm2-7 complex (Mcm complex) which is the putative replicative helicase essential for 'once per cell cycle' DNA replication initiation and elongation in eukaryotic cells. The active ATPase sites in the Mcm2-7 ring are formed through the interaction surfaces of two neighboring subunits such that a critical structure of a conserved arginine finger motif is provided in trans relative to the ATP-binding site of the Walker A box of the adjacent subunit. The six ATPase active sites, however, are likely to contribute differentially to the complex helicase activity. Required for DNA replication and cell proliferation.

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

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	345
405964085	1074	DNA replication licensing factor MCM9 [C	0.965	0.310	0.585	1e-120
328697678	633	PREDICTED: DNA replication licensing fac	0.962	0.524	0.595	1e-118
327261648	1149	PREDICTED: DNA replication licensing fac	0.968	0.290	0.576	1e-116
395816371	1140	PREDICTED: DNA replication licensing fac	0.968	0.292	0.571	1e-115
158564298	1134	RecName: Full=DNA helicase MCM9; AltName	0.968	0.294	0.565	1e-115
297291859	1148	PREDICTED: DNA replication licensing fac	0.968	0.290	0.573	1e-115
301766248	1141	PREDICTED: DNA replication licensing fac	0.968	0.292	0.565	1e-115
355562104	1142	hypothetical protein EGK_15399 [Macaca m	0.968	0.292	0.573	1e-114
355748944	1142	hypothetical protein EGM_14065 [Macaca f	0.968	0.292	0.571	1e-114
86439953	1290	DNA helicase MCM9 [Mus musculus] gi|8619	0.968	0.258	0.565	1e-114

>gi|405964085|gb|EKC29607.1| DNA replication licensing factor MCM9 [Crassostrea gigas]

 Score =  436 bits (1121), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 198/338 (58%), Positives = 265/338 (78%), Gaps = 5/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+LHRT  P   D+GS L I+GTV+R TV KMLE  R+++CTKC+    V+AD EQ
Sbjct: 108 LPVCPELHRTSVPRAGDVGSFLAITGTVIRTTVMKMLEHERDFLCTKCRNVCSVQADLEQ 167

Query: 61  FYSIANPLSCGSPSSCDGTNFSPV--TSVDQDNYKDYQEIKIQERAA--GVGSVPKSIWV 116
           F+++A P  C S  +C+ TNF+P+  T       ++YQEIKIQE+     VG++P+S+WV
Sbjct: 168 FFNLAKPSKC-SNETCNSTNFTPLCDTGGQPQKCRNYQEIKIQEQVQRLAVGTIPRSMWV 226

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            + DDLVD  + GDDVI+CG V RRWRP     R DIE+ L AN++ V N+Q +S+++T 
Sbjct: 227 VVLDDLVDKCKAGDDVIICGTVRRRWRPSAVDSRCDIEMVLEANHILVTNEQRNSVLVTQ 286

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           EL++E+ +FWED++ D L+ARN ILAS+CP +YGLY+VKL +A+VLAGGV R  E G++V
Sbjct: 287 ELKSEIMKFWEDNRNDPLSARNRILASLCPQVYGLYVVKLAVALVLAGGVQRVDESGTRV 346

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R E H+L+VGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A+++ GEW LEAGA
Sbjct: 347 RGEIHMLMVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDGGEWQLEAGA 406

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+DGG+CCIDEFSSI+EHD+ SIHEAMEQQTISVAK
Sbjct: 407 LVLADGGLCCIDEFSSIREHDKASIHEAMEQQTISVAK 444

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|328697678|ref|XP_001948467.2| PREDICTED: DNA replication licensing factor MCM9-like [Acyrthosiphon pisum]

 Score =  430 bits (1105), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 202/339 (59%), Positives = 259/339 (76%), Gaps = 7/339 (2%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+LHRT FP NEDIGS L+++GTVVR  + K+LE++R Y C+KCK+ F VK D+EQ
Sbjct: 93  LPLCPELHRTIFPRNEDIGSFLRVNGTVVRTVLPKLLEYKRAYYCSKCKEPFDVKIDYEQ 152

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNY-KDYQEIKIQER--AAGVGSVPKSIWVT 117
           F  +  PL C +   C GTN  P+   D+D Y KDYQEIKIQE+    G+G++P+S+WV+
Sbjct: 153 FNKLIVPLRCPNLEGCPGTNLKPLE--DEDQYIKDYQEIKIQEQIGKVGLGAMPRSMWVS 210

Query: 118 LEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPE 177
           LEDDLVD  +PGDDVI+CG V+RRW   ++    DIELC  AN+L VCNDQ S+++IT E
Sbjct: 211 LEDDLVDKCKPGDDVIICGTVIRRWHQTIENSYIDIELCFRANHLIVCNDQQSAVMITDE 270

Query: 178 LRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGS--K 235
              E  +FWED+K D  AAR+ I+ASI P  YGLY  KL +A+ LAGGV R   +G   +
Sbjct: 271 WVQEFEKFWEDNKNDLFAARDLIIASISPQTYGLYTAKLAVALGLAGGVQRPASEGGGIR 330

Query: 236 VRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAG 295
           +R E+HLLLVGDPGTGKS++LKFA ++ PRS+ TTGVG++ AGLTV+A RE  EWHLEAG
Sbjct: 331 IRGETHLLLVGDPGTGKSQLLKFAWKVCPRSIFTTGVGSSKAGLTVAAFREGSEWHLEAG 390

Query: 296 ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           ALVL+DGG+CC+DEF S++E DRT+IHEAMEQQ+ISVAK
Sbjct: 391 ALVLADGGICCVDEFGSLREDDRTAIHEAMEQQSISVAK 429

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|327261648|ref|XP_003215641.1| PREDICTED: DNA replication licensing factor MCM9-like [Anolis carolinensis]

 Score =  423 bits (1088), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 195/338 (57%), Positives = 258/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P   D+G  L ++GTV+R ++AK+LEF R+Y+C KCK  F VKADFEQ
Sbjct: 105 LPVCPELTREHIPKTRDVGHFLSVTGTVIRTSLAKVLEFERDYMCNKCKHVFVVKADFEQ 164

Query: 61  FYSIANPLSCGSPSSCDGTNFSPV--TSVDQDNYKDYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+   P SC +   C+ + F+ +  TS    + +DYQEIKIQE+     VGS+P+S+ V
Sbjct: 165 YYAFCRPSSCPNKEGCNSSKFTCLSGTSFAPSSCRDYQEIKIQEQVQRLSVGSIPRSMMV 224

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ V G V++RW+P  +  R D+E+ L ANY+ V N+Q + ++I  
Sbjct: 225 VLEDDLVDSCKSGDDITVYGIVMQRWKPFHQDSRCDVEIVLKANYIQVNNEQMTGVIIDE 284

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           E+R E   FWE H+ D LA RN ILAS+CP I+GLYLVKL +A+VLAGGV R    G+++
Sbjct: 285 EVRKEFEDFWEKHRNDPLAGRNEILASLCPQIFGLYLVKLAVAMVLAGGVQRTDAAGTRI 344

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLT G+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 345 RGESHLLLVGDPGTGKSQFLKYAVKITPRSVLTAGIGSTSAGLTVTAVKDSGEWNLEAGA 404

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+DGG+CCIDEF+SIKEHDRTSIHEAMEQQTISVAK
Sbjct: 405 LVLADGGLCCIDEFNSIKEHDRTSIHEAMEQQTISVAK 442

Source: Anolis carolinensis

Species: Anolis carolinensis

Genus: Anolis

Family: Iguanidae

Order: Squamata

Phylum: Chordata

Superkingdom: Eukaryota

>gi|395816371|ref|XP_003781677.1| PREDICTED: DNA replication licensing factor MCM9 [Otolemur garnettii]

 Score =  419 bits (1078), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 193/338 (57%), Positives = 259/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F VKADFEQ
Sbjct: 103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKHIFVVKADFEQ 162

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYK--DYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+   P SC S  SCD + F+ ++S+     +  DYQEIKIQE+     VGS+P+S+ V
Sbjct: 163 YYTFCRPSSCPSLESCDSSKFTCLSSLSSSPTRCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS + +  
Sbjct: 223 VLEDDLVDSCKSGDDLTIYGVVMQRWKPFQQDVRCEVEIVLKANYVQVNNEQSSGITMDE 282

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           E+R E   FWE +K D  A RN ILAS+CP I+G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 283 EVRKEFEDFWECYKSDPFAGRNEILASLCPQIFGMYLVKLAVAMVLAGGIQRTDATGTRV 342

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 440

Source: Otolemur garnettii

Species: Otolemur garnettii

Genus: Otolemur

Family: Galagidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|158564298|sp|Q2KHI9.2|MCM9_MOUSE RecName: Full=DNA helicase MCM9; AltName: Full=Mini-chromosome maintenance deficient domain-containing protein 1; AltName: Full=Minichromosome maintenance 9

 Score =  419 bits (1078), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 191/338 (56%), Positives = 260/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F V+ADFEQ
Sbjct: 103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKHVFMVEADFEQ 162

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYK--DYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+ + P SC S +SCD + FS ++ +     +  DYQEIKIQE+     VGS+P+S+ V
Sbjct: 163 YYTFSRPSSCPSLASCDSSKFSCLSDLSSSPARCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS +V+  
Sbjct: 223 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQRDVRCEVEIVLKANYVQVNNEQSSGMVMDE 282

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           + R E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 283 DTRKEFEDFWEHYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDAAGTRV 342

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 440

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|297291859|ref|XP_001110306.2| PREDICTED: DNA replication licensing factor MCM9-like isoform 1 [Macaca mulatta]

 Score =  419 bits (1078), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 194/338 (57%), Positives = 260/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+CTKCK  F VKADFEQ
Sbjct: 109 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCTKCKHVFVVKADFEQ 168

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVT--SVDQDNYKDYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+   P SC S  SCD + F+ ++  S      +DYQEIKIQE+     VGS+P+S+ V
Sbjct: 169 YYTFCRPSSCPSLESCDSSKFTCLSGLSSSPTRCRDYQEIKIQEQVQRLSVGSIPRSMKV 228

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS +V+  
Sbjct: 229 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQQDVRCEVEIVLKANYIQVNNEQSSGIVMDE 288

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           E+R E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 289 EVRKEFEDFWEYYKSDPFAGRNVILASLCPQVFGMYLVKLAVAMVLAGGIQRTDATGTRV 348

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 349 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 408

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 409 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 446

Source: Macaca mulatta

Species: Macaca mulatta

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|301766248|ref|XP_002918546.1| PREDICTED: DNA replication licensing factor MCM9-like [Ailuropoda melanoleuca]

 Score =  419 bits (1077), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 191/338 (56%), Positives = 260/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F VKADFEQ
Sbjct: 103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKILEFERDYMCNKCKHVFVVKADFEQ 162

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYK--DYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+   P SC S  SCD + F+ ++ +     +  DYQEIKIQE+     VGS+P+S+ V
Sbjct: 163 YYTFCRPSSCPSLESCDSSKFTCLSGLSSTPTRCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ V G V++RW+P  +GVR ++E+ L ANY+ V N+QS+ +++  
Sbjct: 223 ILEDDLVDSCKSGDDLTVYGVVMQRWKPFQQGVRCEVEIVLKANYVQVNNEQSAGIIMDE 282

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           E++ E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 283 EIQKEFEDFWESYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDATGTRV 342

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 403 LVLADVGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 440

Source: Ailuropoda melanoleuca

Species: Ailuropoda melanoleuca

Genus: Ailuropoda

Family: Ursidae

Order: Carnivora

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|355562104|gb|EHH18736.1| hypothetical protein EGK_15399 [Macaca mulatta]

 Score =  419 bits (1077), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 194/338 (57%), Positives = 260/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+CTKCK  F VKADFEQ
Sbjct: 103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCTKCKHVFVVKADFEQ 162

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVT--SVDQDNYKDYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+   P SC S  SCD + F+ ++  S      +DYQEIKIQE+     VGS+P+S+ V
Sbjct: 163 YYTFCRPSSCPSLESCDSSKFTCLSGLSSSPTRCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS +V+  
Sbjct: 223 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQQDVRCEVEIVLKANYIQVNNEQSSGIVMDE 282

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           E+R E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 283 EVRKEFEDFWEYYKSDPFAGRNVILASLCPQVFGMYLVKLAVAMVLAGGIQRTDATGTRV 342

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 440

Source: Macaca mulatta

Species: Macaca mulatta

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|355748944|gb|EHH53427.1| hypothetical protein EGM_14065 [Macaca fascicularis]

 Score =  419 bits (1077), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 193/338 (57%), Positives = 260/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+CTKCK  F VKADFEQ
Sbjct: 103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCTKCKHVFVVKADFEQ 162

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQD--NYKDYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+   P SC S  SCD + F+ ++ +       +DYQEIKIQE+     VGS+P+S+ V
Sbjct: 163 YYTFCRPSSCPSLESCDSSKFTCLSGLSSSLTRCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS +V+  
Sbjct: 223 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQQDVRCEVEIVLKANYIQVNNEQSSGIVMDE 282

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           E+R E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 283 EVRKEFEDFWEYYKSDPFAGRNVILASLCPQVFGMYLVKLAVAMVLAGGIQRTDATGTRV 342

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 440

Source: Macaca fascicularis

Species: Macaca fascicularis

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|86439953|ref|NP_082106.2| DNA helicase MCM9 [Mus musculus] gi|86198294|tpe|CAJ70649.1| TPA: mini-chromosome maintenance deficient 9 [Mus musculus] gi|225000570|gb|AAI72624.1| Minichromosome maintenance complex component 9 [synthetic construct]

 Score =  418 bits (1074), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 191/338 (56%), Positives = 260/338 (76%), Gaps = 4/338 (1%)

Query: 1   LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
           LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F V+ADFEQ
Sbjct: 259 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKHVFMVEADFEQ 318

Query: 61  FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYK--DYQEIKIQERAA--GVGSVPKSIWV 116
           +Y+ + P SC S +SCD + FS ++ +     +  DYQEIKIQE+     VGS+P+S+ V
Sbjct: 319 YYTFSRPSSCPSLASCDSSKFSCLSDLSSSPARCRDYQEIKIQEQVQRLSVGSIPRSMKV 378

Query: 117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
            LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS +V+  
Sbjct: 379 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQRDVRCEVEIVLKANYVQVNNEQSSGMVMDE 438

Query: 177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV 236
           + R E   FWE +K D  A RN ILAS+CP ++G+YLVKL +A+VLAGG+ R    G++V
Sbjct: 439 DTRKEFEDFWEHYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDAAGTRV 498

Query: 237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
           R ESHLLLVGDPGTGKS+ LK+A +++PRSVLTTG+G+T+AGLTV+A++++GEW+LEAGA
Sbjct: 499 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 558

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTISVAK
Sbjct: 559 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTISVAK 596

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

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	345
MGI|MGI:1918817	1134	Mcm9 "minichromosome maintenan	0.956	0.291	0.476	8.9e-86
RGD|1305582	1124	Mcmdc1 "minichromosome mainten	0.956	0.293	0.473	3.8e-85
UNIPROTKB|J9PA91	1141	MCM9 "Uncharacterized protein"	0.956	0.289	0.470	4.9e-85
ZFIN|ZDB-GENE-041014-310	1135	mcm9 "minichromosome maintenan	0.956	0.290	0.470	4.9e-85
UNIPROTKB|Q9NXL9	1143	MCM9 "DNA helicase MCM9" [Homo	0.956	0.288	0.470	6.2e-85
UNIPROTKB|F1SF38	1126	MCM9 "Uncharacterized protein"	0.956	0.293	0.476	6.2e-85
RGD|1560557	1250	RGD1560557 "similar to minichr	0.956	0.264	0.473	1.1e-84
UNIPROTKB|I0IUP4	1169	MCM9 "DNA helicase MCM9" [Gall	0.956	0.282	0.479	2.7e-84
UNIPROTKB|F1N2W9	1139	MCM9 "DNA helicase MCM9" [Bos	0.956	0.289	0.465	3.4e-84
UNIPROTKB|F6RIX4	1117	mcm9 "DNA helicase MCM9" [Xeno	0.956	0.295	0.462	3.6e-82

MGI|MGI:1918817 Mcm9 "minichromosome maintenance complex component 9" [Mus musculus (taxid:10090)]

 Score = 858 (307.1 bits), Expect = 8.9e-86, P = 8.9e-86
 Identities = 159/334 (47%), Positives = 217/334 (64%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F V+ADFEQ
Sbjct:   103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKHVFMVEADFEQ 162

Query:    61 FYSIANPLSCGSPSSCDGTNFSPVTSVDQD--NYKDYQEIKIQERAA--GVGSVPKSIWV 116
             +Y+ + P SC S +SCD + FS ++ +       +DYQEIKIQE+     VGS+P+S+ V
Sbjct:   163 YYTFSRPSSCPSLASCDSSKFSCLSDLSSSPARCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query:   117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
              LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS +V+  
Sbjct:   223 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQRDVRCEVEIVLKANYVQVNNEQSSGMVMDE 282

Query:   177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXX 236
             + R E   FWE +K D  A RN ILAS+CP ++G                          
Sbjct:   283 DTRKEFEDFWEHYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDAAGTRV 342

Query:   237 RAESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGA 296
             R ESHLLLVGDPGTGKS+ LK+A +++PR                   +++GEW+LEAGA
Sbjct:   343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query:   297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTI
Sbjct:   403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTI 436

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000724 "double-strand break repair via homologous recombination" evidence=ISO;IMP

GO:0003677 "DNA binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006260 "DNA replication" evidence=IMP

GO:0006281 "DNA repair" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=ISO;IMP

GO:0007276 "gamete generation" evidence=IMP

GO:0007292 "female gamete generation" evidence=IMP

GO:0016787 "hydrolase activity" evidence=IEA

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

GO:0097362 "MCM8-MCM9 complex" evidence=ISO;IDA

RGD|1305582 Mcmdc1 "minichromosome maintenance deficient domain containing 1" [Rattus norvegicus (taxid:10116)]

 Score = 852 (305.0 bits), Expect = 3.8e-85, P = 3.8e-85
 Identities = 158/334 (47%), Positives = 216/334 (64%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F VKADFEQ
Sbjct:   103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKYVFTVKADFEQ 162

Query:    61 FYSIANPLSCGSPSSCDGTNFSPVT--SVDQDNYKDYQEIKIQERAA--GVGSVPKSIWV 116
             +Y+ + P SC S  +CD + F+ ++  S      +DYQEIKIQE+     VGS+P+S+ V
Sbjct:   163 YYTFSRPSSCPSSDTCDSSKFTCLSDLSASPARCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query:   117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
              LEDDLVD  + GDD+ + G V++RW+P  + +R ++E+ L ANY+ V N+QSS +V+  
Sbjct:   223 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQRDMRCEVEIVLKANYVQVNNEQSSGMVMDE 282

Query:   177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXX 236
             + R E   FWE +K D  A RN ILAS+CP ++G                          
Sbjct:   283 DARKEFEDFWEHYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDAAGTRV 342

Query:   237 RAESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGA 296
             R ESHLLLVGDPGTGKS+ LK+A +++PR                   +++GEW+LEAGA
Sbjct:   343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query:   297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTI
Sbjct:   403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTI 436

GO:0000724 "double-strand break repair via homologous recombination" evidence=ISS

GO:0003677 "DNA binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006260 "DNA replication" evidence=ISS

GO:0006974 "response to DNA damage stimulus" evidence=ISS

GO:0007276 "gamete generation" evidence=ISS

GO:0007292 "female gamete generation" evidence=ISS

GO:0097362 "MCM8-MCM9 complex" evidence=ISS

UNIPROTKB|J9PA91 MCM9 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 851 (304.6 bits), Expect = 4.9e-85, P = 4.9e-85
 Identities = 157/334 (47%), Positives = 215/334 (64%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F VKADFEQ
Sbjct:   103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKILEFERDYMCNKCKHVFVVKADFEQ 162

Query:    61 FYSIANPLSCGSPSSCDGTNFSPVTSVDQD--NYKDYQEIKIQERAA--GVGSVPKSIWV 116
             +Y+   P SC S   CD + F+ ++ +       +DYQEIKIQE+     VGS+P+S+ V
Sbjct:   163 YYTFCRPSSCPSLEGCDSSKFTCLSGLSSSPVRCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query:   117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
              LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QS+ +V+  
Sbjct:   223 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQQDVRCEVEIVLKANYVQVNNEQSAGIVMDE 282

Query:   177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXX 236
             E++ E   FWE +K D  A RN ILAS+CP ++G                          
Sbjct:   283 EVQKEFEDFWESYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDASGTRV 342

Query:   237 RAESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGA 296
             R ESHLLLVGDPGTGKS+ LK+A +++PR                   +++GEW+LEAGA
Sbjct:   343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query:   297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTI
Sbjct:   403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTI 436

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

ZFIN|ZDB-GENE-041014-310 mcm9 "minichromosome maintenance complex component 9" [Danio rerio (taxid:7955)]

 Score = 851 (304.6 bits), Expect = 4.9e-85, P = 4.9e-85
 Identities = 157/334 (47%), Positives = 213/334 (63%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LP+CP+L R   P   D+G  L ++GTV+R +V K+LE+ R+Y+C KC+  F V+A FEQ
Sbjct:   109 LPVCPELTRDHIPKARDVGHFLSVTGTVIRTSVTKVLEYERDYMCNKCRHVFSVQASFEQ 168

Query:    61 FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNY--KDYQEIKIQERAA--GVGSVPKSIWV 116
             FY+   P SC S   C    F+ ++  D      KDYQEIKIQE+     VGS+P+S+ +
Sbjct:   169 FYTFTPPTSCPSEEGCGSFKFTCLSGSDAPPAACKDYQEIKIQEQVQKLSVGSIPRSMLI 228

Query:   117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
              LEDDLVD  + GDD+ V G V +RW+P+ +  R D+E+ L ANY+ V N+QS++ ++  
Sbjct:   229 ILEDDLVDSCKSGDDITVYGVVCQRWKPMFQDCRCDVEIVLKANYIEVNNEQSTTALVLE 288

Query:   177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXX 236
             +++ E  +FW+ HK+D +A RN IL S+CP ++G                          
Sbjct:   289 DIQKEFEEFWDSHKHDPIAGRNEILMSLCPQVFGMYVVKLAVAMVLAGGVQRIDASGTKV 348

Query:   237 RAESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGA 296
             R ESHLLLVGDPGTGKS+ LK+A +++PR                   +++GEWHLEAGA
Sbjct:   349 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTAGIGSTNAGLTVAAVKDSGEWHLEAGA 408

Query:   297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             LVLSDGG+CCIDEF+SIKEHDRTSIHEAMEQQTI
Sbjct:   409 LVLSDGGLCCIDEFNSIKEHDRTSIHEAMEQQTI 442

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

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0097362 "MCM8-MCM9 complex" evidence=ISS

GO:0000724 "double-strand break repair via homologous recombination" evidence=ISS

GO:0016787 "hydrolase activity" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q9NXL9 MCM9 "DNA helicase MCM9" [Homo sapiens (taxid:9606)]

 Score = 850 (304.3 bits), Expect = 6.2e-85, P = 6.2e-85
 Identities = 157/334 (47%), Positives = 216/334 (64%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F +KADFEQ
Sbjct:   103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKHVFVIKADFEQ 162

Query:    61 FYSIANPLSCGSPSSCDGTNFSPVTSVDQD--NYKDYQEIKIQERAA--GVGSVPKSIWV 116
             +Y+   P SC S  SCD + F+ ++ +       +DYQEIKIQE+     VGS+P+S+ V
Sbjct:   163 YYTFCRPSSCPSLESCDSSKFTCLSGLSSSPTRCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query:   117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
              LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QSS +++  
Sbjct:   223 ILEDDLVDSCKSGDDLTIYGIVMQRWKPFQQDVRCEVEIVLKANYIQVNNEQSSGIIMDE 282

Query:   177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXX 236
             E++ E   FWE +K D  A RN ILAS+CP ++G                          
Sbjct:   283 EVQKEFEDFWEYYKSDPFAGRNVILASLCPQVFGMYLVKLAVAMVLAGGIQRTDATGTRV 342

Query:   237 RAESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGA 296
             R ESHLLLVGDPGTGKS+ LK+A +++PR                   +++GEW+LEAGA
Sbjct:   343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query:   297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTI
Sbjct:   403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTI 436

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0007292 "female gamete generation" evidence=ISS

GO:0097362 "MCM8-MCM9 complex" evidence=IDA

GO:0006974 "response to DNA damage stimulus" evidence=IDA

GO:0000724 "double-strand break repair via homologous recombination" evidence=IDA

UNIPROTKB|F1SF38 MCM9 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 850 (304.3 bits), Expect = 6.2e-85, P = 6.2e-85
 Identities = 159/334 (47%), Positives = 214/334 (64%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F VKADFEQ
Sbjct:   103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKILEFERDYMCNKCKHVFVVKADFEQ 162

Query:    61 FYSIANPLSCGSPSSCDGTNFSPVTSVDQD--NYKDYQEIKIQERAA--GVGSVPKSIWV 116
             +Y+   P SC S  SC  T F+ ++ +       +DYQEIKIQE+     VGS+P+S+ V
Sbjct:   163 YYTFCRPSSCPSLESCGSTKFTCLSDLSSSPTRCRDYQEIKIQEQVQRLSVGSIPRSMKV 222

Query:   117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
              LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N+QS+ + +  
Sbjct:   223 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQQDVRCEVEIVLKANYVQVNNEQSTGINMDE 282

Query:   177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXX 236
             E+R E   FWE +K D  A RN ILAS+CP +YG                          
Sbjct:   283 EVRKEFEDFWEYYKSDPFAGRNEILASLCPQVYGMYLVKLAVAMVLAGGIQRTDATGTRV 342

Query:   237 RAESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGA 296
             R ESHLLLVGDPGTGKS+ LK+A +++PR                   +++GEW+LEAGA
Sbjct:   343 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 402

Query:   297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTI
Sbjct:   403 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTI 436

GO:0097362 "MCM8-MCM9 complex" evidence=IEA

GO:0007292 "female gamete generation" evidence=IEA

GO:0000724 "double-strand break repair via homologous recombination" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

RGD|1560557 RGD1560557 "similar to minichromosome maintenance protein 8 isoform 1" [Rattus norvegicus (taxid:10116)]

 Score = 852 (305.0 bits), Expect = 1.1e-84, P = 1.1e-84
 Identities = 158/334 (47%), Positives = 216/334 (64%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F VKADFEQ
Sbjct:   229 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKVLEFERDYMCNKCKYVFTVKADFEQ 288

Query:    61 FYSIANPLSCGSPSSCDGTNFSPVT--SVDQDNYKDYQEIKIQERAA--GVGSVPKSIWV 116
             +Y+ + P SC S  +CD + F+ ++  S      +DYQEIKIQE+     VGS+P+S+ V
Sbjct:   289 YYTFSRPSSCPSSDTCDSSKFTCLSDLSASPARCRDYQEIKIQEQVQRLSVGSIPRSMKV 348

Query:   117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
              LEDDLVD  + GDD+ + G V++RW+P  + +R ++E+ L ANY+ V N+QSS +V+  
Sbjct:   349 ILEDDLVDSCKSGDDLTIYGVVMQRWKPFQRDMRCEVEIVLKANYVQVNNEQSSGMVMDE 408

Query:   177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXX 236
             + R E   FWE +K D  A RN ILAS+CP ++G                          
Sbjct:   409 DARKEFEDFWEHYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDAAGTRV 468

Query:   237 RAESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGA 296
             R ESHLLLVGDPGTGKS+ LK+A +++PR                   +++GEW+LEAGA
Sbjct:   469 RGESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGA 528

Query:   297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             LVL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTI
Sbjct:   529 LVLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTI 562

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

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

UNIPROTKB|I0IUP4 MCM9 "DNA helicase MCM9" [Gallus gallus (taxid:9031)]

 Score = 844 (302.2 bits), Expect = 2.7e-84, P = 2.7e-84
 Identities = 160/334 (47%), Positives = 210/334 (62%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LPICP+L R   P   D+G  L ++GTV+R ++ K+LEF R Y+C KCK  F  KADFEQ
Sbjct:   105 LPICPELTREHIPKTRDVGHFLSVTGTVIRTSLVKVLEFERSYICNKCKHVFVAKADFEQ 164

Query:    61 FYSIANPLSCGSPSSCDGTNFSPV--TSVDQDNYKDYQEIKIQERAA--GVGSVPKSIWV 116
             +Y+   P +C +   C+ T F+ +  TS    + +DYQEIKIQE+     VGS+P+ + V
Sbjct:   165 YYAFCRPSACLNEEGCNSTKFTCLSGTSSSPSSCRDYQEIKIQEQVQRLSVGSIPRCMVV 224

Query:   117 TLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITP 176
              LEDDLVD  + GDD+ V G V++RW+P  +  R D+EL L ANY+ V N+Q + + I  
Sbjct:   225 VLEDDLVDSCKSGDDITVYGVVMQRWKPFHQDARCDLELVLKANYVKVNNEQLAGVTIDE 284

Query:   177 ELRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXX 236
             E+R E   FWE H+ + LA RN ILAS+CP ++G                          
Sbjct:   285 EVRKEFEDFWEKHRNNPLAGRNEILASLCPQVFGLYLVKLAVAMVLAGGVQRIDATGTRI 344

Query:   237 RAESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGA 296
             R ESHLLLVGDPGTGKS+ LK+A +++PR                   ++ GEW+LEAGA
Sbjct:   345 RGESHLLLVGDPGTGKSQFLKYAVKITPRSVLTAGIGSTSAGLTVTAVKDFGEWNLEAGA 404

Query:   297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             LVL+DGG+CCIDEF+SIKEHDRTSIHEAMEQQTI
Sbjct:   405 LVLADGGLCCIDEFNSIKEHDRTSIHEAMEQQTI 438

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0097362 "MCM8-MCM9 complex" evidence=IDA

GO:0006974 "response to DNA damage stimulus" evidence=IDA

GO:0000724 "double-strand break repair via homologous recombination" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

UNIPROTKB|F1N2W9 MCM9 "DNA helicase MCM9" [Bos taurus (taxid:9913)]

 Score = 843 (301.8 bits), Expect = 3.4e-84, P = 3.4e-84
 Identities = 155/333 (46%), Positives = 215/333 (64%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LP+CP+L R   P  +D+G  L ++GTV+R ++ K+LEF R+Y+C KCK  F V+ADFEQ
Sbjct:   103 LPVCPELVREHIPKTKDVGHFLSVTGTVIRTSLVKILEFERDYMCNKCKHVFVVQADFEQ 162

Query:    61 FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNY-KDYQEIKIQERAA--GVGSVPKSIWVT 117
             +Y+   P SC S  +CD + F+ ++ +      +DYQEIKIQE+     VGS+P+S+ V 
Sbjct:   163 YYTFFRPSSCPSLENCDSSKFTCLSDLSSPTRCRDYQEIKIQEQVQRLSVGSIPRSMQVI 222

Query:   118 LEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPE 177
             LEDDLVD  + GDD+ + G V++RW+P  + VR ++E+ L ANY+ V N++S+ + +  E
Sbjct:   223 LEDDLVDSCKSGDDITIYGVVMQRWKPFKQDVRCEVEIVLKANYIQVNNEESAGVNMDEE 282

Query:   178 LRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXXR 237
             +R E   FWE +K D  A RN ILAS+CP ++G                          R
Sbjct:   283 VRKEFEDFWEHYKSDPFAGRNEILASLCPQVFGMYLVKLAVAMVLAGGIQRTDATGTRVR 342

Query:   238 AESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGAL 297
              ESHLLLVGDPGTGKS+ LK+A +++PR                   +++GEW+LEAGAL
Sbjct:   343 GESHLLLVGDPGTGKSQFLKYAAKITPRSVLTTGIGSTSAGLTVTAVKDSGEWNLEAGAL 402

Query:   298 VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             VL+D G+CCIDEF+S+KEHDRTSIHEAMEQQTI
Sbjct:   403 VLADAGLCCIDEFNSLKEHDRTSIHEAMEQQTI 435

GO:0007276 "gamete generation" evidence=ISS

GO:0006260 "DNA replication" evidence=ISS

GO:0007292 "female gamete generation" evidence=ISS

GO:0097362 "MCM8-MCM9 complex" evidence=ISS

GO:0006974 "response to DNA damage stimulus" evidence=ISS

GO:0000724 "double-strand break repair via homologous recombination" evidence=ISS

GO:0005634 "nucleus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|F6RIX4 mcm9 "DNA helicase MCM9" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 824 (295.1 bits), Expect = 3.6e-82, P = 3.6e-82
 Identities = 154/333 (46%), Positives = 212/333 (63%)

Query:     1 LPICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQ 60
             LP+CP+L R   P   D+G  L ++GTV+R ++ K+LE+ ++++C KCK    VKADFEQ
Sbjct:   105 LPVCPELTREHIPRTRDVGHFLSVTGTVIRTSLVKVLEYEQDFMCNKCKHVVTVKADFEQ 164

Query:    61 FYSIANPLSCGSPSSCDGTNFSPVT-SVDQDNYKDYQEIKIQERAA--GVGSVPKSIWVT 117
             +Y+   P++C +   C+ + F+ ++ S    + +DYQEIKIQE+     VGS+P+S+ V 
Sbjct:   165 YYTFKPPITCSNEEGCNSSKFTCLSDSSTPASCRDYQEIKIQEQVQRLSVGSIPRSMIVV 224

Query:   118 LEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPE 177
             LEDDLVD  + GDDV V G V++RW+P+    R D+E+ L ANY+ V N+Q   +VI  E
Sbjct:   225 LEDDLVDSCKSGDDVTVYGVVMQRWKPLYIDTRCDLEIVLKANYIAVNNEQPCGVVINEE 284

Query:   178 LRAEVTQFWEDHKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXXR 237
             +R E   FWE ++   L  RN ILAS+CP ++G                          R
Sbjct:   285 VRKEYEGFWEKYRNSPLEGRNEILASLCPQVFGMFVVKLAVAMVLAGGVQRIDSAGTRVR 344

Query:   238 AESHLLLVGDPGTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENGEWHLEAGAL 297
              ESHLLLVGDPGTGKS+ LK+A +++PR                   +++GEW+LEAGAL
Sbjct:   345 GESHLLLVGDPGTGKSQFLKYAVKITPRSVLTAGIGSTSAGLTVTAVKDSGEWNLEAGAL 404

Query:   298 VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
             VL+DGG+CCIDEF+SIKEHDRTSIHEAMEQQTI
Sbjct:   405 VLADGGLCCIDEFNSIKEHDRTSIHEAMEQQTI 437

GO:0000724 "double-strand break repair via homologous recombination" evidence=ISS

GO:0006974 "response to DNA damage stimulus" evidence=ISS

GO:0097362 "MCM8-MCM9 complex" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
I0IUP4	MCM9_CHICK	3, ., 6, ., 4, ., 1, 2	0.5621	0.9681	0.2857	yes	N/A
Q9NXL9	MCM9_HUMAN	No assigned EC number	0.5591	0.9681	0.2922	yes	N/A
F1N2W9	MCM9_BOVIN	3, ., 6, ., 4, ., 1, 2	0.5548	0.9681	0.2932	yes	N/A
F1M5F3	MCM9_RAT	3, ., 6, ., 4, ., 1, 2	0.5621	0.9681	0.2971	yes	N/A
Q2KHI9	MCM9_MOUSE	No assigned EC number	0.5650	0.9681	0.2945	yes	N/A
F1QDI9	MCM9_DANRE	3, ., 6, ., 4, ., 1, 2	0.5591	0.9681	0.2947	yes	N/A
F6RIX4	MCM9_XENTR	3, ., 6, ., 4, ., 1, 2	0.5459	0.9681	0.2990	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	345
COG1241	682	COG1241, MCM2, Predicted ATPase involved in replic	1e-86
smart00350	509	smart00350, MCM, minichromosome maintenance protei	2e-83
pfam00493	327	pfam00493, MCM, MCM2/3/5 family	3e-69
PTZ00111	915	PTZ00111, PTZ00111, DNA replication licensing fact	2e-31
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	1e-07
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	7e-06

>gnl|CDD|224162 COG1241, MCM2, Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

 Score =  274 bits (702), Expect = 1e-86
 Identities = 130/331 (39%), Positives = 181/331 (54%), Gaps = 25/331 (7%)

Query: 14  NNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSP 73
            +E IG L+ + G V R +  +    +  + C KC +   V    +  + +  P  C   
Sbjct: 101 RSEHIGKLVSVEGIVTRASEVRPRLKKAVFECPKCGREVEV---EQSEFRVEPPREC--E 155

Query: 74  SSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPGDD 131
           +              +  + D+Q++KIQE    V  G +P+SI V LEDDLVD  RPGD 
Sbjct: 156 NCGKFGKGPLKLVPRKSEFIDFQKVKIQELPELVPGGELPRSIEVILEDDLVDSVRPGDR 215

Query: 132 VIVCGAVLRRWRPVVKGVRSDI--ELCLSANYLTVCNDQSSSLVITPELRAEVTQFWEDH 189
           V + G V       + G R     E+ L AN      D+   + IT E   E+ +     
Sbjct: 216 VKITGVVRIVPSRSLSGRRKGPVFEIYLEANS-VEKLDKREEVEITEEDEEEIKE----- 269

Query: 190 KYDGLAARNHIL----ASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLV 245
               LA R  I      SI P+IYG   VK  + + L GGV +   DG+++R + H+LLV
Sbjct: 270 ----LAKRPDIYDILIKSIAPSIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLV 325

Query: 246 GDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE--NGEWHLEAGALVLSDGG 303
           GDPGT KS++LK+  +++PR V T+G G++ AGLT + +R+   GEW LEAGALVL+DGG
Sbjct: 326 GDPGTAKSQLLKYVAKLAPRGVYTSGKGSSAAGLTAAVVRDKVTGEWVLEAGALVLADGG 385

Query: 304 VCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           VCCIDEF  + E DR +IHEAMEQQTIS+AK
Sbjct: 386 VCCIDEFDKMNEEDRVAIHEAMEQQTISIAK 416

Length = 682

>gnl|CDD|214631 smart00350, MCM, minichromosome maintenance proteins

 Score =  261 bits (669), Expect = 2e-83
 Identities = 119/338 (35%), Positives = 181/338 (53%), Gaps = 30/338 (8%)

Query: 14  NNEDIGSLLQISGTVVRITV--AKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCG 71
             + +G L++ISG V R +    K+     +     C++C        Q      P  C 
Sbjct: 9   RADHLGKLVRISGIVTRTSGVRPKL-----KRASFTCEKCGATLGPEIQSGRETEPTVCP 63

Query: 72  SPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPG 129
            P  C  +      + ++  + D+Q+IK+QE    V  G +P+S+ V L+ DLVD A+PG
Sbjct: 64  -PREC-QSPTPFSLNHERSTFIDFQKIKLQESPEEVPVGQLPRSVDVILDGDLVDKAKPG 121

Query: 130 DDVIVCG---AVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLV-------ITPELR 179
           D V V G    V   ++             + AN++   + + S          ++ E  
Sbjct: 122 DRVEVTGIYRNVPYGFKLNTVKGLPVFATYIEANHVRKLDYKRSFEDSSFSVQSLSDEEE 181

Query: 180 AEVTQFWED-HKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRA 238
            E+ +  +D   Y+ LA       S+ P+IYG   +K  + ++L GGV +   DG K+R 
Sbjct: 182 EEIRKLSKDPDIYERLAR------SLAPSIYGHEDIKKAILLLLFGGVHKNLPDGMKIRG 235

Query: 239 ESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR--ENGEWHLEAGA 296
           + ++LL GDPGT KS++LK+ ++ +PR+V TTG G++  GLT +  R  E  E+ LEAGA
Sbjct: 236 DINILLCGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTRDPETREFTLEAGA 295

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
           LVL+D GVCCIDEF  + + DRT+IHEAMEQQTIS+AK
Sbjct: 296 LVLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAK 333

Length = 509

>gnl|CDD|215947 pfam00493, MCM, MCM2/3/5 family

 Score =  219 bits (560), Expect = 3e-69
 Identities = 75/137 (54%), Positives = 103/137 (75%), Gaps = 2/137 (1%)

Query: 200 ILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFA 259
           +  SI P+IYG   VK  + + L GGV +   DG+++R + ++LLVGDPGT KS++LK+ 
Sbjct: 18  LARSIAPSIYGHEDVKKAILLQLFGGVKKNLPDGTRLRGDINVLLVGDPGTAKSQLLKYV 77

Query: 260 KRMSPRSVLTTGVGTTTAGLTVSALREN--GEWHLEAGALVLSDGGVCCIDEFSSIKEHD 317
            +++PR+V T+G G++ AGLT + +R+   GEW LEAGALVL+DGGVCCIDEF  + E D
Sbjct: 78  AKLAPRAVYTSGKGSSAAGLTAAVVRDPDTGEWTLEAGALVLADGGVCCIDEFDKMNEED 137

Query: 318 RTSIHEAMEQQTISVAK 334
           R +IHEAMEQQTIS+AK
Sbjct: 138 RVAIHEAMEQQTISIAK 154

Length = 327

>gnl|CDD|173403 PTZ00111, PTZ00111, DNA replication licensing factor MCM4; Provisional

 Score =  124 bits (313), Expect = 2e-31
 Identities = 77/256 (30%), Positives = 114/256 (44%), Gaps = 44/256 (17%)

Query: 112 KSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSS 171
           + I + L DDL+D  + GD V V G +  +  P+           L + Y    N     
Sbjct: 346 EVINLNLYDDLIDSVKTGDRVTVVGIL--KVTPIRTSTTRR---TLKSLYTYFVN----- 395

Query: 172 LVITPEL--RAEVTQFWEDHKYDGLA--------------ARN-----HILASICPAIYG 210
            VI  ++       Q  +  KY G                +RN      +L S  P+I  
Sbjct: 396 -VIHVKVINSTNANQPEKGLKYLGNENDFSDLQVYKILELSRNPMIYRILLDSFAPSIKA 454

Query: 211 LYLVKLCLAVVLAGG---------VGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKR 261
              VK+ L   L  G                    R   ++LL GDPGT KS++L +   
Sbjct: 455 RNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHL 514

Query: 262 MSPRSVLTTGVGTTTAGLTVSAL---RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDR 318
           +SPRS+ T+G  +++ GLT S      +NG   ++ GA+VL++GGVCCIDE        R
Sbjct: 515 LSPRSIYTSGKSSSSVGLTASIKFNESDNGRAMIQPGAVVLANGGVCCIDELDKCHNESR 574

Query: 319 TSIHEAMEQQTISVAK 334
            S++E MEQQT+++AK
Sbjct: 575 LSLYEVMEQQTVTIAK 590

Length = 915

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

 Score = 50.0 bits (120), Expect = 1e-07
 Identities = 24/80 (30%), Positives = 34/80 (42%), Gaps = 15/80 (18%)

Query: 241 HLLLVGDPGTGKSEILK-FAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVL 299
            +LLVG PGTGKSE+ +  A  +S R V        T   T   L+  G  +++ G    
Sbjct: 1   GVLLVGPPGTGKSELAERLAAALSNRPVFYV---QLTRDTTEEDLK--GRRNIDPGGASW 55

Query: 300 SD---------GGVCCIDEF 310
            D         G +  +DE 
Sbjct: 56  VDGPLVRAAREGEIAVLDEI 75

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

>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 = 45.2 bits (107), Expect = 7e-06
 Identities = 23/91 (25%), Positives = 35/91 (38%), Gaps = 3/91 (3%)

Query: 240 SHLLLVGDPGTGKSEILK-FAKR--MSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGA 296
            +LLL G PGTGK+ + +  A          L         GL V+ L  +    L    
Sbjct: 20  KNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFEL 79

Query: 297 LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ 327
              +  GV  IDE  S+    + ++   +E 
Sbjct: 80  AEKAKPGVLFIDEIDSLSRGAQNALLRVLET 110

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	345
KOG0480|consensus	764		100.0
COG1241	682	MCM2 Predicted ATPase involved in replication cont	100.0
KOG0482|consensus	721		100.0
KOG0478|consensus	804		100.0
KOG0477|consensus	854		100.0
KOG0481|consensus	729		100.0
KOG0479|consensus	818		100.0
smart00350	509	MCM minichromosome maintenance proteins.	100.0
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	100.0
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	100.0
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.83
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.69
COG0606	490	Predicted ATPase with chaperone activity [Posttran	99.69
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.64
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.62
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.61
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.6
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.56
PRK09862	506	putative ATP-dependent protease; Provisional	99.54
PRK13531	498	regulatory ATPase RavA; Provisional	99.52
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.5
PF07726	131	AAA_3: ATPase family associated with various cellu	99.44
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.43
COG0714	329	MoxR-like ATPases [General function prediction onl	99.42
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	99.39
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.34
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.33
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.33
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.31
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.3
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.25
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.25
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.2
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.18
CHL00181	287	cbbX CbbX; Provisional	99.14
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.13
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.11
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.09
KOG2004|consensus	906		99.08
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.07
COG2204	464	AtoC Response regulator containing CheY-like recei	99.06
PHA02244	383	ATPase-like protein	99.03
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.02
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.01
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.0
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	98.99
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.99
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.97
PRK13765	637	ATP-dependent protease Lon; Provisional	98.95
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.95
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.93
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.93
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.92
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.92
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.89
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.87
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.86
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.85
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.85
PRK11608	326	pspF phage shock protein operon transcriptional ac	98.84
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	98.82
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.8
KOG0989|consensus	346		98.8
CHL00095	821	clpC Clp protease ATP binding subunit	98.77
PLN03025	319	replication factor C subunit; Provisional	98.77
PRK13342	413	recombination factor protein RarA; Reviewed	98.77
KOG0745|consensus	564		98.76
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.74
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.74
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.73
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.71
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.7
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.69
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.69
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	98.68
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.67
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.66
PRK10865	857	protein disaggregation chaperone; Provisional	98.63
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	98.61
KOG2028|consensus	554		98.6
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.57
PRK13341	725	recombination factor protein RarA/unknown domain f	98.55
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.55
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.55
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.51
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.51
PF00004	132	AAA: ATPase family associated with various cellula	98.49
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.49
KOG0991|consensus	333		98.49
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.49
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.48
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.46
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	98.45
KOG0739|consensus	439		98.45
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.45
KOG1051|consensus	898		98.44
PRK15115	444	response regulator GlrR; Provisional	98.41
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.41
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.4
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.4
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.39
PRK12402	337	replication factor C small subunit 2; Reviewed	98.38
KOG0737|consensus	386		98.38
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.38
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.37
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.36
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.36
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.35
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.35
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.34
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.33
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.33
KOG0733|consensus	802		98.32
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.31
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.3
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.29
PRK10365	441	transcriptional regulatory protein ZraR; Provision	98.29
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.29
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.29
KOG0734|consensus	752		98.29
KOG0738|consensus	491		98.28
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.27
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.27
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.27
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.27
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.26
CHL00195	489	ycf46 Ycf46; Provisional	98.25
PHA02544	316	44 clamp loader, small subunit; Provisional	98.25
KOG0736|consensus	953		98.24
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.24
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.21
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.2
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.2
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.19
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.18
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.17
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.17
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.16
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.14
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.14
PRK04195	482	replication factor C large subunit; Provisional	98.11
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	98.09
CHL00176	638	ftsH cell division protein; Validated	98.08
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.08
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.07
smart00382	148	AAA ATPases associated with a variety of cellular	98.06
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.06
KOG0727|consensus	408		98.06
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.05
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.03
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.03
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.01
KOG0652|consensus	424		98.0
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.99
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.98
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.96
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.96
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.95
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.94
KOG0742|consensus	630		97.92
KOG0735|consensus	952		97.91
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	97.91
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	97.89
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.87
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.86
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.84
KOG0733|consensus	802		97.83
PF13337	457	Lon_2: Putative ATP-dependent Lon protease	97.83
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.83
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.83
KOG0728|consensus	404		97.82
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	97.81
PRK10865	857	protein disaggregation chaperone; Provisional	97.81
CHL00095	821	clpC Clp protease ATP binding subunit	97.8
KOG0731|consensus	774		97.79
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.78
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.77
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.77
KOG0744|consensus	423		97.74
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.73
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.73
KOG0730|consensus	693		97.72
KOG0743|consensus	457		97.7
PRK06893	229	DNA replication initiation factor; Validated	97.67
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.66
PHA01747	425	putative ATP-dependent protease	97.65
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.6
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	97.52
KOG0726|consensus	440		97.51
KOG0740|consensus	428		97.51
KOG0729|consensus	435		97.48
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.47
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	97.46
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.46
PRK12377	248	putative replication protein; Provisional	97.45
PRK06620	214	hypothetical protein; Validated	97.41
CHL00206	2281	ycf2 Ycf2; Provisional	97.39
PRK08084	235	DNA replication initiation factor; Provisional	97.34
PRK06526	254	transposase; Provisional	97.33
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	97.32
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.32
PRK08116	268	hypothetical protein; Validated	97.31
KOG0651|consensus	388		97.3
) 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	97.29
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.29
TIGR02653	675	Lon_rel_chp conserved hypothetical protein. This m	97.26
PRK15455	644	PrkA family serine protein kinase; Provisional	97.22
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.19
KOG2170|consensus	344		97.19
KOG0990|consensus	360		97.17
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.16
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.16
PRK08181	269	transposase; Validated	97.16
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.12
PRK09183	259	transposase/IS protein; Provisional	97.07
KOG1969|consensus	877		97.05
PRK08727	233	hypothetical protein; Validated	96.99
PRK04296	190	thymidine kinase; Provisional	96.96
PRK09087	226	hypothetical protein; Validated	96.93
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.81
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.78
PRK06871	325	DNA polymerase III subunit delta'; Validated	96.77
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	96.75
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.74
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	96.73
KOG3347|consensus	176		96.72
PRK07952	244	DNA replication protein DnaC; Validated	96.72
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.64
PRK05642	234	DNA replication initiation factor; Validated	96.63
PHA02774	613	E1; Provisional	96.63
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.61
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.58
PF13173	128	AAA_14: AAA domain	96.57
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.56
PRK12422	445	chromosomal replication initiation protein; Provis	96.51
PRK14532	188	adenylate kinase; Provisional	96.49
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.46
PRK13947	171	shikimate kinase; Provisional	96.43
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	96.41
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.4
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	96.4
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.38
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.33
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	96.31
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	96.31
PRK08118	167	topology modulation protein; Reviewed	96.25
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	96.24
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.24
PRK03839	180	putative kinase; Provisional	96.24
PF13245	76	AAA_19: Part of AAA domain	96.23
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	96.23
COG1067	647	LonB Predicted ATP-dependent protease [Posttransla	96.22
KOG0730|consensus	693		96.19
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.17
PRK00131	175	aroK shikimate kinase; Reviewed	96.16
PHA00729	226	NTP-binding motif containing protein	96.14
PRK14530	215	adenylate kinase; Provisional	96.12
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	96.11
KOG1808|consensus	1856		96.1
PRK00625	173	shikimate kinase; Provisional	96.08
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.06
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.06
PRK05917	290	DNA polymerase III subunit delta'; Validated	96.05
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.02
PRK14086	617	dnaA chromosomal replication initiation protein; P	96.01
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	95.99
PHA02624	647	large T antigen; Provisional	95.99
PRK07261	171	topology modulation protein; Provisional	95.98
PRK13949	169	shikimate kinase; Provisional	95.97
COG4178	604	ABC-type uncharacterized transport system, permeas	95.96
PTZ00088	229	adenylate kinase 1; Provisional	95.94
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	95.92
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.9
PRK14087	450	dnaA chromosomal replication initiation protein; P	95.9
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.9
PRK06964	342	DNA polymerase III subunit delta'; Validated	95.83
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	95.82
KOG0741|consensus	744		95.81
PRK04132	846	replication factor C small subunit; Provisional	95.76
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.75
PRK14531	183	adenylate kinase; Provisional	95.75
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.74
PRK06217	183	hypothetical protein; Validated	95.73
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	95.72
PRK05057	172	aroK shikimate kinase I; Reviewed	95.66
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.65
PF06048	286	DUF927: Domain of unknown function (DUF927); Inter	95.65
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.62
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.62
PRK06762	166	hypothetical protein; Provisional	95.6
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.59
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	95.58
PRK14526	211	adenylate kinase; Provisional	95.57
PRK14528	186	adenylate kinase; Provisional	95.57
PRK10875	615	recD exonuclease V subunit alpha; Provisional	95.55
PRK13764	602	ATPase; Provisional	95.55
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.52
KOG2035|consensus	351		95.52
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.5
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	95.48
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.44
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.44
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	95.43
PRK06921	266	hypothetical protein; Provisional	95.41
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	95.4
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.4
PRK02496	184	adk adenylate kinase; Provisional	95.4
PRK06835	329	DNA replication protein DnaC; Validated	95.35
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	95.34
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.34
PF05729	166	NACHT: NACHT domain	95.28
COG4619	223	ABC-type uncharacterized transport system, ATPase	95.28
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.27
PF13479	213	AAA_24: AAA domain	95.25
PRK00279	215	adk adenylate kinase; Reviewed	95.24
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.22
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	95.22
PLN02200	234	adenylate kinase family protein	95.21
PHA02530	300	pseT polynucleotide kinase; Provisional	95.21
KOG0732|consensus	1080		95.21
PRK03731	171	aroL shikimate kinase II; Reviewed	95.2
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.17
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.16
PRK13946	184	shikimate kinase; Provisional	95.14
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.14
PRK08233	182	hypothetical protein; Provisional	95.12
PF13555	62	AAA_29: P-loop containing region of AAA domain	95.11
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	95.08
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	95.04
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	95.01
PRK13948	182	shikimate kinase; Provisional	95.01
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	94.97
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	94.92
PRK08939	306	primosomal protein DnaI; Reviewed	94.89
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.85
PLN02459	261	probable adenylate kinase	94.84
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	94.83
PRK14529	223	adenylate kinase; Provisional	94.81
PRK13826	1102	Dtr system oriT relaxase; Provisional	94.75
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	94.74
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.74
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	94.74
PLN02674	244	adenylate kinase	94.73
PRK13851	344	type IV secretion system protein VirB11; Provision	94.7
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	94.7
PRK14527	191	adenylate kinase; Provisional	94.69
PRK00300	205	gmk guanylate kinase; Provisional	94.6
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.57
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	94.57
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	94.55
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	94.54
PRK04040	188	adenylate kinase; Provisional	94.49
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	94.48
PRK03846	198	adenylylsulfate kinase; Provisional	94.45
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	94.43
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	94.41
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	94.4
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	94.3
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	94.3
PRK00149	450	dnaA chromosomal replication initiation protein; R	94.28
PRK12339	197	2-phosphoglycerate kinase; Provisional	94.28
PRK04182	180	cytidylate kinase; Provisional	94.26
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	94.2
PRK13889	988	conjugal transfer relaxase TraA; Provisional	94.2
PRK01184	184	hypothetical protein; Provisional	94.2
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	94.18
PRK14088	440	dnaA chromosomal replication initiation protein; P	94.17
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	94.14
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.13
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	94.1
TIGR02237	209	recomb_radB DNA repair and recombination protein R	94.1
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	94.09
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.07
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.07
cd03112	158	CobW_like The function of this protein family is u	94.06
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	94.05
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	94.05
KOG0060|consensus	659		94.01
PLN02165	334	adenylate isopentenyltransferase	93.94
PF00005	137	ABC_tran: ABC transporter This structure is on hol	93.92
KOG1942|consensus	456		93.91
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	93.88
PF13654	509	AAA_32: AAA domain; PDB: 3K1J_B.	93.87
COG4525	259	TauB ABC-type taurine transport system, ATPase com	93.87
PRK06547	172	hypothetical protein; Provisional	93.87
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	93.86
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	93.85
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	93.85
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	93.84
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	93.81
PRK05480	209	uridine/cytidine kinase; Provisional	93.8
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	93.8
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	93.8
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	93.79
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	93.78
PRK05541	176	adenylylsulfate kinase; Provisional	93.76
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	93.75
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	93.74
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	93.74
PRK07132	299	DNA polymerase III subunit delta'; Validated	93.73
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	93.69
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	93.68
PF09723	42	Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR0134	93.67
PRK13808	333	adenylate kinase; Provisional	93.65
PRK09825	176	idnK D-gluconate kinase; Provisional	93.65
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	93.65
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	93.65
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	93.63
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	93.61
cd03239	178	ABC_SMC_head The structural maintenance of chromos	93.59
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	93.56
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	93.55
KOG0736|consensus	953		93.55
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	93.55
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	93.54
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	93.51
PRK10536	262	hypothetical protein; Provisional	93.5
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	93.48
PRK00889	175	adenylylsulfate kinase; Provisional	93.47
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	93.46
PRK14737	186	gmk guanylate kinase; Provisional	93.43
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.42
PRK00093	435	GTP-binding protein Der; Reviewed	93.41
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	93.41
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	93.39
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	93.39
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	93.36
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	93.36
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	93.34
PRK13695	174	putative NTPase; Provisional	93.33
PRK10416	318	signal recognition particle-docking protein FtsY;	93.32
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	93.32
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	93.32
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	93.31
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	93.31
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	93.3
PRK13833	323	conjugal transfer protein TrbB; Provisional	93.3
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	93.27
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	93.27
cd03269	210	ABC_putative_ATPase This subfamily is involved in	93.24
cd01394	218	radB RadB. The archaeal protein radB shares simila	93.23
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	93.22
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	93.22
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	93.22
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	93.2
PRK14738	206	gmk guanylate kinase; Provisional	93.18
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	93.17
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	93.16
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	93.14
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	93.13
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	93.12
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	93.11
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	93.1
cd01896	233	DRG The developmentally regulated GTP-binding prot	93.09
TIGR02236	310	recomb_radA DNA repair and recombination protein R	93.09
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	93.08
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	93.06
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	93.05
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	93.02
PRK08356	195	hypothetical protein; Provisional	93.01
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	93.0
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	92.98
KOG0741|consensus	744		92.97
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	92.97
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	92.97
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	92.95
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	92.94
PLN02199	303	shikimate kinase	92.94
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	92.94
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	92.91
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	92.91
cd03216	163	ABC_Carb_Monos_I This family represents the domain	92.91
TIGR02605	52	CxxC_CxxC_SSSS putative regulatory protein, FmdB f	92.91
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	92.9
PRK13975	196	thymidylate kinase; Provisional	92.89
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	92.89
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	92.87
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	92.87
PF07931	174	CPT: Chloramphenicol phosphotransferase-like prote	92.87
TIGR00376	637	DNA helicase, putative. The gene product may repre	92.86
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	92.85
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	92.85
cd03246	173	ABCC_Protease_Secretion This family represents the	92.84
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	92.84
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	92.83
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	92.82
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	92.81
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	92.8
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	92.8
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	92.79
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	92.77
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	92.75
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	92.71
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	92.7
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	92.68
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	92.67
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	92.66
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	92.66
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	92.63
PRK10646	153	ADP-binding protein; Provisional	92.59

>KOG0480|consensus

Probab=100.00  E-value=1.9e-82  Score=613.76  Aligned_cols=332  Identities=35%  Similarity=0.566  Sum_probs=283.7

Q ss_pred             CCcccccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCC-e
Q psy1366           3 ICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTN-F   81 (345)
Q Consensus         3 ~~~~~~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~-f   81 (345)
                      +-|..++.+.+++..+|+||+|.|+|+|+|+|+|.+++++|.|..||..+..   .++.++|++|..||| ..|.++. |
T Consensus       118 nlp~~~~irdlra~~iG~Lv~isGtVvRts~VrPelt~~~F~C~~C~t~i~~---v~q~fkYt~Pt~C~n-p~C~nrr~f  193 (764)
T KOG0480|consen  118 NLPTRHKIRDLRAARIGKLVRISGTVVRTSPVRPELTKMTFLCEKCGTVIRN---VEQQFKYTEPTKCPN-PVCSNRRSF  193 (764)
T ss_pred             ccccccccccccHhhhcceEEEEEEEEEeecccceeeeeEEEHhhCCCeecc---chhcCccCCCccCCC-ccccCCcee
Confidence            3477799999999999999999999999999999999999999999998764   345679999999999 4898854 6


Q ss_pred             eeeecCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeee--ec-ccCc-------
Q psy1366          82 SPVTSVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWR--PV-VKGV-------  149 (345)
Q Consensus        82 ~~l~~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~--~~-~~~~-------  149 (345)
                      .+.  ..++.|.|||+|||||..  .|.|.+||+++|+|++|+|++|+|||+|.+||++.....  .+ ..+.       
T Consensus       194 ~l~--~~~s~f~D~QkIrIQE~~~E~p~GsiPRtvdviLr~dlVe~~~pGD~v~~TGiliVvpdv~~l~~pgsk~~n~r~  271 (764)
T KOG0480|consen  194 TLD--RSSSRFLDWQKIRIQELQAEIPRGSIPRTVDVILRGDLVETAQPGDKVDITGILIVVPDVSQLGGPGSKAENNRG  271 (764)
T ss_pred             eee--cccceeeeeeeeehhhhhhhCCCCCCCceeEEEEhhhhHhhcCCCCEEEEEEEEEEecChHHhcCCccccccccC
Confidence            665  677899999999999998  899999999999999999999999999999999976421  00 0111       


Q ss_pred             -c-ceeEEEeeeceeeeeccCC--------CC------------cccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcc
Q psy1366         150 -R-SDIELCLSANYLTVCNDQS--------SS------------LVITPELRAEVTQFWEDHKYDGLAARNHILASICPA  207 (345)
Q Consensus       150 -~-~~~~~~i~a~~i~~~~~~~--------~~------------~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~  207 (345)
                       . ...-+.++|++|...+.+.        ..            ..++.+   +|.++.+......  .|.+|+.|++|.
T Consensus       272 ~~~~~~i~~lkal~Vrdl~yq~aFlac~~~~~~~~ee~~~~~~~~~~s~~---e~~~~~em~~~~n--ly~~lv~Sl~Ps  346 (764)
T KOG0480|consen  272 GETGDGITGLKALGVRDLTYQLAFLACHVQSTLAVEEDDEEDMLNSMSSE---EFAEIREMSKDEN--LYKNLVNSLFPS  346 (764)
T ss_pred             CCcccceeeehhcccccchhhhhHhhhhcccccccchhhhHHHhhhccHH---HHHHHHHHhcCch--HHHHHHHhhCcc
Confidence             1 1344677888776544330        00            012222   3333333322222  258899999999


Q ss_pred             cccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeec
Q psy1366         208 IYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALREN  287 (345)
Q Consensus       208 i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~  287 (345)
                      ||||+.||++|+|+|+||+.|...+|+.+||++||+++|||||||||+|++++..+||++|++|+.++++|||++++||.
T Consensus       347 IyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~vYtsGkaSSaAGLTaaVvkD~  426 (764)
T KOG0480|consen  347 IYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRSVYTSGKASSAAGLTAAVVKDE  426 (764)
T ss_pred             ccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcceEecCcccccccceEEEEecC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999984


Q ss_pred             --CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEeccCC
Q psy1366         288 --GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVKS  345 (345)
Q Consensus       288 --~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar~  345 (345)
                        |+|.++||||++||+|||||||||||+..+|.+||||||||+|||+|||+.+|||||+
T Consensus       427 esgdf~iEAGALmLADnGICCIDEFDKMd~~dqvAihEAMEQQtISIaKAGv~aTLnARt  486 (764)
T KOG0480|consen  427 ESGDFTIEAGALMLADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIAKAGVVATLNART  486 (764)
T ss_pred             CCCceeeecCcEEEccCceEEechhcccChHhHHHHHHHHHhheehheecceEEeecchh
Confidence              9999999999999999999999999999999999999999999999999999999996

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=100.00  E-value=1e-79  Score=615.67  Aligned_cols=329  Identities=38%  Similarity=0.627  Sum_probs=294.5

Q ss_pred             CCcccccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCC---CCC
Q psy1366           3 ICPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSC---DGT   79 (345)
Q Consensus         3 ~~~~~~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C---~~~   79 (345)
                      ..|.-...|.+++.|+||||+++|+|+|+|.++|++++++|.|.+||+.+.+.+.   .+.+.+|..|+   +|   ...
T Consensus        90 ~~~~~~~iR~l~s~~igkLV~v~GiV~r~s~v~p~~~~~~~~C~~Cg~~~~~~~~---~~~~~~~~~C~---~~~~~~~~  163 (682)
T COG1241          90 NLPNRLSIRELRSEHIGKLVSVEGIVTRASEVRPRLKKAVFECPKCGREVEVEQS---EFRVEPPRECE---NCGKFGKG  163 (682)
T ss_pred             CCcCCcChhhCchhhCCcEEEEEEEEEecccccceeEEEEEEcCCCCCEEEEEec---cccccCCccCC---CccccCCC
Confidence            3455557888999999999999999999999999999999999999999988764   23478899997   46   222


Q ss_pred             CeeeeecCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeee-ec-ccCccceeEE
Q psy1366          80 NFSPVTSVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWR-PV-VKGVRSDIEL  155 (345)
Q Consensus        80 ~f~~l~~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~-~~-~~~~~~~~~~  155 (345)
                      .|...  .+.+.|+|||+|+|||+|  .|.|++||+++|+|++||+++++|||+|.||||++.++. .. .......+++
T Consensus       164 ~~~~~--~~~s~f~d~Q~vkiQE~pe~~p~g~~Prs~~vil~~dlv~~~~pGdrV~itGi~~~~~~~~~~~~~~~~~~~~  241 (682)
T COG1241         164 PLKLV--PRKSEFIDFQKVKIQELPELVPGGELPRSIEVILEDDLVDSVRPGDRVKITGVVRIVPSRSLSGRRKGPVFEI  241 (682)
T ss_pred             ceEEe--cCcceeeeceEEEEecCcccCCCCCCCceEEEEEecCcccccCCCCEEEEEEEEecccccccccccCCceEEE
Confidence            45555  567889999999999999  889999999999999999999999999999999987752 22 1234578999


Q ss_pred             EeeeceeeeeccCCCCcccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCc
Q psy1366         156 CLSANYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSK  235 (345)
Q Consensus       156 ~i~a~~i~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~  235 (345)
                      +++|++++..+.. ....+++++.++|.++.+.  .+   .++.+++|++|+|||+++||+|++|+||||+.+..++|++
T Consensus       242 ~~~a~~v~~~~~~-~~~~~t~ed~e~i~elak~--~~---i~~~l~~SiaPsIyG~e~VKkAilLqLfgGv~k~~~~g~~  315 (682)
T COG1241         242 YLEANSVEKLDKR-EEVEITEEDEEEIKELAKR--PD---IYDILIKSIAPSIYGHEDVKKAILLQLFGGVKKNLPDGTR  315 (682)
T ss_pred             EEEEEEEEeccch-hhccCCHHHHHHHHHHhcC--Cc---HHHHHHHHhcccccCcHHHHHHHHHHhcCCCcccCCCCcc
Confidence            9999999988765 4567888999988887642  22   3589999999999999999999999999999999999999


Q ss_pred             eeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeec--CeeEeeeceeeecCCcEEEEcCCCCC
Q psy1366         236 VRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALREN--GEWHLEAGALVLSDGGVCCIDEFSSI  313 (345)
Q Consensus       236 ~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~--~~~~~~~G~l~la~~gi~~IDEidk~  313 (345)
                      +||++||||+||||||||||++++++++||++|++|.+++++||||++.||.  |+|++++|||++||+|||||||||||
T Consensus       316 iRGDInILLvGDPgtaKSqlLk~v~~~aPr~vytsgkgss~~GLTAav~rd~~tge~~LeaGALVlAD~Gv~cIDEfdKm  395 (682)
T COG1241         316 IRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYTSGKGSSAAGLTAAVVRDKVTGEWVLEAGALVLADGGVCCIDEFDKM  395 (682)
T ss_pred             cccceeEEEcCCCchhHHHHHHHHHhhCCceEEEccccccccCceeEEEEccCCCeEEEeCCEEEEecCCEEEEEeccCC
Confidence            9999999999999999999999999999999999999999999999999984  69999999999999999999999999


Q ss_pred             CHHhHHHHHHHHhCCEEEEeeCCeEEEeccCC
Q psy1366         314 KEHDRTSIHEAMEQQTISVAKDKESKKVKVKS  345 (345)
Q Consensus       314 ~~~~~~~l~eame~~~i~i~k~gi~~~l~ar~  345 (345)
                      +..++++||||||||+|||+||||+++||||+
T Consensus       396 ~~~dr~aihEaMEQQtIsIaKAGI~atLnARc  427 (682)
T COG1241         396 NEEDRVAIHEAMEQQTISIAKAGITATLNARC  427 (682)
T ss_pred             ChHHHHHHHHHHHhcEeeecccceeeecchhh
Confidence            99999999999999999999999999999995

>KOG0482|consensus

Probab=100.00  E-value=1.5e-81  Score=593.45  Aligned_cols=323  Identities=35%  Similarity=0.569  Sum_probs=284.2

Q ss_pred             cCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCC---eeeeecC
Q psy1366          11 QFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTN---FSPVTSV   87 (345)
Q Consensus        11 ~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~---f~~l~~~   87 (345)
                      |-+++.|+|+||+++|+|+|+|+|||.+..++|.|..||.+++++++   +..|.++..||| +.|..++   --.+. .
T Consensus       150 R~vka~~iG~LvtvrGIVTR~S~VKP~m~VatYtCd~CGaE~yQeV~---s~~F~pl~~CpS-~eC~~n~~~G~L~lq-t  224 (721)
T KOG0482|consen  150 REVKADHIGSLVTVRGIVTRVSDVKPSMVVATYTCDQCGAETYQEVN---SRTFTPLSECPS-EECRTNKAGGRLYLQ-T  224 (721)
T ss_pred             hhhhhhhccceEEEEEEEEeccccccceEEEEEecccccHhhhcccc---CccccchhhCCh-HHhhhcccCCeEEEE-e
Confidence            45789999999999999999999999999999999999999998875   457899999999 6898653   12232 3


Q ss_pred             CCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeee----ecccCccceeEEEeeece
Q psy1366          88 DQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWR----PVVKGVRSDIELCLSANY  161 (345)
Q Consensus        88 ~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~----~~~~~~~~~~~~~i~a~~  161 (345)
                      .-|+|+.||++++||..  +|.|++|||++|+++++++.+|+|||.|.|+||+.+...    ++..|  -..++|++|+.
T Consensus       225 RgSKFikfQe~kmQEls~qVPvG~IPRsltv~~~ge~tr~~~PGDvV~vsGiFLP~pytGfr~~~aG--LladtYLeAh~  302 (721)
T KOG0482|consen  225 RGSKFIKFQEVKMQELSDQVPVGHIPRSLTVHVYGEMTRKCQPGDVVVVSGIFLPIPYTGFRALKAG--LLADTYLEAHR  302 (721)
T ss_pred             cccccchhhhhhHHHHhccCCCCccCceeEEEEecccceecCCCCEEEEeeeecccchhhHHHHHhh--hHHHHHHHHhh
Confidence            34679999999999998  999999999999999999999999999999999987532    22222  23578999999


Q ss_pred             eeeeccCCCCcccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeec
Q psy1366         162 LTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESH  241 (345)
Q Consensus       162 i~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~  241 (345)
                      |...++.+...+.+.+...+..++..   ..+  .|+.+++||||+||||++||+|++|.|+||+.+...+|+++||+||
T Consensus       303 v~~~nk~~~~~~~~~~~~~~~~~~~~---~~d--~yekLa~SiAPEIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdIN  377 (721)
T KOG0482|consen  303 VVQINKKYDNIEKTGELEPEELELIA---EGD--FYEKLAASIAPEIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDIN  377 (721)
T ss_pred             hhhhccccccccccccccHHHHHHhh---ccc--HHHHHHHhhchhhccchHHHHHHHHHhhCCCCCCCCCCceeeccee
Confidence            98877766655554444344333322   223  3689999999999999999999999999999999999999999999


Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeec--CeeEeeeceeeecCCcEEEEcCCCCCCHHhHH
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALREN--GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRT  319 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~--~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~  319 (345)
                      |+|+||||++||||++++.+++||++|++|.+|+++||||++.||.  |+++++.|||||||+|||||||||||.+.++.
T Consensus       378 icLmGDPGVAKSQLLkyi~rlapRgvYTTGrGSSGVGLTAAVmkDpvTgEM~LEGGALVLAD~GICCIDEfDKM~e~DRt  457 (721)
T KOG0482|consen  378 ICLMGDPGVAKSQLLKYISRLAPRGVYTTGRGSSGVGLTAAVMKDPVTGEMVLEGGALVLADGGICCIDEFDKMDESDRT  457 (721)
T ss_pred             EEecCCCchhHHHHHHHHHhcCcccceecCCCCCccccchhhhcCCCCCeeEeccceEEEccCceEeehhhhhhhhhhhH
Confidence            9999999999999999999999999999999999999999999994  99999999999999999999999999999999


Q ss_pred             HHHHHHhCCEEEEeeCCeEEEeccCC
Q psy1366         320 SIHEAMEQQTISVAKDKESKKVKVKS  345 (345)
Q Consensus       320 ~l~eame~~~i~i~k~gi~~~l~ar~  345 (345)
                      ++||+||||+|||+||||.+|||||.
T Consensus       458 AIHEVMEQQTISIaKAGI~TtLNAR~  483 (721)
T KOG0482|consen  458 AIHEVMEQQTISIAKAGINTTLNART  483 (721)
T ss_pred             HHHHHHHhhhhhhhhhccccchhhhH
Confidence            99999999999999999999999994

>KOG0478|consensus

Probab=100.00  E-value=6.4e-76  Score=572.30  Aligned_cols=326  Identities=34%  Similarity=0.504  Sum_probs=285.5

Q ss_pred             cccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCC-eeeee
Q psy1366           7 LHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTN-FSPVT   85 (345)
Q Consensus         7 ~~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~-f~~l~   85 (345)
                      ...++.+++++|.|||+|+|+|+|+|++-|.+.+++|+|..|++...+.++   .+.+..|..|+   .|+.++ |.+++
T Consensus       229 ~~smr~lNp~dIDkLisI~GmViRss~vipem~~afFrC~vC~~~~~ve~d---rg~i~eP~~C~---~C~~~~~~~Lih  302 (804)
T KOG0478|consen  229 TFSMRNLNPNDIDKLISISGMVIRSSEVIPEMVEAFFRCSVCGHEIAVESD---RGRIKEPMLCK---ECGTTNSFQLLH  302 (804)
T ss_pred             ccccccCChhhhhheEEeeeEEEecCCCCHHHHhHhhhhhhcCceEEEEee---cCccCCCcccc---cccCcccceeeh
Confidence            445677999999999999999999999999999999999999999888765   35789999995   698765 77774


Q ss_pred             cCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeeeeccc---CccceeEEEeeec
Q psy1366          86 SVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVK---GVRSDIELCLSAN  160 (345)
Q Consensus        86 ~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~~~~~---~~~~~~~~~i~a~  160 (345)
                        +.+.|.|.|.||+||.|  .|.|++|.++.|++++||||+++|||+|.|||||+..|-+...   ..++.|.+|+.+.
T Consensus       303 --nrs~F~dkQviklqEspd~~p~g~tPhtv~v~~~~dLVD~v~pGDrv~VTGi~ra~p~r~np~~r~vkSvyktyldvv  380 (804)
T KOG0478|consen  303 --NRSEFADKQVIKLQESPDDMPEGSTPHTVSVVLHNDLVDKVRPGDRVEVTGILRATPVRVNPRMRMVKSVYKTYLDVV  380 (804)
T ss_pred             --hhhhhcccceeeeeeccccCcCCCCCceEEEEEehhhhhccCCCCeEEEEEEEEeEEeccCcchhhHHHHHHHHhHhh
Confidence              47789999999999999  8999999999999999999999999999999999987644332   2346788999999


Q ss_pred             eeeeeccCCC--------CcccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCC
Q psy1366         161 YLTVCNDQSS--------SLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGED  232 (345)
Q Consensus       161 ~i~~~~~~~~--------~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~  232 (345)
                      |+...+....        +..+..++.+.+.++.    ..|. .|+.|++||||+|||+|++|+|++|+||||+.+....
T Consensus       381 h~rk~s~~rl~~~d~~d~~~~~~~~~~e~i~els----krpd-iy~lLa~SiAPsIye~edvKkglLLqLfGGt~k~~~~  455 (804)
T KOG0478|consen  381 HIRKASMKRLEGSDERDVDEVRRIEDLEKIQELS----KRPD-IYELLARSIAPSIYELEDVKKGLLLQLFGGTRKEDEK  455 (804)
T ss_pred             hhhhhhhhhccccccccccccccHHHHHHHHHHh----cCcc-HHHHHHHhhchhhhcccchhhhHHHHHhcCCcccccc
Confidence            9876544211        1122233344444432    2333 4689999999999999999999999999999999888


Q ss_pred             CCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCC
Q psy1366         233 GSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEF  310 (345)
Q Consensus       233 ~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEi  310 (345)
                      +.+.|++|||||+|||||||||||+++++++||++|++|++++++|||+.+.||  +++|.++.|||+++|+|+||||||
T Consensus       456 ~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVtrd~dtkqlVLesGALVLSD~GiCCIDEF  535 (804)
T KOG0478|consen  456 SGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVTKDPDTRQLVLESGALVLSDNGICCIDEF  535 (804)
T ss_pred             cccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEEecCccceeeeecCcEEEcCCceEEchhh
Confidence            889999999999999999999999999999999999999999999999999996  589999999999999999999999


Q ss_pred             CCCCHHhHHHHHHHHhCCEEEEeeCCeEEEeccCC
Q psy1366         311 SSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVKS  345 (345)
Q Consensus       311 dk~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar~  345 (345)
                      |||+...|+.|||+||||+++|+||||.++||||+
T Consensus       536 DKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~  570 (804)
T KOG0478|consen  536 DKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARC  570 (804)
T ss_pred             hhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccc
Confidence            99999999999999999999999999999999995

>KOG0477|consensus

Probab=100.00  E-value=5.1e-76  Score=566.68  Aligned_cols=323  Identities=37%  Similarity=0.549  Sum_probs=284.1

Q ss_pred             cCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCCeeeeecCCCC
Q psy1366          11 QFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNFSPVTSVDQD   90 (345)
Q Consensus        11 ~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~f~~l~~~~~~   90 (345)
                      +.+|..|+|+||.+.|+|++.|-|.|-+....|.|.+||..+...+.  ....-..|..||   .|.+++.+.+ +.+.+
T Consensus       261 r~lRq~Hln~Lvr~~GvVtr~tgV~pql~~vky~C~KC~~vlgPF~q--s~n~evkp~~C~---~cqSkGpf~v-n~e~T  334 (854)
T KOG0477|consen  261 RSLRQLHLNQLVRTSGVVTRRTGVFPQLSVVKYDCLKCGFVLGPFVQ--SSNSEVKPGSCP---ECQSKGPFEV-NVEET  334 (854)
T ss_pred             HHHHHhccCceEEeeeEEEecceeehhhHHHhhhHHhhCCccCceee--ccCceeCCCCCc---cccCCCCCcc-chhhh
Confidence            34678899999999999999999999999999999999986543221  122346789997   5888764434 25678


Q ss_pred             ceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeeeec--ccCccceeEEEeeeceeeeec
Q psy1366          91 NYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPV--VKGVRSDIELCLSANYLTVCN  166 (345)
Q Consensus        91 ~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~~~--~~~~~~~~~~~i~a~~i~~~~  166 (345)
                      .|.+||+|+|||.|  ++.|.+||+.+|+|..||||.|+|||.|.|||||...|.-.  .+++.+.|.++++||+|...+
T Consensus       335 vyrnYQritiQEspg~v~~GrlPRsk~vILl~DLvD~~kpGdEievTGIy~nn~d~sLN~kngFpvfatvi~ANhV~~k~  414 (854)
T KOG0477|consen  335 VYRNYQRITIQESPGTVPAGRLPRSKEVILLADLVDSCKPGDEIEVTGIYTNNFDGSLNTKNGFPVFATVIEANHVVKKD  414 (854)
T ss_pred             hhcccceeeeccCCCcCCCCccccchhheehhhhhhhcCCCcceEEeeeecccccccccccCCccccceeheehhhhhhc
Confidence            89999999999999  99999999999999999999999999999999999877532  245678899999999998776


Q ss_pred             cCCCCcccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeC
Q psy1366         167 DQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVG  246 (345)
Q Consensus       167 ~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G  246 (345)
                      .......+++|   .++.||+..+..++.  .++++||||+||||+++|+|++|+|+||++++...++++||++|+||+|
T Consensus       415 ~~~~~~~ltde---d~k~i~~lskd~~i~--~rIiaSiaPsIyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~G  489 (854)
T KOG0477|consen  415 GKFDVDELTDE---DFKEIWELSKDPPIK--ERIIASIAPSIYGHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLG  489 (854)
T ss_pred             cccchhHHhHH---HHHHHHHHhcCccHH--HHHHHhhCchhhchHHHHHHHHHHHhcCCccCCCCCceeccceeEEEec
Confidence            64433344444   455556555566664  6799999999999999999999999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHH
Q psy1366         247 DPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEA  324 (345)
Q Consensus       247 ~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~ea  324 (345)
                      ||||||||+|||+++.++|+++++|.+++++|||+++.|+  +++|++++|||||||+|||||||||||++.++..+|||
T Consensus       490 DPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~KdPvtrEWTLEaGALVLADkGvClIDEFDKMndqDRtSIHEA  569 (854)
T KOG0477|consen  490 DPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRKDPVTREWTLEAGALVLADKGVCLIDEFDKMNDQDRTSIHEA  569 (854)
T ss_pred             CCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEeeCCccceeeeccCeEEEccCceEEeehhhhhcccccchHHHH
Confidence            9999999999999999999999999999999999999999  69999999999999999999999999999999999999


Q ss_pred             HhCCEEEEeeCCeEEEeccC
Q psy1366         325 MEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       325 me~~~i~i~k~gi~~~l~ar  344 (345)
                      ||||.|||+||||+++|+||
T Consensus       570 MEQQSISISKAGIVtsLqAr  589 (854)
T KOG0477|consen  570 MEQQSISISKAGIVTSLQAR  589 (854)
T ss_pred             HHhcchhhhhhhHHHHHHhh
Confidence            99999999999999999998

>KOG0481|consensus

Probab=100.00  E-value=5.3e-73  Score=536.01  Aligned_cols=329  Identities=31%  Similarity=0.484  Sum_probs=287.4

Q ss_pred             ccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEeecccccccccCCcCCCCC----CCCCCCCeeeee
Q psy1366          10 TQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSP----SSCDGTNFSPVT   85 (345)
Q Consensus        10 ~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~----~~C~~~~f~~l~   85 (345)
                      +|.++++++.|||.|.|+|+.+|.++.+.+.....|.+|.+....-........+..|..|.++    ..|.-.+|.++ 
T Consensus       129 iR~l~s~~vsklVki~GIiiaAS~v~~kat~l~l~CrnC~~t~~~~~~~pgl~g~~lPR~C~~~~~~k~~Cp~DPyii~-  207 (729)
T KOG0481|consen  129 IRQLKSDHVSKLVKISGIIIAASAVSAKATRLSLVCRNCRHTRPNVIMRPGLEGYALPRKCDTPQAGKPKCPLDPYIIM-  207 (729)
T ss_pred             HhHhhhHhhhhheeeccEEEEeeeeeecceEEEEEeccccccccceecCCCccccccccccCCcccCCCCCCCCCEEEc-
Confidence            4568999999999999999999999999999999999999865322111123357889999632    58999999988 


Q ss_pred             cCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeeeecccC----ccceeEEEeee
Q psy1366          86 SVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKG----VRSDIELCLSA  159 (345)
Q Consensus        86 ~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~~~~~~----~~~~~~~~i~a  159 (345)
                       .++++|+|+|.+|+||.|  +|.|++||++..+++..|++++.||.+|+|+|||..+......+    ....-..|+.+
T Consensus       208 -pdks~~vD~QtLKLQE~pe~VP~GE~PRhl~L~~dRyL~~kvvPG~RvtI~GIYsI~~~~~~~~s~k~~v~iR~PyirV  286 (729)
T KOG0481|consen  208 -PDKSKCVDQQTLKLQELPEDVPVGEMPRHLQLFCDRYLTNKVVPGNRVTIMGIYSIKKFGSTSSSDKSGVGIRTPYIRV  286 (729)
T ss_pred             -ccccceeehhheehhhCcccCCcCcCcchhhhhhhHHHhccccCCceEEEEEEEEeeeccccCCCCccceeeecceEEE
Confidence             568899999999999999  99999999999999999999999999999999998653211111    11334567888


Q ss_pred             ceeeeeccCCC---CcccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCce
Q psy1366         160 NYLTVCNDQSS---SLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV  236 (345)
Q Consensus       160 ~~i~~~~~~~~---~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~  236 (345)
                      ..|+...+...   ...+|+|++++|.+++..    +. .|+.|..||+|+|||++++|+|+++.||||..|..+||...
T Consensus       287 vGi~~ds~~ss~~~~~~ft~eEEEeFk~la~~----~d-~Ye~is~sIAPSIfG~~DiKkAiaClLFgGsrK~LpDg~~l  361 (729)
T KOG0481|consen  287 VGIQDDSEGSSRSSATMFTPEEEEEFKKLAAS----PD-VYERISKSIAPSIFGHEDIKKAIACLLFGGSRKRLPDGVTL  361 (729)
T ss_pred             EEEEeccCCccccCcccCChhHHHHHHHHhcC----cc-HHHHHhhccCchhcCchhHHHHHHHHhhcCccccCCCccee
Confidence            88876655432   236889999999988642    32 36899999999999999999999999999999999999999


Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeec--CeeEeeeceeeecCCcEEEEcCCCCCC
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALREN--GEWHLEAGALVLSDGGVCCIDEFSSIK  314 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~--~~~~~~~G~l~la~~gi~~IDEidk~~  314 (345)
                      ||+|||||.|||||+|||||+++.+.+|.++|++|++|+++||||++.||.  .+|.++.||+|||||||+||||||||.
T Consensus       362 RGDINVLLLGDPgtAKSQlLKFvEkvsPIaVYTSGKGSSAAGLTASV~RD~~tReFylEGGAMVLADgGVvCIDEFDKMr  441 (729)
T KOG0481|consen  362 RGDINVLLLGDPGTAKSQLLKFVEKVSPIAVYTSGKGSSAAGLTASVIRDPSTREFYLEGGAMVLADGGVVCIDEFDKMR  441 (729)
T ss_pred             ccceeEEEecCCchhHHHHHHHHHhcCceEEEecCCCcccccceeeEEecCCcceEEEecceEEEecCCEEEeehhhccC
Confidence            999999999999999999999999999999999999999999999999995  589999999999999999999999999


Q ss_pred             HHhHHHHHHHHhCCEEEEeeCCeEEEeccCC
Q psy1366         315 EHDRTSIHEAMEQQTISVAKDKESKKVKVKS  345 (345)
Q Consensus       315 ~~~~~~l~eame~~~i~i~k~gi~~~l~ar~  345 (345)
                      ++++.++|||||||+|||+||||.++||+|+
T Consensus       442 e~DRVAIHEAMEQQTISIAKAGITT~LNSRt  472 (729)
T KOG0481|consen  442 EDDRVAIHEAMEQQTISIAKAGITTTLNSRT  472 (729)
T ss_pred             chhhhHHHHHHHhhhHHHhhhcceeeecchh
Confidence            9999999999999999999999999999985

>KOG0479|consensus

Probab=100.00  E-value=3.9e-72  Score=536.53  Aligned_cols=329  Identities=30%  Similarity=0.462  Sum_probs=278.9

Q ss_pred             cccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEee-cccccccccCCcCCCCCCCCCCCCeeeee
Q psy1366           7 LHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKA-DFEQFYSIANPLSCGSPSSCDGTNFSPVT   85 (345)
Q Consensus         7 ~~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~-~~~~~~~~~~p~~C~~~~~C~~~~f~~l~   85 (345)
                      +...|-+.|.++|++|+++|||+++|-++|++.+.++.|+.-+...+-.. +......+..+..-|. ..-+++...  .
T Consensus       108 hv~PRtL~s~~lg~mVcvEGIVTkcSlvRPKvvkSVHYcpaT~~~~~r~Y~D~T~~~~~p~~svYPT-~De~gN~L~--T  184 (818)
T KOG0479|consen  108 HVNPRTLTSVYLGKMVCVEGIVTKCSLVRPKVVKSVHYCPATNKFHERDYRDATMLTTLPTGSVYPT-RDEDGNLLE--T  184 (818)
T ss_pred             ccChhhHHHHHhCceEEeeeeeeeeeeechhhhheeeeccccCcchhhhhcchheecccccCCcCCc-cCCCCCeee--E
Confidence            34456678999999999999999999999999999999999886543221 1100111222222332 122222222  2


Q ss_pred             cCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeeeecccCccceeEEEeeeceee
Q psy1366          86 SVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLT  163 (345)
Q Consensus        86 ~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~~~~~~~~~~~~~~i~a~~i~  163 (345)
                      +...|.|.|+|.|.|||+|  .|.|++||+++|+|++||||+|+|||+|.|.|+|+.-...........|.+++-||+|.
T Consensus       185 EyGlS~ykDHQtitiQEmPE~APaGQLPRSVDvilddDLVD~~KPGDRV~ivG~yr~Lp~k~~g~tsg~FRTvliaNni~  264 (818)
T KOG0479|consen  185 EYGLSVYKDHQTITIQEMPEKAPAGQLPRSVDVILDDDLVDRVKPGDRVNIVGIYRSLPGKSNGNTSGTFRTVLIANNIE  264 (818)
T ss_pred             eecceeeecccEEEeeeccccCCCCCCCcceeEEecccccccCCCCCeeEEEEEEeeccCccCCcccceeEEEEEeccHH
Confidence            3677889999999999999  89999999999999999999999999999999997432111112235689999999998


Q ss_pred             eeccCCCCcccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeecee
Q psy1366         164 VCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLL  243 (345)
Q Consensus       164 ~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iL  243 (345)
                      ...+.. ...++.+++..++++.++  +|++   +.|..|+||+||||+.+|+||+|.|.||+.++.++|+++||+||||
T Consensus       265 ~l~ke~-~~~~t~~Di~~i~klsk~--kdiF---dlLa~SLAPSI~GH~~vKkAillLLlGGvEk~L~NGshlRGDINiL  338 (818)
T KOG0479|consen  265 LLSKEA-APDFTDEDIRNIKKLSKK--KDIF---DLLARSLAPSIYGHDYVKKAILLLLLGGVEKNLENGSHLRGDINIL  338 (818)
T ss_pred             hhcccc-cccCChhhHHHHHHHHhc--CCHH---HHHhhccCcccccHHHHHHHHHHHHhccceeccCCCceeccceeEE
Confidence            877753 457889999999998763  5665   7899999999999999999999999999999999999999999999


Q ss_pred             eeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHH
Q psy1366         244 LVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSI  321 (345)
Q Consensus       244 l~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l  321 (345)
                      |+|||.++||||||++...+|+++-++|.+|+++||||+++-|  +|+-.++|||+||||.||+||||||||+..++.++
T Consensus       339 lvGDPSvAKSQLLRyVLntAplAI~TTGRGSSGVGLTAAVTtD~eTGERRLEAGAMVLADRGVVCIDEFDKMsDiDRvAI  418 (818)
T KOG0479|consen  339 LVGDPSVAKSQLLRYVLNTAPLAIATTGRGSSGVGLTAAVTTDQETGERRLEAGAMVLADRGVVCIDEFDKMSDIDRVAI  418 (818)
T ss_pred             EecCchHHHHHHHHHHHhcccccccccCCCCCCccceeEEeeccccchhhhhcCceEEccCceEEehhcccccchhHHHH
Confidence            9999999999999999999999999999999999999999855  69999999999999999999999999999999999


Q ss_pred             HHHHhCCEEEEeeCCeEEEeccC
Q psy1366         322 HEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       322 ~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      ||+||||+|+|+||||+++||||
T Consensus       419 HEVMEQqtVTIaKAGIHasLNAR  441 (818)
T KOG0479|consen  419 HEVMEQQTVTIAKAGIHASLNAR  441 (818)
T ss_pred             HHHHhcceEEeEeccchhhhccc
Confidence            99999999999999999999998

>smart00350 MCM minichromosome maintenance proteins

Probab=100.00  E-value=2.9e-68  Score=531.71  Aligned_cols=327  Identities=34%  Similarity=0.556  Sum_probs=287.9

Q ss_pred             ccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCC-eeeeec
Q psy1366           8 HRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTN-FSPVTS   86 (345)
Q Consensus         8 ~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~-f~~l~~   86 (345)
                      ...|.+++.++||||+|+|+|+|+|+++|++.+++|+|.+||+.+.+.+.   .+.+.+|..|++ ..|++.+ |.+.  
T Consensus         3 ~~~r~l~s~~igklV~v~GiV~r~s~v~p~~~~~~f~C~~C~~~~~~~~~---~~~~~~p~~C~~-~~C~~~~~f~l~--   76 (509)
T smart00350        3 SSIRELRADHLGKLVRVSGIVTRTSGVRPKLKRASFTCEKCGATLGPEIQ---SGRETEPTVCPP-RECQSPTPFSLN--   76 (509)
T ss_pred             CCcccCCHhHCCCEEEEEEEEEEccCceEEEEEEEEEecCCCCEEeEEec---CCcccCCCcCCC-CcCCCCCceEec--
Confidence            35678999999999999999999999999999999999999998877653   357889999987 4699876 5544  


Q ss_pred             CCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeee-eeec--ccCccceeEEEeeece
Q psy1366          87 VDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRR-WRPV--VKGVRSDIELCLSANY  161 (345)
Q Consensus        87 ~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~-~~~~--~~~~~~~~~~~i~a~~  161 (345)
                      .+.+.|+|||+|+|||+|  +|.|++||+++|+|++||||+|+|||+|+|+|||+.+ |...  ..+..+.+.++++|++
T Consensus        77 ~~~s~~~D~Q~I~iQE~~e~~p~G~~Prsi~v~l~~dLvd~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~  156 (509)
T smart00350       77 HERSTFIDFQKIKLQESPEEVPAGQLPRSVDVILDGDLVDKAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANH  156 (509)
T ss_pred             cCCCeEEEEEEEEEEcCcccCCCCCCCcEEEEEEcccccCcccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeE
Confidence            567889999999999999  8899999999999999999999999999999999976 4322  2222345889999999


Q ss_pred             eeeeccC--CCC-----cccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCC
Q psy1366         162 LTVCNDQ--SSS-----LVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGS  234 (345)
Q Consensus       162 i~~~~~~--~~~-----~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~  234 (345)
                      |+..+..  +..     ..+++++.++|.++++    ++. .++.|++|++|.|+|++.+|+|++++|+||+.+...+|.
T Consensus       157 i~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~----~~~-~~~~l~~si~p~i~G~~~~k~~l~l~l~gg~~~~~~~~~  231 (509)
T smart00350      157 VRKLDYKRSFEDCSFSVQSLSDEEEEEIRKLSK----DPD-IYERLSRSLAPSIYGHEDIKKAILLLLFGGVHKNLPDGM  231 (509)
T ss_pred             EEEccccccccccccccccCCHHHHHHHHHHhc----CHH-HHHHHHHhhCccccCcHHHHHHHHHHHhCCCccccCCCc
Confidence            9876542  111     2478888888887764    333 358999999999999999999999999999999999999


Q ss_pred             ceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCC
Q psy1366         235 KVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSS  312 (345)
Q Consensus       235 ~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk  312 (345)
                      ++|+++||||+|+||||||++|+++++++|+..|++|.+++.+|++++..++  +|+|.+++|++++|++|+|||||||+
T Consensus       232 ~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~~A~~Gil~iDEi~~  311 (509)
T smart00350      232 KIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTRDPETREFTLEGGALVLADNGVCCIDEFDK  311 (509)
T ss_pred             cccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccceEccCcceEEecCccEEecCCCEEEEechhh
Confidence            9999999999999999999999999999999999999888889999988777  48899999999999999999999999


Q ss_pred             CCHHhHHHHHHHHhCCEEEEeeCCeEEEeccCC
Q psy1366         313 IKEHDRTSIHEAMEQQTISVAKDKESKKVKVKS  345 (345)
Q Consensus       313 ~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar~  345 (345)
                      |++.+|.+|+|+||+|+|+|+|+|+.++|++|.
T Consensus       312 l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~  344 (509)
T smart00350      312 MDDSDRTAIHEAMEQQTISIAKAGITTTLNARC  344 (509)
T ss_pred             CCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCc
Confidence            999999999999999999999999999999873

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=100.00  E-value=6e-67  Score=534.34  Aligned_cols=328  Identities=28%  Similarity=0.384  Sum_probs=281.6

Q ss_pred             cccccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCC-----------CCcEEEEeecccccccccCCcCCCCC
Q psy1366           5 PQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTK-----------CKQCFYVKADFEQFYSIANPLSCGSP   73 (345)
Q Consensus         5 ~~~~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~-----------C~~~~~~~~~~~~~~~~~~p~~C~~~   73 (345)
                      |.....|.+++.++||||+|+|+|+|+|.++|.+..++|+|..           |++.....+.   .+.+.+|..|+  
T Consensus       213 ~~~~~iR~L~s~~i~kLV~v~GiV~r~S~v~P~l~~a~f~C~~~~~~~~~~~~~C~~~~~~~~~---~g~~~~P~~C~--  287 (915)
T PTZ00111        213 PVSDCVGNLEPSMADSLVQFSGTVVRQTWIVPEITMACFRCRGQKKIGLNDYQPCTCEHYEYVI---QGEVNEPLLCN--  287 (915)
T ss_pred             CCCCCcccCCHhhCCCeEEEEEEEEEccCcchhhEEEEEECCCCCcccCCccccCCcccccccc---CCcccCCCCCC--
Confidence            3445677899999999999999999999999999999999996           6654433221   34678899996  


Q ss_pred             CCCCCCC-eeeeecCCCCceeeeeeEEEeeec--CCCCCCc--------------------eEEEEEEecCccccccCCC
Q psy1366          74 SSCDGTN-FSPVTSVDQDNYKDYQEIKIQERA--AGVGSVP--------------------KSIWVTLEDDLVDLARPGD  130 (345)
Q Consensus        74 ~~C~~~~-f~~l~~~~~~~~~d~Q~IriQE~~--~~~g~~p--------------------rsi~V~l~~dlv~~~~pGd  130 (345)
                       .|++.+ |.++  .+.+.|+|||+|+|||+|  +|.|++|                    |+++|+|++||||.|+|||
T Consensus       288 -~C~~~~~f~l~--~~~s~f~D~Q~IklQE~pe~vp~G~~P~~~~~~~~~~~~~~~~~~~~rsi~v~l~dDLVD~v~PGD  364 (915)
T PTZ00111        288 -ECNSKYTFELN--HNMCVYSTKKIVKLLQSNSSLNNPDKDGLDNSVDNSGLNGEIYMKDNEVINLNLYDDLIDSVKTGD  364 (915)
T ss_pred             -CCCCCCCeEEc--cCccEEEeeeEEEEeeCcccCCCCCCCccccccccccccccccccCCceEEEEEecchhccCCCCC
Confidence             598765 7766  567899999999999999  7999999                    9999999999999999999


Q ss_pred             EEEEEEEEeeeeeecc---cCccceeEEEeeeceeeeeccCC------------CCcccCHHHHHHHHHHHHhhccChhh
Q psy1366         131 DVIVCGAVLRRWRPVV---KGVRSDIELCLSANYLTVCNDQS------------SSLVITPELRAEVTQFWEDHKYDGLA  195 (345)
Q Consensus       131 ~V~i~Gil~~~~~~~~---~~~~~~~~~~i~a~~i~~~~~~~------------~~~~~~~e~~~~~~~~~~~~~~~~~~  195 (345)
                      +|+|||||+..+....   .+..+.|.+|+.|++|+..+...            ....++++++++|.++.+    +|. 
T Consensus       365 rV~VtGIl~~~~~~~~~~~~~~~~~~~~yl~~~~i~~~~~~~~~~~~~~~~~~~~~~~~t~ed~~~I~~ls~----~p~-  439 (915)
T PTZ00111        365 RVTVVGILKVTPIRTSTTRRTLKSLYTYFVNVIHVKVINSTNANQPEKGLKYLGNENDFSDLQVYKILELSR----NPM-  439 (915)
T ss_pred             EEEEEEEEEeccccccccccccccccceEEEEEEEEEeccccccccccccccccccccCCHHHHHHHHHHhc----CHH-
Confidence            9999999987642211   12346789999999998754311            224588888888887754    444 


Q ss_pred             HHHHHHhccCcccccchHHHHHHHHHHhCCCcccC-----CCC----CceeeeeceeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         196 ARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGG-----EDG----SKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       196 ~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~-----~~~----~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      .++.|++|+||+|+|++.+|+||+|+|+||+.+..     ++|    +++|+++||||+||||||||++|+++++++||.
T Consensus       440 i~~~L~~SiaP~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~  519 (915)
T PTZ00111        440 IYRILLDSFAPSIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRS  519 (915)
T ss_pred             HHHHHHHHhCCeEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCcc
Confidence            35889999999999999999999999999997643     344    789999999999999999999999999999999


Q ss_pred             EEEcCCccCcCCceEEEE-ee--cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEecc
Q psy1366         267 VLTTGVGTTTAGLTVSAL-RE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKV  343 (345)
Q Consensus       267 ~~~~~~~~~~~glt~~~~-~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~a  343 (345)
                      +|++|.+++.+|+++.+. ++  .|+|.+++|++++|++|+||||||++|++.+|.+|||+||||+|+|+|+|+.++|+|
T Consensus       520 ~ytsG~~~s~vgLTa~~~~~d~~tG~~~le~GaLvlAdgGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~a  599 (915)
T PTZ00111        520 IYTSGKSSSSVGLTASIKFNESDNGRAMIQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKA  599 (915)
T ss_pred             ccCCCCCCccccccchhhhcccccCcccccCCcEEEcCCCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCC
Confidence            999999999999999876 43  478999999999999999999999999999999999999999999999999999999


Q ss_pred             CC
Q psy1366         344 KS  345 (345)
Q Consensus       344 r~  345 (345)
                      |.
T Consensus       600 r~  601 (915)
T PTZ00111        600 ET  601 (915)
T ss_pred             Ce
Confidence            84

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=100.00  E-value=2.8e-43  Score=334.09  Aligned_cols=150  Identities=51%  Similarity=0.895  Sum_probs=131.5

Q ss_pred             HHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC
Q psy1366         196 ARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT  275 (345)
Q Consensus       196 ~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~  275 (345)
                      .++.|++|+||+|+|++.+|+|++|+|+||+.+..++|++.|+++||||+||||||||+|++++++++|+++|++|.+++
T Consensus        14 ~~~~l~~s~aP~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~pr~v~~~g~~~s   93 (331)
T PF00493_consen   14 IFDRLANSIAPSIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAPRSVYTSGKGSS   93 (331)
T ss_dssp             HHHCCHHHCSSTTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-SSEEEEECCGST
T ss_pred             HHHHHHHHhCCcCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhCCceEEECCCCcc
Confidence            35899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEeccCC
Q psy1366         276 TAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVKS  345 (345)
Q Consensus       276 ~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar~  345 (345)
                      .+|||+++.|+  +++|.++||++++||+|||||||||+|+++++.+||||||||+|+|+|||+.++||||+
T Consensus        94 ~~gLta~~~~d~~~~~~~leaGalvlad~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar~  165 (331)
T PF00493_consen   94 AAGLTASVSRDPVTGEWVLEAGALVLADGGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNARC  165 (331)
T ss_dssp             CCCCCEEECCCGGTSSECEEE-HHHHCTTSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE---
T ss_pred             cCCccceeccccccceeEEeCCchhcccCceeeecccccccchHHHHHHHHHHcCeeccchhhhcccccchh
Confidence            99999999998  58899999999999999999999999999999999999999999999999999999985

; 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.

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=99.83  E-value=1.8e-20  Score=164.09  Aligned_cols=125  Identities=25%  Similarity=0.396  Sum_probs=91.8

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC----CccCcCC---
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG----VGTTTAG---  278 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~----~~~~~~g---  278 (345)
                      .+|.||+.+|+|+.++..|+              .|+||+|+||||||++++.+..++|.--....    .--+.+|   
T Consensus         3 ~dI~GQe~aKrAL~iAAaG~--------------h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~~~~   68 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAGG--------------HHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAGLGP   68 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHCC----------------EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT---S-
T ss_pred             hhhcCcHHHHHHHHHHHcCC--------------CCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccccCCC
Confidence            57999999999999999998              69999999999999999999999986221111    1111111   


Q ss_pred             ---ceE-EEEee-----------cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEecc
Q psy1366         279 ---LTV-SALRE-----------NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKV  343 (345)
Q Consensus       279 ---lt~-~~~~~-----------~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~a  343 (345)
                         +.. .-.+.           +|.....||.+.+||+||+|+||+..+++...++|+++||++.|+|.++|...+++|
T Consensus        69 ~~~~~~~~Pfr~phhs~s~~~liGgg~~~~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g~v~i~R~~~~~~~Pa  148 (206)
T PF01078_consen   69 DEGLIRQRPFRAPHHSASEAALIGGGRPPRPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDGEVTISRAGGSVTYPA  148 (206)
T ss_dssp             --EEEE---EEEE-TT--HHHHHEEGGGEEE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHSBEEEEETTEEEEEB-
T ss_pred             CCceecCCCcccCCCCcCHHHHhCCCcCCCcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCCeEEEEECCceEEEec
Confidence               100 00010           123367899999999999999999999999999999999999999999999999998


Q ss_pred             C
Q psy1366         344 K  344 (345)
Q Consensus       344 r  344 (345)
                      +
T Consensus       149 ~  149 (206)
T PF01078_consen  149 R  149 (206)
T ss_dssp             -
T ss_pred             c
Confidence            6

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.69  E-value=9.8e-17  Score=151.83  Aligned_cols=126  Identities=23%  Similarity=0.302  Sum_probs=97.9

Q ss_pred             cccccchHHHHHHHHHHh-CCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC------------
Q psy1366         206 PAIYGLYLVKLCLAVVLA-GGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV------------  272 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~-~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~------------  272 (345)
                      ..|.|++.+|++++++++ .|.             .|+||.|+||||||++++.+++++|.--...+.            
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~~-------------~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~   74 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPGI-------------GGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPE   74 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccCC-------------CcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCcc
Confidence            468999999999998875 220             399999999999999999999999741111110            


Q ss_pred             ---------------------ccCcCCceEEEEe----ecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         273 ---------------------GTTTAGLTVSALR----ENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       273 ---------------------~~~~~glt~~~~~----~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                                           +.+...++.+..-    ..|++.+++|.+..|++|++||||++.++++.|++|+++|++
T Consensus        75 ~~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl~~~~q~~Lle~mee  154 (334)
T PRK13407         75 WAHVSSTTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLLEDHIVDLLLDVAQS  154 (334)
T ss_pred             cccccCCcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhCCHHHHHHHHHHHHc
Confidence                                 0011112222111    137788999999999999999999999999999999999999


Q ss_pred             CEEEEeeCCeEEEeccC
Q psy1366         328 QTISVAKDKESKKVKVK  344 (345)
Q Consensus       328 ~~i~i~k~gi~~~l~ar  344 (345)
                      +++++...|....+++|
T Consensus       155 ~~v~v~r~G~~~~~p~r  171 (334)
T PRK13407        155 GENVVEREGLSIRHPAR  171 (334)
T ss_pred             CCeEEEECCeEEecCCC
Confidence            99999999988888775

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

Probab=99.69  E-value=3.1e-17  Score=157.70  Aligned_cols=125  Identities=24%  Similarity=0.354  Sum_probs=100.4

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe-----EEEcCCccCc---
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS-----VLTTGVGTTT---  276 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~-----~~~~~~~~~~---  276 (345)
                      +.+|.||+..|+|+..+..||              +|+||+||||||||+|++.+..++|.-     +.++...|..   
T Consensus       178 ~~DV~GQ~~AKrAleiAAAGg--------------HnLl~~GpPGtGKTmla~Rl~~lLPpls~~E~lE~s~I~s~~g~~  243 (490)
T COG0606         178 FKDVKGQEQAKRALEIAAAGG--------------HNLLLVGPPGTGKTMLASRLPGLLPPLSIPEALEVSAIHSLAGDL  243 (490)
T ss_pred             hhhhcCcHHHHHHHHHHHhcC--------------CcEEEecCCCCchHHhhhhhcccCCCCChHHHHHHHHHhhhcccc
Confidence            457999999999999999999              799999999999999999999999861     1111111000   


Q ss_pred             --------------CCceEEE--EeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEE
Q psy1366         277 --------------AGLTVSA--LRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKK  340 (345)
Q Consensus       277 --------------~glt~~~--~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~  340 (345)
                                    .+.+++.  +- +|.-..+||.+.+||+||+||||+-..+....++|.+.||++.|.|+.++-.++
T Consensus       244 ~~~~~~~~~rPFr~PHHsaS~~aLv-GGG~~p~PGeIsLAH~GVLFLDElpef~~~iLe~LR~PLE~g~i~IsRa~~~v~  322 (490)
T COG0606         244 HEGCPLKIHRPFRAPHHSASLAALV-GGGGVPRPGEISLAHNGVLFLDELPEFKRSILEALREPLENGKIIISRAGSKVT  322 (490)
T ss_pred             cccCccceeCCccCCCccchHHHHh-CCCCCCCCCceeeecCCEEEeeccchhhHHHHHHHhCccccCcEEEEEcCCeeE
Confidence                          1112211  11 233457899999999999999999999999999999999999999999999999


Q ss_pred             eccC
Q psy1366         341 VKVK  344 (345)
Q Consensus       341 l~ar  344 (345)
                      .+||
T Consensus       323 ypa~  326 (490)
T COG0606         323 YPAR  326 (490)
T ss_pred             Eeee
Confidence            8886

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.64  E-value=1.2e-15  Score=144.63  Aligned_cols=127  Identities=22%  Similarity=0.277  Sum_probs=99.0

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC--------------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG--------------  271 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~--------------  271 (345)
                      ..|.||+.+|++++++++....            -|+||.|+||+|||++++.++.+.|..--..+              
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~~------------g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~   71 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPKI------------GGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMC   71 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCCC------------CeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccC
Confidence            4689999999999999987310            28999999999999999999998864110000              


Q ss_pred             ------------------------C--ccCcCCceEEEEe----ecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHH
Q psy1366         272 ------------------------V--GTTTAGLTVSALR----ENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSI  321 (345)
Q Consensus       272 ------------------------~--~~~~~glt~~~~~----~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l  321 (345)
                                              .  +.+...++.+..-    ..|.|.+++|.+..|++|++||||++.+++..|..|
T Consensus        72 ~~~r~~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~~~Q~~L  151 (337)
T TIGR02030        72 EEVRIRVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLEDHLVDVL  151 (337)
T ss_pred             hHHhhhhhcccccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCHHHHHHH
Confidence                                    0  0111123332211    147899999999999999999999999999999999


Q ss_pred             HHHHhCCEEEEeeCCeEEEeccC
Q psy1366         322 HEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       322 ~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      +++|+++.+++...|...++++|
T Consensus       152 l~~l~~g~~~v~r~G~~~~~~~r  174 (337)
T TIGR02030       152 LDVAASGWNVVEREGISIRHPAR  174 (337)
T ss_pred             HHHHHhCCeEEEECCEEEEcCCC
Confidence            99999999999999988777766

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.62  E-value=9.1e-16  Score=145.61  Aligned_cols=127  Identities=20%  Similarity=0.270  Sum_probs=97.3

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC-------------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV-------------  272 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~-------------  272 (345)
                      ..|.||+.+|+|++++++...-            -++||.|++|||||+++|.++++++..-...+.             
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~------------~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~~~p~~p~~~~   84 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKI------------GGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSDPELMS   84 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCC------------CeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCCCCCCChhhhc
Confidence            4789999999999999986411            279999999999999999999998752211110             


Q ss_pred             ---------------------------ccCcCCceEEE----EeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHH
Q psy1366         273 ---------------------------GTTTAGLTVSA----LRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSI  321 (345)
Q Consensus       273 ---------------------------~~~~~glt~~~----~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l  321 (345)
                                                 +.+...|..+.    .-.++.+.+++|.+..|++|++||||++.+++..|..|
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~~~Q~~L  164 (350)
T CHL00081         85 DEVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLVDIL  164 (350)
T ss_pred             hhhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCHHHHHHH
Confidence                                       00000011100    01135667789999999999999999999999999999


Q ss_pred             HHHHhCCEEEEeeCCeEEEeccC
Q psy1366         322 HEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       322 ~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      +++|+++++++.+.|....+++|
T Consensus       165 Leam~e~~~~ier~G~s~~~p~r  187 (350)
T CHL00081        165 LDSAASGWNTVEREGISIRHPAR  187 (350)
T ss_pred             HHHHHhCCeEEeeCCeeeecCCC
Confidence            99999999999999988777775

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.61  E-value=2.6e-15  Score=154.25  Aligned_cols=128  Identities=22%  Similarity=0.229  Sum_probs=99.4

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC-------------------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR-------------------  265 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~-------------------  265 (345)
                      +..|+||+.+|++++++++.+..            -+|||.|+||||||++++++++++|.                   
T Consensus         3 f~~ivGq~~~~~al~~~av~~~~------------g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~   70 (633)
T TIGR02442         3 FTAIVGQEDLKLALLLNAVDPRI------------GGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEW   70 (633)
T ss_pred             cchhcChHHHHHHHHHHhhCCCC------------CeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCcccc
Confidence            35799999999999999996510            27999999999999999999999962                   


Q ss_pred             ----------------eEEEcCCccCcCCceEEEE----eecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHH
Q psy1366         266 ----------------SVLTTGVGTTTAGLTVSAL----RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAM  325 (345)
Q Consensus       266 ----------------~~~~~~~~~~~~glt~~~~----~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eam  325 (345)
                                      ++...-.+.+...|.....    -..|.+.+.+|.|..|++|++||||++++++..|+.|+++|
T Consensus        71 ~~~~~~~~~~~~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l~~~~q~~Ll~~l  150 (633)
T TIGR02442        71 CEECRRKYRPSEQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNLLDDHLVDVLLDAA  150 (633)
T ss_pred             ChhhhhcccccccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhhCCHHHHHHHHHHH
Confidence                            1111111111111222110    11356788899999999999999999999999999999999


Q ss_pred             hCCEEEEeeCCeEEEeccC
Q psy1366         326 EQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       326 e~~~i~i~k~gi~~~l~ar  344 (345)
                      |++.+.+.+.|...++++|
T Consensus       151 e~g~~~v~r~g~~~~~~~~  169 (633)
T TIGR02442       151 AMGVNRVEREGLSVSHPAR  169 (633)
T ss_pred             hcCCEEEEECCceeeecCC
Confidence            9999999999998887765

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.

>TIGR00368 Mg chelatase-related protein

Probab=99.60  E-value=1.5e-15  Score=151.06  Aligned_cols=126  Identities=25%  Similarity=0.345  Sum_probs=97.7

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe---E-EEcCCccCcCCce
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS---V-LTTGVGTTTAGLT  280 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~---~-~~~~~~~~~~glt  280 (345)
                      +.+|+|++.+++++.+++.+|              .|++|+|+||+|||++++.++.++|..   . .......+.+|..
T Consensus       191 ~~dv~Gq~~~~~al~~aa~~g--------------~~vlliG~pGsGKTtlar~l~~llp~~~~~~~le~~~i~s~~g~~  256 (499)
T TIGR00368       191 LKDIKGQQHAKRALEIAAAGG--------------HNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWSLVGKL  256 (499)
T ss_pred             HHHhcCcHHHHhhhhhhccCC--------------CEEEEEecCCCCHHHHHHHHhcccCCCCCcEEEeccccccchhhh
Confidence            357899999999999999887              599999999999999999999988752   1 1111111111111


Q ss_pred             E---------------EEEee---cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEec
Q psy1366         281 V---------------SALRE---NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVK  342 (345)
Q Consensus       281 ~---------------~~~~~---~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~  342 (345)
                      .               +....   +|.+...||.+.+|++|+|||||++++++..|..|+++||++.|+|.++|...+++
T Consensus       257 ~~~~~~~~~Pf~~p~~s~s~~~~~ggg~~~~pG~i~lA~~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~p  336 (499)
T TIGR00368       257 IDRKQIKQRPFRSPHHSASKPALVGGGPIPLPGEISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYP  336 (499)
T ss_pred             ccccccccCCccccccccchhhhhCCccccchhhhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceecc
Confidence            0               00010   24456789999999999999999999999999999999999999999999887776


Q ss_pred             cC
Q psy1366         343 VK  344 (345)
Q Consensus       343 ar  344 (345)
                      ++
T Consensus       337 a~  338 (499)
T TIGR00368       337 AR  338 (499)
T ss_pred             CC
Confidence            64

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.56  E-value=1.2e-14  Score=147.81  Aligned_cols=121  Identities=17%  Similarity=0.193  Sum_probs=95.9

Q ss_pred             hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe--EEEcCCccCcCCceEEEE----e
Q psy1366         212 YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS--VLTTGVGTTTAGLTVSAL----R  285 (345)
Q Consensus       212 ~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~--~~~~~~~~~~~glt~~~~----~  285 (345)
                      +.+|+|++|..+...-            -||||.|+||||||++++++++++|+.  +.......+...|.....    -
T Consensus         1 ~~~~~Al~l~av~p~~------------g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~   68 (589)
T TIGR02031         1 ERAKLALTLLAVDPSL------------GGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESL   68 (589)
T ss_pred             ChHHHHHHHhccCCCc------------ceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhh
Confidence            4689999999887621            299999999999999999999999874  222222223333333221    1


Q ss_pred             ecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEeccC
Q psy1366         286 ENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       286 ~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      ..|.|.+++|.|..|++|++||||++++++..|..|+++|+++++++.+.|...+++++
T Consensus        69 ~~g~~~~~~G~L~~A~~GvL~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~  127 (589)
T TIGR02031        69 AGGQRVTQPGLLDEAPRGVLYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAK  127 (589)
T ss_pred             hcCcccCCCCCeeeCCCCcEeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCc
Confidence            24678899999999999999999999999999999999999999999999988777664

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.

>PRK09862 putative ATP-dependent protease; Provisional

Probab=99.54  E-value=9.1e-15  Score=144.96  Aligned_cols=125  Identities=22%  Similarity=0.346  Sum_probs=98.0

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe-----EEEcCCcc------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS-----VLTTGVGT------  274 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~-----~~~~~~~~------  274 (345)
                      ..++|++.+++++.++..+|              .|++|+|+||+|||+|++.++.+.|..     +.++...+      
T Consensus       191 ~~v~Gq~~~~~al~laa~~G--------------~~llliG~~GsGKTtLak~L~gllpp~~g~e~le~~~i~s~~g~~~  256 (506)
T PRK09862        191 SDVIGQEQGKRGLEITAAGG--------------HNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVNAES  256 (506)
T ss_pred             EEEECcHHHHhhhheeccCC--------------cEEEEECCCCCcHHHHHHHHhccCCCCCCcEEEecchhhhhhcccc
Confidence            46789999999999998887              599999999999999999999988752     11111111      


Q ss_pred             CcCCceE--------EEEee---cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEecc
Q psy1366         275 TTAGLTV--------SALRE---NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKV  343 (345)
Q Consensus       275 ~~~glt~--------~~~~~---~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~a  343 (345)
                      ...+++.        ++...   +|.+...||.+.+||+|++||||++.+++..|..|+++||++.++|.+.|...++++
T Consensus       257 ~~~~~~~rPfr~ph~~~s~~~l~GGg~~~~pG~l~~A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa  336 (506)
T PRK09862        257 VQKQWRQRPFRSPHHSASLTAMVGGGAIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPA  336 (506)
T ss_pred             ccCCcCCCCccCCCccchHHHHhCCCceehhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccC
Confidence            1111100        00000   356778999999999999999999999999999999999999999999998888776


Q ss_pred             C
Q psy1366         344 K  344 (345)
Q Consensus       344 r  344 (345)
                      +
T Consensus       337 ~  337 (506)
T PRK09862        337 R  337 (506)
T ss_pred             C
Confidence            5

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.52  E-value=3.2e-14  Score=139.03  Aligned_cols=129  Identities=16%  Similarity=0.224  Sum_probs=94.0

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe---EEEcCCcc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS---VLTTGVGT  274 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~~~~~~  274 (345)
                      ..+.+.+...|+|++++.+.++.++..|              -|+||.|+||||||++++++++.+.+.   .+.....+
T Consensus        12 ~~l~~~l~~~i~gre~vI~lll~aalag--------------~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~ft   77 (498)
T PRK13531         12 SRLSSALEKGLYERSHAIRLCLLAALSG--------------ESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFS   77 (498)
T ss_pred             HHHHHHHhhhccCcHHHHHHHHHHHccC--------------CCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeec
Confidence            4577788889999977666666665555              399999999999999999999987642   12222212


Q ss_pred             CcCCceEE----EEeecCeeE-eeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEeccC
Q psy1366         275 TTAGLTVS----ALRENGEWH-LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       275 ~~~glt~~----~~~~~~~~~-~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      +...++..    ..++.+.|. ..+|.+..|+  ++|+|||+++++..|++|+++|+++.+++  +|....++.|
T Consensus        78 tp~DLfG~l~i~~~~~~g~f~r~~~G~L~~A~--lLfLDEI~rasp~~QsaLLeam~Er~~t~--g~~~~~lp~r  148 (498)
T PRK13531         78 TPEEVFGPLSIQALKDEGRYQRLTSGYLPEAE--IVFLDEIWKAGPAILNTLLTAINERRFRN--GAHEEKIPMR  148 (498)
T ss_pred             CcHHhcCcHHHhhhhhcCchhhhcCCcccccc--EEeecccccCCHHHHHHHHHHHHhCeEec--CCeEEeCCCc
Confidence            22333332    122345563 6678777776  99999999999999999999999999986  6666666654

>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=99.50  E-value=3.7e-14  Score=125.38  Aligned_cols=114  Identities=23%  Similarity=0.355  Sum_probs=68.9

Q ss_pred             HHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCc
Q psy1366         200 ILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGL  279 (345)
Q Consensus       200 l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~gl  279 (345)
                      +.-.-..+++||+.++.-+...+-....+.       ..-.|+||+||||+|||+||+.+|+.+...+.......     
T Consensus        18 lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~-------~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~-----   85 (233)
T PF05496_consen   18 LRPKSLDEFIGQEHLKGNLKILIRAAKKRG-------EALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPA-----   85 (233)
T ss_dssp             TS-SSCCCS-S-HHHHHHHHHHHHHHHCTT-------S---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC-----
T ss_pred             cCCCCHHHccCcHHHHhhhHHHHHHHHhcC-------CCcceEEEECCCccchhHHHHHHHhccCCCeEeccchh-----
Confidence            333445689999999876654443221100       01139999999999999999999999987765432111     


Q ss_pred             eEEEEeecCeeEeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         280 TVSALRENGEWHLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       280 t~~~~~~~~~~~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                          ....++.   ++.+ .+..+-|+|||||+++++.+|+.|+.+||++.|.|
T Consensus        86 ----i~k~~dl---~~il~~l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idi  132 (233)
T PF05496_consen   86 ----IEKAGDL---AAILTNLKEGDILFIDEIHRLNKAQQEILLPAMEDGKIDI  132 (233)
T ss_dssp             ------SCHHH---HHHHHT--TT-EEEECTCCC--HHHHHHHHHHHHCSEEEE
T ss_pred             ----hhhHHHH---HHHHHhcCCCcEEEEechhhccHHHHHHHHHHhccCeEEE
Confidence                0100000   1111 12457799999999999999999999999999965

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.

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=99.44  E-value=2.1e-13  Score=110.33  Aligned_cols=90  Identities=22%  Similarity=0.353  Sum_probs=61.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc-CCc-cCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT-GVG-TTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEH  316 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~-~~~-~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~  316 (345)
                      |+||.|.||+|||++++++++.....+... ... -....++....-+  .+.|.+.+|.+.   .+|+++|||++.++.
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif---~~ill~DEiNrappk   77 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIF---TNILLADEINRAPPK   77 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT----SSEEEEETGGGS-HH
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhh---hceeeecccccCCHH
Confidence            899999999999999999999988755322 111 0112222222222  478889999988   579999999999999


Q ss_pred             hHHHHHHHHhCCEEEEe
Q psy1366         317 DRTSIHEAMEQQTISVA  333 (345)
Q Consensus       317 ~~~~l~eame~~~i~i~  333 (345)
                      .|++|+|+|++++|++.
T Consensus        78 tQsAlLeam~Er~Vt~~   94 (131)
T PF07726_consen   78 TQSALLEAMEERQVTID   94 (131)
T ss_dssp             HHHHHHHHHHHSEEEET
T ss_pred             HHHHHHHHHHcCeEEeC
Confidence            99999999999999973

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.

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.43  E-value=3.6e-13  Score=128.16  Aligned_cols=129  Identities=19%  Similarity=0.279  Sum_probs=101.7

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC--------
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT--------  275 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~--------  275 (345)
                      .+..+.|+|.+|+++.+..+.-  ..          -.+|+-|+.|||||+++|+++.++|....+.|....        
T Consensus        15 pf~aivGqd~lk~aL~l~av~P--~i----------ggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P~~   82 (423)
T COG1239          15 PFTAIVGQDPLKLALGLNAVDP--QI----------GGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDPEE   82 (423)
T ss_pred             chhhhcCchHHHHHHhhhhccc--cc----------ceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCChhh
Confidence            4567899999999999986542  11          279999999999999999999999975544443100        


Q ss_pred             -----------------------cCCceEEEEee-------------cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHH
Q psy1366         276 -----------------------TAGLTVSALRE-------------NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRT  319 (345)
Q Consensus       276 -----------------------~~glt~~~~~~-------------~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~  319 (345)
                                             -.++...++.|             .|.-.++||.|..||+||+++||++.++++.++
T Consensus        83 ~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d~lvd  162 (423)
T COG1239          83 MCDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDDHLVD  162 (423)
T ss_pred             hhHHHHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccHHHHH
Confidence                                   01111111111             266788999999999999999999999999999


Q ss_pred             HHHHHHhCCEEEEeeCCeEEEeccC
Q psy1366         320 SIHEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       320 ~l~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      +||++|+.|.-.|...|+..+++||
T Consensus       163 ~LLd~aaeG~n~vereGisi~hpa~  187 (423)
T COG1239         163 ALLDVAAEGVNDVEREGISIRHPAR  187 (423)
T ss_pred             HHHHHHHhCCceeeeCceeeccCcc
Confidence            9999999999999999999999987

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.42  E-value=7e-13  Score=126.27  Aligned_cols=125  Identities=21%  Similarity=0.256  Sum_probs=96.3

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc----
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG----  273 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~----  273 (345)
                      ..+...+.+.++|.+.+..+++.++..|              -|+||.|+||||||.|++.+++.+...+...-..    
T Consensus        16 ~~~~~~~~~~~~g~~~~~~~~l~a~~~~--------------~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~   81 (329)
T COG0714          16 GKIRSELEKVVVGDEEVIELALLALLAG--------------GHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLL   81 (329)
T ss_pred             HHHHhhcCCeeeccHHHHHHHHHHHHcC--------------CCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCC
Confidence            3455667777899988888877777666              3999999999999999999999998654333221    


Q ss_pred             -cCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCC
Q psy1366         274 -TTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDK  336 (345)
Q Consensus       274 -~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~g  336 (345)
                       +...|......+.  .+.+.+.+|.+..+.++++++|||++.+++.|++|+++|+++++++..-+
T Consensus        82 p~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~  147 (329)
T COG0714          82 PSDLLGTYAYAALLLEPGEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEALEERQVTVPGLT  147 (329)
T ss_pred             HHHhcCchhHhhhhccCCeEEEecCCcccccceEEEEeccccCCHHHHHHHHHHHhCcEEEECCcC
Confidence             1222222221111  56788899999988889999999999999999999999999999987655

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=99.39  E-value=9.9e-13  Score=133.02  Aligned_cols=123  Identities=15%  Similarity=0.192  Sum_probs=97.9

Q ss_pred             chHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC--eEEEcCCccCcCCceEEE----E
Q psy1366         211 LYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR--SVLTTGVGTTTAGLTVSA----L  284 (345)
Q Consensus       211 ~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~--~~~~~~~~~~~~glt~~~----~  284 (345)
                      ++.+|+|++|..+.....           --|||-|++||+||++++.++.++|.  ++...-.+.+...|....    .
T Consensus         8 ~~~~~~Al~l~av~p~~~-----------gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~Dl~~~   76 (584)
T PRK13406          8 WADAALAAALLAVDPAGL-----------GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAAT   76 (584)
T ss_pred             HHHHHHHHHHhCcCcccc-----------ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCchHHhH
Confidence            799999999998864110           16999999999999999999999986  333333333333333222    1


Q ss_pred             eecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEeccC
Q psy1366         285 RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       285 ~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      -..|.-.++||.|.+||+||+||||++.+++..+++|+++||++.|+|...|...++++|
T Consensus        77 l~~g~~~~~pGlla~Ah~GvL~lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~  136 (584)
T PRK13406         77 LRAGRPVAQRGLLAEADGGVLVLAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPAR  136 (584)
T ss_pred             hhcCCcCCCCCceeeccCCEEEecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCC
Confidence            112444588999999999999999999999999999999999999999999999999986

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

Probab=99.34  E-value=7.5e-13  Score=128.95  Aligned_cols=137  Identities=20%  Similarity=0.211  Sum_probs=86.5

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCC---C-CCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGE---D-GSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG  273 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~---~-~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~  273 (345)
                      ..|.+.|...|+|++.+|+++..++.....+...   . ........|+||+||||||||++++++++.+..++......
T Consensus        63 ~~i~~~L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~  142 (412)
T PRK05342         63 KEIKAHLDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADAT  142 (412)
T ss_pred             HHHHHHHhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchh
Confidence            3455566667999999999998887532111100   0 01112346999999999999999999999887766544322


Q ss_pred             c-CcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHH--------------hHHHHHHHHhCCEEEEee
Q psy1366         274 T-TTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEH--------------DRTSIHEAMEQQTISVAK  334 (345)
Q Consensus       274 ~-~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~--------------~~~~l~eame~~~i~i~k  334 (345)
                      . +..|+.......  ..-+....+.+..+.+||+||||+|+++..              .|++|+++||...+.++.
T Consensus       143 ~l~~~gyvG~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~  220 (412)
T PRK05342        143 TLTEAGYVGEDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPP  220 (412)
T ss_pred             hcccCCcccchHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCC
Confidence            1 112211110000  000001123445678999999999999753              789999999987777743

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

Probab=99.33  E-value=2e-12  Score=126.32  Aligned_cols=114  Identities=19%  Similarity=0.316  Sum_probs=86.9

Q ss_pred             hccCcccccc-hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe---EE---------
Q psy1366         202 ASICPAIYGL-YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS---VL---------  268 (345)
Q Consensus       202 ~s~~p~i~G~-~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~---------  268 (345)
                      ..-+.+|.|. ..+..++.++-...           +.+.+||+.|++||||..+|+++++.++|.   +.         
T Consensus       241 ~y~f~~Iig~S~~m~~~~~~akr~A-----------~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiPe  309 (560)
T COG3829         241 KYTFDDIIGESPAMLRVLELAKRIA-----------KTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIPE  309 (560)
T ss_pred             ccchhhhccCCHHHHHHHHHHHhhc-----------CCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCCH
Confidence            3456788887 66777777775544           345799999999999999999999999982   11         


Q ss_pred             ---EcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         269 ---TTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       269 ---~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                         .+-..++..|-+..+.+.+     ++|.+.+||+|.+|+|||..|+...|..|+.++++++|-
T Consensus       310 ~LlESELFGye~GAFTGA~~~G-----K~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~  370 (560)
T COG3829         310 TLLESELFGYEKGAFTGASKGG-----KPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIE  370 (560)
T ss_pred             HHHHHHHhCcCCccccccccCC-----CCcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEE
Confidence               1111334445444333322     389999999999999999999999999999999998764

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.33  E-value=1.5e-12  Score=108.33  Aligned_cols=98  Identities=29%  Similarity=0.440  Sum_probs=72.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC--CccCcCCceEEEEeecCeeEeeeceeeec--CCcEEEEcCCCCCCHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG--VGTTTAGLTVSALRENGEWHLEAGALVLS--DGGVCCIDEFSSIKEH  316 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~--~~~~~~glt~~~~~~~~~~~~~~G~l~la--~~gi~~IDEidk~~~~  316 (345)
                      ||||+||||+|||++++++++.++..++...  ..++...|...+.-..+.....+|.++.|  ++++++||||++++++
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            6999999999999999999999987764432  22344445444443355666778888855  6899999999999999


Q ss_pred             hHHHHHHHHhCCEEEEeeCCeE
Q psy1366         317 DRTSIHEAMEQQTISVAKDKES  338 (345)
Q Consensus       317 ~~~~l~eame~~~i~i~k~gi~  338 (345)
                      .+..|+.++|++.+.+...+-.
T Consensus        81 v~~~L~~ll~~~~~~~~~~~~~  102 (139)
T PF07728_consen   81 VLESLLSLLEERRIQLPEGGEE  102 (139)
T ss_dssp             HHHTTHHHHSSSEEEE-TSSSE
T ss_pred             HHHHHHHHHhhCcccccCCCcE
Confidence            9999999999999987665543

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.31  E-value=1.2e-11  Score=124.79  Aligned_cols=118  Identities=19%  Similarity=0.291  Sum_probs=81.4

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC----------eE-EEcCC
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR----------SV-LTTGV  272 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~----------~~-~~~~~  272 (345)
                      -+.+++|++...+++..++.+..            ..|+||+||||||||++|+++++.+.+          ++ .....
T Consensus        63 ~f~~iiGqs~~i~~l~~al~~~~------------~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~  130 (531)
T TIGR02902        63 SFDEIIGQEEGIKALKAALCGPN------------PQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDAT  130 (531)
T ss_pred             CHHHeeCcHHHHHHHHHHHhCCC------------CceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccc
Confidence            34479999888888887776542            149999999999999999999875321          11 11211


Q ss_pred             c--cCcCCce----EEE----Ee------ecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         273 G--TTTAGLT----VSA----LR------ENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       273 ~--~~~~glt----~~~----~~------~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                      .  .+..++.    .+.    ..      ..+.....+|++..|++|++||||+++|+++.|+.|+.+||++.+.+.
T Consensus       131 ~~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~  207 (531)
T TIGR02902       131 TARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLD  207 (531)
T ss_pred             cccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeec
Confidence            0  0111110    000    00      011223457888899999999999999999999999999999988764

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.

>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=99.30  E-value=1e-12  Score=113.07  Aligned_cols=103  Identities=19%  Similarity=0.328  Sum_probs=68.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCc-----CCceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTT-----AGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~-----~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .+|||.|++||||+.+|+++++.++|   ++......+..     ..|+... +.  .+.....+|.+..|++|++||||
T Consensus        23 ~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~-~~~~~~~~~~~~G~l~~A~~GtL~Ld~  101 (168)
T PF00158_consen   23 LPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESELFGHE-KGAFTGARSDKKGLLEQANGGTLFLDE  101 (168)
T ss_dssp             S-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBC-SSSSTTTSSEBEHHHHHTTTSEEEEET
T ss_pred             CCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhccc-cccccccccccCCceeeccceEEeecc
Confidence            59999999999999999999999876   23222211111     1122211 10  11223457999999999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEecc
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKV  343 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~i~k~gi~~~l~a  343 (345)
                      |+.|+++.|..|+++|+++++.-..+.-..+++.
T Consensus       102 I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~  135 (168)
T PF00158_consen  102 IEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDV  135 (168)
T ss_dssp             GGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--E
T ss_pred             hhhhHHHHHHHHHHHHhhchhccccccccccccc
Confidence            9999999999999999999876443333333333

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 ....

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

Probab=99.25  E-value=5.4e-12  Score=122.46  Aligned_cols=135  Identities=20%  Similarity=0.224  Sum_probs=84.5

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccC-----C-CCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGG-----E-DGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~-----~-~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      ..|.+.+...|+||+.+|+++..++.....+..     . +.....+..|+||+||||+|||.+++++++.+..++....
T Consensus        69 ~~i~~~L~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~d  148 (413)
T TIGR00382        69 KEIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIAD  148 (413)
T ss_pred             HHHHHHhcceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEec
Confidence            456667777899999999999998853211110     0 0001123469999999999999999999998865554332


Q ss_pred             Ccc-CcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCH--------------HhHHHHHHHHhCCEEEE
Q psy1366         272 VGT-TTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKE--------------HDRTSIHEAMEQQTISV  332 (345)
Q Consensus       272 ~~~-~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~--------------~~~~~l~eame~~~i~i  332 (345)
                      ... +..|+......+  .......++.+..+.+||+||||+|++.+              ..|++|+++||...+.+
T Consensus       149 a~~L~~~gyvG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v  226 (413)
T TIGR00382       149 ATTLTEAGYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANV  226 (413)
T ss_pred             hhhccccccccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceec
Confidence            111 112221110000  00000124455667899999999999987              68999999997443333

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.

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

Probab=99.25  E-value=1.5e-11  Score=111.40  Aligned_cols=109  Identities=25%  Similarity=0.330  Sum_probs=78.4

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR  285 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~  285 (345)
                      .+.+||+.+|.-+.+.+-+...+...-       =|+||+||||+|||+||..+|+.++..+.++..+.-.        |
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~l-------DHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~le--------K   90 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEAL-------DHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALE--------K   90 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCc-------CeEEeeCCCCCcHHHHHHHHHHHhcCCeEeccccccc--------C
Confidence            457899999998888877653221111       2999999999999999999999988776554322110        1


Q ss_pred             ecCeeEeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         286 ENGEWHLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       286 ~~~~~~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                       .++.   ++.| .+..+-|+|||||+++++..-..|+.|||+-.+-|-
T Consensus        91 -~gDl---aaiLt~Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~  135 (332)
T COG2255          91 -PGDL---AAILTNLEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDII  135 (332)
T ss_pred             -hhhH---HHHHhcCCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEE
Confidence             0110   1111 234577999999999999999999999999887664

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.20  E-value=3.5e-11  Score=110.98  Aligned_cols=95  Identities=23%  Similarity=0.275  Sum_probs=66.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc-CCcc-CcCCceEEE----------------Eee--cCeeEeeeceeee
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT-GVGT-TTAGLTVSA----------------LRE--NGEWHLEAGALVL  299 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~-~~~~-~~~glt~~~----------------~~~--~~~~~~~~G~l~l  299 (345)
                      .|+||.|+||||||++++++++.++..+... +... ....+....                .+.  .......+|.+..
T Consensus        22 ~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~l~~  101 (262)
T TIGR02640        22 YPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWVDNRLTL  101 (262)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeecCchHHH
Confidence            3999999999999999999998877655432 2211 111111000                000  0112234777765


Q ss_pred             --cCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEee
Q psy1366         300 --SDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK  334 (345)
Q Consensus       300 --a~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k  334 (345)
                        +++++++||||++++++.|+.|+++||++.+++..
T Consensus       102 A~~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~  138 (262)
T TIGR02640       102 AVREGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPG  138 (262)
T ss_pred             HHHcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccC
Confidence              57899999999999999999999999999998864

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).

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.18  E-value=1.4e-10  Score=108.86  Aligned_cols=96  Identities=16%  Similarity=0.246  Sum_probs=72.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc-----cCcCCceEEEEeec-CeeEeeeceeeec--CCcEEEEcCCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG-----TTTAGLTVSALREN-GEWHLEAGALVLS--DGGVCCIDEFSS  312 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~-----~~~~glt~~~~~~~-~~~~~~~G~l~la--~~gi~~IDEidk  312 (345)
                      ||||.|+||||||++++.+++.+...++.....     ....|-.....+++ ..+.+..|.+..|  +++++++||||.
T Consensus        66 ~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~~g~illlDEin~  145 (327)
T TIGR01650        66 RVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQHNVALCFDEYDA  145 (327)
T ss_pred             cEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHhCCeEEEechhhc
Confidence            999999999999999999999998766543321     12234333333343 2356688888765  578899999999


Q ss_pred             CCHHhHHHHHHHHh-CCEEEEeeCC
Q psy1366         313 IKEHDRTSIHEAME-QQTISVAKDK  336 (345)
Q Consensus       313 ~~~~~~~~l~eame-~~~i~i~k~g  336 (345)
                      ++++.+.+|+.+|| .+.+++...+
T Consensus       146 a~p~~~~~L~~lLE~~~~l~i~~~~  170 (327)
T TIGR01650       146 GRPDVMFVIQRVLEAGGKLTLLDQN  170 (327)
T ss_pred             cCHHHHHHHHHHhccCCeEEECCCc
Confidence            99999999999999 5688886544

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.

>CHL00181 cbbX CbbX; Provisional

Probab=99.14  E-value=3.3e-11  Score=112.42  Aligned_cols=123  Identities=22%  Similarity=0.304  Sum_probs=74.7

Q ss_pred             HHHHhccCcccccchHHHHHHHHHH----hCCCcccCCCCCc-eeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVL----AGGVGRGGEDGSK-VRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV  272 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l----~~g~~~~~~~~~~-~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~  272 (345)
                      ..+.+++.++++|++.+|+.+.-..    +....+.  -|.. .+...|+||+||||||||++|+++++.+...    |.
T Consensus        15 ~~~~~~l~~~l~Gl~~vK~~i~e~~~~~~~~~~~~~--~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~----g~   88 (287)
T CHL00181         15 QEVLDILDEELVGLAPVKTRIREIAALLLIDRLRKN--LGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKL----GY   88 (287)
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHH--cCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHc----CC
Confidence            5688889999999999998663221    1110010  1111 1223699999999999999999998875321    00


Q ss_pred             ccCcCCceEEEEeec--CeeE-----eeeceeeecCCcEEEEcCCCCC---------CHHhHHHHHHHHhCC
Q psy1366         273 GTTTAGLTVSALREN--GEWH-----LEAGALVLSDGGVCCIDEFSSI---------KEHDRTSIHEAMEQQ  328 (345)
Q Consensus       273 ~~~~~glt~~~~~~~--~~~~-----~~~G~l~la~~gi~~IDEidk~---------~~~~~~~l~eame~~  328 (345)
                        ...+-...+..+.  +.|.     ...+.+..|.+||+||||++.+         ..+.+..|+..||++
T Consensus        89 --~~~~~~~~v~~~~l~~~~~g~~~~~~~~~l~~a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~  158 (287)
T CHL00181         89 --IKKGHLLTVTRDDLVGQYIGHTAPKTKEVLKKAMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQ  158 (287)
T ss_pred             --CCCCceEEecHHHHHHHHhccchHHHHHHHHHccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcC
Confidence              0000011111100  1110     0123455678999999999986         567789999999875

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

Probab=99.13  E-value=2.7e-11  Score=121.45  Aligned_cols=118  Identities=22%  Similarity=0.280  Sum_probs=80.6

Q ss_pred             HHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCc
Q psy1366         200 ILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGL  279 (345)
Q Consensus       200 l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~gl  279 (345)
                      ...-|..+.||.+.||..|+-.|.-......     ..| .-++|+||||+|||+|++.+|+.+.|.++-...++....-
T Consensus       317 a~~iLd~dHYGLekVKeRIlEyLAV~~l~~~-----~kG-pILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEA  390 (782)
T COG0466         317 AEKILDKDHYGLEKVKERILEYLAVQKLTKK-----LKG-PILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEA  390 (782)
T ss_pred             HHHHhcccccCchhHHHHHHHHHHHHHHhcc-----CCC-cEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHH
Confidence            3456788999999999999877764422211     122 4799999999999999999999999977655333211100


Q ss_pred             eEEEEeec--CeeEeeeceeee------cCCcEEEEcCCCCCCHHhH----HHHHHHHh
Q psy1366         280 TVSALREN--GEWHLEAGALVL------SDGGVCCIDEFSSIKEHDR----TSIHEAME  326 (345)
Q Consensus       280 t~~~~~~~--~~~~~~~G~l~l------a~~gi~~IDEidk~~~~~~----~~l~eame  326 (345)
                      -....|.+  |.   .||.++.      ..+.+++|||||||..+.|    +||+|+++
T Consensus       391 EIRGHRRTYIGa---mPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLD  446 (782)
T COG0466         391 EIRGHRRTYIGA---MPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLD  446 (782)
T ss_pred             Hhcccccccccc---CChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcC
Confidence            00001111  22   2666644      3578999999999987665    89999995

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

Probab=99.11  E-value=1.6e-10  Score=111.89  Aligned_cols=93  Identities=23%  Similarity=0.396  Sum_probs=68.7

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhhCCCe----EEEcC--CccCc--CCceEEEEee--cCeeEeeeceeeecCCcEEEE
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRMSPRS----VLTTG--VGTTT--AGLTVSALRE--NGEWHLEAGALVLSDGGVCCI  307 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~~~~~----~~~~~--~~~~~--~glt~~~~~~--~~~~~~~~G~l~la~~gi~~I  307 (345)
                      ++.+|||.|++||||..+||+|++++||.    ++.+-  ...+.  ..|+.-. |.  +|-+.-..|.+.+||||.+|+
T Consensus       245 Sd~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPesLlESELFGHe-KGAFTGA~~~r~GrFElAdGGTLFL  323 (550)
T COG3604         245 SDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPESLLESELFGHE-KGAFTGAINTRRGRFELADGGTLFL  323 (550)
T ss_pred             CCCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccchHHHHHHHhccc-ccccccchhccCcceeecCCCeEec
Confidence            34799999999999999999999999983    22221  11110  1111110 11  133445689999999999999


Q ss_pred             cCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         308 DEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       308 DEidk~~~~~~~~l~eame~~~i~  331 (345)
                      |||..|+...|..|+.++++|.|.
T Consensus       324 DEIGelPL~lQaKLLRvLQegEie  347 (550)
T COG3604         324 DEIGELPLALQAKLLRVLQEGEIE  347 (550)
T ss_pred             hhhccCCHHHHHHHHHHHhhccee
Confidence            999999999999999999998775

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

Probab=99.09  E-value=8.2e-11  Score=111.23  Aligned_cols=110  Identities=20%  Similarity=0.254  Sum_probs=73.1

Q ss_pred             cccccchHHH---HHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC-CccCcCCceE
Q psy1366         206 PAIYGLYLVK---LCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG-VGTTTAGLTV  281 (345)
Q Consensus       206 p~i~G~~~vk---~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~-~~~~~~glt~  281 (345)
                      .+++||+++-   +.|--++-+|.-            .+++|+||||||||+|++.++..+...+.... ..+....+  
T Consensus        24 de~vGQ~HLlg~~~~lrr~v~~~~l------------~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~gvkdl--   89 (436)
T COG2256          24 DEVVGQEHLLGEGKPLRRAVEAGHL------------HSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSGVKDL--   89 (436)
T ss_pred             HHhcChHhhhCCCchHHHHHhcCCC------------ceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccccHHHH--
Confidence            4688887652   334444444411            48999999999999999999998887665432 21111111  


Q ss_pred             EEEeecCeeEeee-ceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeC
Q psy1366         282 SALRENGEWHLEA-GALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKD  335 (345)
Q Consensus       282 ~~~~~~~~~~~~~-G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~  335 (345)
                         |+   -.-++ -......+-|+||||++++++.+|++|+..||+++|.+--|
T Consensus        90 ---r~---i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE~G~iilIGA  138 (436)
T COG2256          90 ---RE---IIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVENGTIILIGA  138 (436)
T ss_pred             ---HH---HHHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhhcCCeEEEEec
Confidence               10   00001 00111235699999999999999999999999999988554

>KOG2004|consensus

Probab=99.08  E-value=1.2e-10  Score=116.47  Aligned_cols=115  Identities=25%  Similarity=0.341  Sum_probs=81.3

Q ss_pred             hccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceE
Q psy1366         202 ASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTV  281 (345)
Q Consensus       202 ~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~  281 (345)
                      .-+..+.||+++||+.|+-.+.-|.-+..-.|      --++|+||||+|||+++|.+|+.++|-++.-..    .|++-
T Consensus       407 ~iLdeDHYgm~dVKeRILEfiAV~kLrgs~qG------kIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSv----GG~tD  476 (906)
T KOG2004|consen  407 EILDEDHYGMEDVKERILEFIAVGKLRGSVQG------KILCFVGPPGVGKTSIAKSIARALNRKFFRFSV----GGMTD  476 (906)
T ss_pred             HhhcccccchHHHHHHHHHHHHHHhhcccCCC------cEEEEeCCCCCCcccHHHHHHHHhCCceEEEec----ccccc
Confidence            35788999999999999888776633333222      268999999999999999999999997765432    24433


Q ss_pred             EEEeecC--eeE-eeeceee------ecCCcEEEEcCCCCCCHHh----HHHHHHHHh
Q psy1366         282 SALRENG--EWH-LEAGALV------LSDGGVCCIDEFSSIKEHD----RTSIHEAME  326 (345)
Q Consensus       282 ~~~~~~~--~~~-~~~G~l~------la~~gi~~IDEidk~~~~~----~~~l~eame  326 (345)
                      .+...++  .|. -.||.++      ...+.+++|||+||+....    -+||+|+|+
T Consensus       477 vAeIkGHRRTYVGAMPGkiIq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLD  534 (906)
T KOG2004|consen  477 VAEIKGHRRTYVGAMPGKIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLD  534 (906)
T ss_pred             HHhhcccceeeeccCChHHHHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcC
Confidence            2221121  111 1366664      4578999999999987533    389999995

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

Probab=99.07  E-value=4.7e-11  Score=109.54  Aligned_cols=137  Identities=19%  Similarity=0.209  Sum_probs=93.4

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCC---CCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC-Cc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGED---GSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG-VG  273 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~---~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~-~~  273 (345)
                      ..|.+.+..-++||+..|+.+..|......+....   ..---+..||||+||+|+|||.||+.+|+++.-++.... +.
T Consensus        53 ~eik~~Ld~YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATt  132 (408)
T COG1219          53 KEIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATT  132 (408)
T ss_pred             HHHHHHhhhheecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccc
Confidence            45677788889999999999999888765543221   112245579999999999999999999999987775543 33


Q ss_pred             cCcCCceEEEEeec--CeeEeeeceeeecCCcEEEEcCCCCCC--------------HHhHHHHHHHHhCCEEEEee
Q psy1366         274 TTTAGLTVSALREN--GEWHLEAGALVLSDGGVCCIDEFSSIK--------------EHDRTSIHEAMEQQTISVAK  334 (345)
Q Consensus       274 ~~~~glt~~~~~~~--~~~~~~~G~l~la~~gi~~IDEidk~~--------------~~~~~~l~eame~~~i~i~k  334 (345)
                      -+.+|.-...+-+-  .-..---.-+..|..||++||||||+.              +..|.+|+..||--..+|.-
T Consensus       133 LTEAGYVGEDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPP  209 (408)
T COG1219         133 LTEAGYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPP  209 (408)
T ss_pred             hhhccccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCC
Confidence            34444322111100  000000122456889999999999964              35689999999977666643

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

Probab=99.06  E-value=1.7e-10  Score=112.62  Aligned_cols=87  Identities=18%  Similarity=0.364  Sum_probs=67.5

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCC------------ccCcCC-ceEEEEeecCeeEeeeceeeecCC
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGV------------GTTTAG-LTVSALRENGEWHLEAGALVLSDG  302 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~------------~~~~~g-lt~~~~~~~~~~~~~~G~l~la~~  302 (345)
                      +.+||+.|++||||..+||++++.++|   ++.....            .++..| +|.+.       .-..|.+..|+|
T Consensus       164 ~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l~ESELFGhekGAFTGA~-------~~r~G~fE~A~G  236 (464)
T COG2204         164 DASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENLLESELFGHEKGAFTGAI-------TRRIGRFEQANG  236 (464)
T ss_pred             CCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHHHHHHHhhcccccCcCCcc-------cccCcceeEcCC
Confidence            379999999999999999999999987   2221111            112222 22222       234788999999


Q ss_pred             cEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         303 GVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       303 gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                      |++|||||..|+.+.|..|+.+++++++.-
T Consensus       237 GTLfLDEI~~mpl~~Q~kLLRvLqe~~~~r  266 (464)
T COG2204         237 GTLFLDEIGEMPLELQVKLLRVLQEREFER  266 (464)
T ss_pred             ceEEeeccccCCHHHHHHHHHHHHcCeeEe
Confidence            999999999999999999999999998764

>PHA02244 ATPase-like protein

Probab=99.03  E-value=5.3e-10  Score=106.26  Aligned_cols=91  Identities=19%  Similarity=0.246  Sum_probs=65.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceee--ecCCcEEEEcCCCCCCHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALV--LSDGGVCCIDEFSSIKEHD  317 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~--la~~gi~~IDEidk~~~~~  317 (345)
                      .+|||.||||||||+|++++++.+..+++..........+... ....+.|  +.|.+.  .+++|+|+|||++.++++.
T Consensus       120 ~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~-i~~~g~~--~dgpLl~A~~~GgvLiLDEId~a~p~v  196 (383)
T PHA02244        120 IPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGF-IDANGKF--HETPFYEAFKKGGLFFIDEIDASIPEA  196 (383)
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhccc-ccccccc--cchHHHHHhhcCCEEEEeCcCcCCHHH
Confidence            5999999999999999999999988776544321111111111 1112333  445543  4679999999999999999


Q ss_pred             HHHHHHHHhCCEEEEe
Q psy1366         318 RTSIHEAMEQQTISVA  333 (345)
Q Consensus       318 ~~~l~eame~~~i~i~  333 (345)
                      +..|+.+++++.+.+.
T Consensus       197 q~~L~~lLd~r~l~l~  212 (383)
T PHA02244        197 LIIINSAIANKFFDFA  212 (383)
T ss_pred             HHHHHHHhccCeEEec
Confidence            9999999998876553

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

Probab=99.02  E-value=2.7e-10  Score=119.37  Aligned_cols=118  Identities=21%  Similarity=0.278  Sum_probs=75.6

Q ss_pred             HHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc--C
Q psy1366         200 ILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT--A  277 (345)
Q Consensus       200 l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~--~  277 (345)
                      ..+-+..++||++.+|+.|+..+.......     +.++. .++|+||||+|||++++.+++.+++..+....++..  .
T Consensus       316 ~~~~l~~~~~g~~~vK~~i~~~l~~~~~~~-----~~~g~-~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~  389 (784)
T PRK10787        316 AQEILDTDHYGLERVKDRILEYLAVQSRVN-----KIKGP-ILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEA  389 (784)
T ss_pred             HHHHhhhhccCHHHHHHHHHHHHHHHHhcc-----cCCCc-eEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHH
Confidence            344677889999999999984444211110     11333 699999999999999999999988876543322211  1


Q ss_pred             CceEEEEeecCeeE-eeeceee------ecCCcEEEEcCCCCCCHHh----HHHHHHHHhC
Q psy1366         278 GLTVSALRENGEWH-LEAGALV------LSDGGVCCIDEFSSIKEHD----RTSIHEAMEQ  327 (345)
Q Consensus       278 glt~~~~~~~~~~~-~~~G~l~------la~~gi~~IDEidk~~~~~----~~~l~eame~  327 (345)
                      .+...  +.  .|. -.+|.+.      .+.+.|++|||+|+++++.    +++|+++|+.
T Consensus       390 ~i~g~--~~--~~~g~~~G~~~~~l~~~~~~~~villDEidk~~~~~~g~~~~aLlevld~  446 (784)
T PRK10787        390 EIRGH--RR--TYIGSMPGKLIQKMAKVGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDP  446 (784)
T ss_pred             Hhccc--hh--ccCCCCCcHHHHHHHhcCCCCCEEEEEChhhcccccCCCHHHHHHHHhcc
Confidence            11110  00  010 1244332      1246799999999999876    4899999984

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.01  E-value=9.9e-10  Score=112.31  Aligned_cols=44  Identities=23%  Similarity=0.380  Sum_probs=41.1

Q ss_pred             eeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeC
Q psy1366         292 LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKD  335 (345)
Q Consensus       292 ~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~  335 (345)
                      +++|++..|++|++||||++.|++..|..|+++|+++++.+...
T Consensus       208 i~~G~L~~AngGtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~  251 (608)
T TIGR00764       208 VEAGAIHRAHKGVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQ  251 (608)
T ss_pred             CCCCceEECCCCEEEEEChHhCCHHHHHHHHHHHHhCcEEecCc
Confidence            47999999999999999999999999999999999999998654

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

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.00  E-value=1.3e-09  Score=111.76  Aligned_cols=121  Identities=21%  Similarity=0.269  Sum_probs=80.0

Q ss_pred             HhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC-----------eEEE
Q psy1366         201 LASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR-----------SVLT  269 (345)
Q Consensus       201 ~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~-----------~~~~  269 (345)
                      ...-+++++|++...+++.-++....            ..|++|+||||||||++++.++..+.+           .+..
T Consensus       149 rp~~~~~iiGqs~~~~~l~~~ia~~~------------~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i  216 (615)
T TIGR02903       149 RPRAFSEIVGQERAIKALLAKVASPF------------PQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEV  216 (615)
T ss_pred             CcCcHHhceeCcHHHHHHHHHHhcCC------------CCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEE
Confidence            34456789999877777666554331            138999999999999999999876631           1222


Q ss_pred             cCCccCc------CCceEEEE-----------eecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         270 TGVGTTT------AGLTVSAL-----------RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       270 ~~~~~~~------~glt~~~~-----------~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                      .+.....      ..+.....           ...+......|.+..+++|++||||++.|+...|..|+.+|+++++.+
T Consensus       217 ~~~~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~  296 (615)
T TIGR02903       217 DGTTLRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEF  296 (615)
T ss_pred             echhccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEe
Confidence            2211100      00110000           000112234566778899999999999999999999999999998765


Q ss_pred             e
Q psy1366         333 A  333 (345)
Q Consensus       333 ~  333 (345)
                      .
T Consensus       297 ~  297 (615)
T TIGR02903       297 S  297 (615)
T ss_pred             e
Confidence            4

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.

>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=98.99  E-value=9.8e-11  Score=101.05  Aligned_cols=92  Identities=22%  Similarity=0.315  Sum_probs=61.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC----eEEEcCCccCcCC--ceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR----SVLTTGVGTTTAG--LTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSI  313 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~~~~~~~g--lt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~  313 (345)
                      .++||+||+|+|||.+++.+++.+.-    ++..........+  ....+.+   ...-.+|..-.+++||+|||||||+
T Consensus         4 ~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~---l~~~~~~~v~~~~~gVVllDEidKa   80 (171)
T PF07724_consen    4 SNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSVSK---LLGSPPGYVGAEEGGVVLLDEIDKA   80 (171)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHCHH---HHHHTTCHHHHHHHTEEEEETGGGC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhhhh---hhhcccceeeccchhhhhhHHHhhc
Confidence            58999999999999999999998872    2222211111100  0000000   0001133444556789999999999


Q ss_pred             CH-----------HhHHHHHHHHhCCEEEEee
Q psy1366         314 KE-----------HDRTSIHEAMEQQTISVAK  334 (345)
Q Consensus       314 ~~-----------~~~~~l~eame~~~i~i~k  334 (345)
                      .+           ..|+.|+.+||.++++-.+
T Consensus        81 ~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~  112 (171)
T PF07724_consen   81 HPSNSGGADVSGEGVQNSLLQLLEGGTLTDSY  112 (171)
T ss_dssp             SHTTTTCSHHHHHHHHHHHHHHHHHSEEEETT
T ss_pred             cccccccchhhHHHHHHHHHHHhcccceeccc
Confidence            99           9999999999999998544

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 ....

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.99  E-value=8.8e-10  Score=104.88  Aligned_cols=91  Identities=20%  Similarity=0.289  Sum_probs=64.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCC-----ceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAG-----LTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~g-----lt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .+|||.|++||||+.+|++++..+++   ++...........     ++.. .+.  .+.-...+|.+..|++|++||||
T Consensus        23 ~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~lfG~-~~g~~~ga~~~~~G~~~~a~gGtL~Lde  101 (329)
T TIGR02974        23 RPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGH-EAGAFTGAQKRHQGRFERADGGTLFLDE  101 (329)
T ss_pred             CCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHHHhcc-ccccccCcccccCCchhhCCCCEEEeCC
Confidence            59999999999999999999998875   2222211111111     1110 000  01112347889999999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~  331 (345)
                      ++.|+.+.|..|+.+++++.+.
T Consensus       102 i~~L~~~~Q~~Ll~~l~~~~~~  123 (329)
T TIGR02974       102 LATASLLVQEKLLRVIEYGEFE  123 (329)
T ss_pred             hHhCCHHHHHHHHHHHHcCcEE
Confidence            9999999999999999998754

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

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

Probab=98.97  E-value=1.2e-09  Score=113.90  Aligned_cols=133  Identities=15%  Similarity=0.133  Sum_probs=83.7

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcC
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTA  277 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~  277 (345)
                      ..+.+.+...|+||+.++..+.-++...... ..+  ..+...++||+||||+|||.+++.+++.+..++..........
T Consensus       450 ~~l~~~L~~~ViGQ~~ai~~l~~~i~~~~~g-l~~--~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~  526 (758)
T PRK11034        450 KNLGDRLKMLVFGQDKAIEALTEAIKMSRAG-LGH--EHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYME  526 (758)
T ss_pred             HHHHHHhcceEeCcHHHHHHHHHHHHHHhcc-ccC--CCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcc
Confidence            4567788999999998888777776532100 000  1122237999999999999999999998876544322211100


Q ss_pred             CceEEEEee-cCeeE--eeeceee----ecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         278 GLTVSALRE-NGEWH--LEAGALV----LSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       278 glt~~~~~~-~~~~~--~~~G~l~----la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                      ....+.... ...|.  .+.|.+.    ....+|+++|||||++++.++.|+++|++++++-.
T Consensus       527 ~~~~~~LiG~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~  589 (758)
T PRK11034        527 RHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDN  589 (758)
T ss_pred             cccHHHHcCCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecC
Confidence            000000000 00010  1123332    23468999999999999999999999999998753

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=98.95  E-value=1.9e-09  Score=110.11  Aligned_cols=42  Identities=29%  Similarity=0.493  Sum_probs=39.7

Q ss_pred             eeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         292 LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       292 ~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                      +++|++..|++|++||||++.|++..|..|+++|+++++.+.
T Consensus       217 i~~G~L~kAnGGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~  258 (637)
T PRK13765        217 VEAGAIHKAHKGVLFIDEINTLDLESQQSLLTAMQEKKFPIT  258 (637)
T ss_pred             CCCCceeECCCcEEEEeChHhCCHHHHHHHHHHHHhCCEEec
Confidence            389999999999999999999999999999999999999874

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.95  E-value=1.4e-09  Score=109.39  Aligned_cols=89  Identities=22%  Similarity=0.380  Sum_probs=63.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh--------CCC---eEEEcCCccCc-----CCceEEEEeecCee-----Eeeeceee
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM--------SPR---SVLTTGVGTTT-----AGLTVSALRENGEW-----HLEAGALV  298 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~--------~~~---~~~~~~~~~~~-----~glt~~~~~~~~~~-----~~~~G~l~  298 (345)
                      .+|||.|++||||+.+|++++..        +++   ++.......-.     ..|+..   +.|.|     .-.+|.+.
T Consensus       243 ~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e~lleseLFG~---~~gaftga~~~~~~Gl~e  319 (538)
T PRK15424        243 AAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAESLLEAELFGY---EEGAFTGSRRGGRAGLFE  319 (538)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCChhhHHHHhcCC---ccccccCccccccCCchh
Confidence            59999999999999999999998        544   22222111110     001110   00111     12368889


Q ss_pred             ecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         299 LSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       299 la~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                      .|++|++||||++.|+...|..|+.+++++++.
T Consensus       320 ~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~  352 (538)
T PRK15424        320 IAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVT  352 (538)
T ss_pred             ccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEE
Confidence            999999999999999999999999999998875

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

Probab=98.93  E-value=2.5e-09  Score=112.04  Aligned_cols=133  Identities=17%  Similarity=0.142  Sum_probs=83.6

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcC
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTA  277 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~  277 (345)
                      ..+.+.+...|+||+.++..+..++...... ..+  ..|...++||+||||+|||.+++.+++.+...+..........
T Consensus       446 ~~l~~~l~~~v~GQ~~ai~~l~~~i~~~~~g-~~~--~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~  522 (731)
T TIGR02639       446 KNLEKNLKAKIFGQDEAIDSLVSSIKRSRAG-LGN--PNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYME  522 (731)
T ss_pred             HHHHHHHhcceeCcHHHHHHHHHHHHHHhcC-CCC--CCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhh
Confidence            4667788999999998888887776632100 000  0122236899999999999999999999876543332211100


Q ss_pred             CceEEEEee--cCeeEe-eec----eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         278 GLTVSALRE--NGEWHL-EAG----ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       278 glt~~~~~~--~~~~~~-~~G----~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                      ..+.+....  .|.... +.|    ++.....+|++|||++|++++.++.|+++|+++.++-.
T Consensus       523 ~~~~~~lig~~~gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~  585 (731)
T TIGR02639       523 KHTVSRLIGAPPGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDN  585 (731)
T ss_pred             cccHHHHhcCCCCCcccchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecC
Confidence            000000000  000000 112    22234568999999999999999999999999988743

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.93  E-value=6.8e-10  Score=103.56  Aligned_cols=123  Identities=23%  Similarity=0.222  Sum_probs=69.8

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhC--CCcccCCCCCc-eeeeeceeeeCCCCChHHHHHHHHHhhCCC--------eE
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAG--GVGRGGEDGSK-VRAESHLLLVGDPGTGKSEILKFAKRMSPR--------SV  267 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~--g~~~~~~~~~~-~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~--------~~  267 (345)
                      .+.+.+..++.|++.+|+.+.-...-  ........|.. .....|+||+||||||||++|+.+++.+..        .+
T Consensus        15 ~~~~~l~~~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v   94 (284)
T TIGR02880        15 EVLDQLDRELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLV   94 (284)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEE
Confidence            45555556679999999886332110  00000001111 112359999999999999999888776532        11


Q ss_pred             EEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCC---------CHHhHHHHHHHHhCC
Q psy1366         268 LTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSI---------KEHDRTSIHEAMEQQ  328 (345)
Q Consensus       268 ~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~---------~~~~~~~l~eame~~  328 (345)
                      +++.  +   .+......+..  ....+.+..|.+|++||||++.+         +.+.++.|++.||++
T Consensus        95 ~v~~--~---~l~~~~~g~~~--~~~~~~~~~a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~  157 (284)
T TIGR02880        95 SVTR--D---DLVGQYIGHTA--PKTKEILKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQ  157 (284)
T ss_pred             EecH--H---HHhHhhcccch--HHHHHHHHHccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcC
Confidence            1111  0   01000000000  00123455678999999999977         356678999999876

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.

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

Probab=98.92  E-value=1.4e-09  Score=104.63  Aligned_cols=121  Identities=16%  Similarity=0.230  Sum_probs=79.6

Q ss_pred             HHHhccCcccccc-hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe-----E-EEcC
Q psy1366         199 HILASICPAIYGL-YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS-----V-LTTG  271 (345)
Q Consensus       199 ~l~~s~~p~i~G~-~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~-----~-~~~~  271 (345)
                      .+.++...+++|. ...++++.-...-.           ....|||++|++||||+.+|+.++..+.+.     + +.++
T Consensus        71 ~~~~~~~~~LIG~~~~~~~~~eqik~~a-----------p~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa  139 (403)
T COG1221          71 YLKSEALDDLIGESPSLQELREQIKAYA-----------PSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCA  139 (403)
T ss_pred             hccchhhhhhhccCHHHHHHHHHHHhhC-----------CCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHH
Confidence            3455666777786 33344333332211           112599999999999999999999887762     1 1122


Q ss_pred             CccCc-CC--ceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         272 VGTTT-AG--LTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       272 ~~~~~-~g--lt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                      ..+.. ..  |+.- .+.  .|...-.+|.+..|+||++|+||+..|++..|..|+.+||++++.
T Consensus       140 ~~~en~~~~eLFG~-~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~  203 (403)
T COG1221         140 AYSENLQEAELFGH-EKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYR  203 (403)
T ss_pred             HhCcCHHHHHHhcc-ccceeecccCCcCchheecCCCEEehhhhhhCCHhHHHHHHHHHHcCceE
Confidence            21111 11  1110 000  122234589999999999999999999999999999999999886

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.92  E-value=6.1e-10  Score=102.69  Aligned_cols=116  Identities=25%  Similarity=0.342  Sum_probs=64.4

Q ss_pred             ccccchHHHHHHHHHHhCC--CcccCCCCCc-eeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEE
Q psy1366         207 AIYGLYLVKLCLAVVLAGG--VGRGGEDGSK-VRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSA  283 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g--~~~~~~~~~~-~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~  283 (345)
                      +++|++.+|..+.-....-  .......|.. .....|+||+||||||||++++.+++.+...    +..  ..+-...+
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~----~~~--~~~~~v~~   80 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEM----NVL--SKGHLIEV   80 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhc----Ccc--cCCceEEe
Confidence            4688988887764211000  0000001111 1223699999999999999999999865210    000  00000000


Q ss_pred             Eee--cCeeEee-----eceeeecCCcEEEEcCCCCCC--------HHhHHHHHHHHhCC
Q psy1366         284 LRE--NGEWHLE-----AGALVLSDGGVCCIDEFSSIK--------EHDRTSIHEAMEQQ  328 (345)
Q Consensus       284 ~~~--~~~~~~~-----~G~l~la~~gi~~IDEidk~~--------~~~~~~l~eame~~  328 (345)
                      .+.  .+.|.-+     .+.+..|.+||+||||++.+.        .+.+..|+..||+.
T Consensus        81 ~~~~l~~~~~g~~~~~~~~~~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~  140 (261)
T TIGR02881        81 ERADLVGEYIGHTAQKTREVIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDN  140 (261)
T ss_pred             cHHHhhhhhccchHHHHHHHHHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhcc
Confidence            000  0111100     233455778999999999875        45678899999876

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.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.89  E-value=3.3e-09  Score=106.65  Aligned_cols=89  Identities=20%  Similarity=0.364  Sum_probs=64.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcC-----CceEEEEeecCee-----EeeeceeeecCCcEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTA-----GLTVSALRENGEW-----HLEAGALVLSDGGVCC  306 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~-----glt~~~~~~~~~~-----~~~~G~l~la~~gi~~  306 (345)
                      .+|||.|++||||+.+|++++..+++   ++..........     .|+..   +.|.|     .-.+|.+..|++|++|
T Consensus       236 ~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e~lleseLFG~---~~gaftga~~~~~~Gl~e~A~gGTLf  312 (526)
T TIGR02329       236 ATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAESLLEAELFGY---EEGAFTGARRGGRTGLIEAAHRGTLF  312 (526)
T ss_pred             CcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCChhHHHHHhcCC---cccccccccccccccchhhcCCceEE
Confidence            59999999999999999999998765   232222111110     01110   00111     1247888899999999


Q ss_pred             EcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         307 IDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       307 IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                      |||++.|+...|..|+.+++++.+.
T Consensus       313 LdeI~~Lp~~~Q~~Ll~~L~~~~~~  337 (526)
T TIGR02329       313 LDEIGEMPLPLQTRLLRVLEEREVV  337 (526)
T ss_pred             ecChHhCCHHHHHHHHHHHhcCcEE
Confidence            9999999999999999999998764

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.

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.87  E-value=3.9e-09  Score=109.23  Aligned_cols=115  Identities=11%  Similarity=0.142  Sum_probs=75.4

Q ss_pred             cCcccccch-HHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCc---
Q psy1366         204 ICPAIYGLY-LVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTT---  276 (345)
Q Consensus       204 ~~p~i~G~~-~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~---  276 (345)
                      -++++.|.. .+++.+..+....           +.+.+|||.|++||||+.+|++++..+++   ++.........   
T Consensus       323 ~~~~l~g~s~~~~~~~~~~~~~a-----------~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~  391 (638)
T PRK11388        323 TFDHMPQDSPQMRRLIHFGRQAA-----------KSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEA  391 (638)
T ss_pred             cccceEECCHHHHHHHHHHHHHh-----------CcCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHH
Confidence            356778874 4444443332222           12259999999999999999999998874   23222111110   


Q ss_pred             --CCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         277 --AGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       277 --~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                        ..|.....  +....-.+|.+..|++|++||||++.|+.+.|..|+.+++++.++
T Consensus       392 ~~~elfg~~~--~~~~~~~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~  446 (638)
T PRK11388        392 LAEEFLGSDR--TDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVIT  446 (638)
T ss_pred             HHHHhcCCCC--cCccCCCCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEE
Confidence              11211110  011112367888999999999999999999999999999998775

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.86  E-value=4.3e-09  Score=100.24  Aligned_cols=109  Identities=27%  Similarity=0.341  Sum_probs=72.1

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEE
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSA  283 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~  283 (345)
                      -..+++|++.++..+...+.......       ...-|+||+||||+|||++++.+++.+...+.........       
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~~~~-------~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~-------   88 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAKKRG-------EALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALE-------   88 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHHhcC-------CCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEeccccc-------
Confidence            34567999999888876665321100       1113899999999999999999999886544322110000       


Q ss_pred             EeecCeeEeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         284 LRENGEWHLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       284 ~~~~~~~~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                       + .+.  + .+.+ .+..++++||||++.++...+..|+.+||+..+.
T Consensus        89 -~-~~~--l-~~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~  132 (328)
T PRK00080         89 -K-PGD--L-AAILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLD  132 (328)
T ss_pred             -C-hHH--H-HHHHHhcccCCEEEEecHhhcchHHHHHHHHHHHhccee
Confidence             0 000  0 0111 1245789999999999998889999999987654

>TIGR00763 lon ATP-dependent protease La

Probab=98.85  E-value=2.6e-09  Score=112.57  Aligned_cols=119  Identities=24%  Similarity=0.291  Sum_probs=73.4

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc--Cc
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT--TT  276 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~--~~  276 (345)
                      .+.+.+..++||++.+|..+.-.+.....+..     .++ .++||+||||||||++++++++.+.+.++....++  ..
T Consensus       313 ~~~~~l~~~~~G~~~~k~~i~~~~~~~~~~~~-----~~~-~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~  386 (775)
T TIGR00763       313 RAKEILDEDHYGLKKVKERILEYLAVQKLRGK-----MKG-PILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDE  386 (775)
T ss_pred             HHHHHhhhhcCChHHHHHHHHHHHHHHHhhcC-----CCC-ceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccH
Confidence            44567888999999999888765442211100     122 38999999999999999999999877665432211  10


Q ss_pred             CCceEEEEeecCeeE-eeecee----e--ecCCcEEEEcCCCCCCHHhH----HHHHHHHhC
Q psy1366         277 AGLTVSALRENGEWH-LEAGAL----V--LSDGGVCCIDEFSSIKEHDR----TSIHEAMEQ  327 (345)
Q Consensus       277 ~glt~~~~~~~~~~~-~~~G~l----~--la~~gi~~IDEidk~~~~~~----~~l~eame~  327 (345)
                      ..+...  +  ..|. ..+|.+    .  ...+.|++|||||++....+    ++|+++|+.
T Consensus       387 ~~i~g~--~--~~~~g~~~g~i~~~l~~~~~~~~villDEidk~~~~~~~~~~~aLl~~ld~  444 (775)
T TIGR00763       387 AEIRGH--R--RTYVGAMPGRIIQGLKKAKTKNPLFLLDEIDKIGSSFRGDPASALLEVLDP  444 (775)
T ss_pred             HHHcCC--C--CceeCCCCchHHHHHHHhCcCCCEEEEechhhcCCccCCCHHHHHHHhcCH
Confidence            001000  0  0010 002222    1  22457999999999976543    789999974

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.85  E-value=5.7e-09  Score=98.19  Aligned_cols=106  Identities=26%  Similarity=0.322  Sum_probs=69.7

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR  285 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~  285 (345)
                      .+++|++.++..+..++.+....  .     ...-|++|+||||+|||+|++.+++.+...+........         .
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~--~-----~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~---------~   67 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMR--Q-----EALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPAL---------E   67 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhc--C-----CCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchh---------c
Confidence            46789999988877766532100  0     111389999999999999999999987654433211100         0


Q ss_pred             ecCeeEeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEE
Q psy1366         286 ENGEWHLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       286 ~~~~~~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~~~i  330 (345)
                      ..+.+   .+.+ .+..+++++|||++.++++.+..|+.+|++..+
T Consensus        68 ~~~~l---~~~l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~  110 (305)
T TIGR00635        68 KPGDL---AAILTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRL  110 (305)
T ss_pred             CchhH---HHHHHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhhe
Confidence            00000   0011 123468999999999999999999999987654

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.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=98.84  E-value=6.7e-09  Score=98.82  Aligned_cols=91  Identities=20%  Similarity=0.303  Sum_probs=64.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCC-----ceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAG-----LTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~g-----lt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .+|||.|++||||+.+|++++..+++   +++..........     ++.. .+.  .+.....+|.+..|++|++||||
T Consensus        30 ~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~~~~~lfg~-~~~~~~g~~~~~~g~l~~a~gGtL~l~~  108 (326)
T PRK11608         30 KPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGH-EAGAFTGAQKRHPGRFERADGGTLFLDE  108 (326)
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHHHHHHHccc-cccccCCcccccCCchhccCCCeEEeCC
Confidence            59999999999999999999998874   2322221111101     1110 000  01111236788899999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~  331 (345)
                      ++.|+...|..|+++++.+.+.
T Consensus       109 i~~L~~~~Q~~L~~~l~~~~~~  130 (326)
T PRK11608        109 LATAPMLVQEKLLRVIEYGELE  130 (326)
T ss_pred             hhhCCHHHHHHHHHHHhcCcEE
Confidence            9999999999999999998754

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

Probab=98.82  E-value=5e-09  Score=101.11  Aligned_cols=71  Identities=20%  Similarity=0.283  Sum_probs=52.1

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCccc-CCCCCc-eeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRG-GEDGSK-VRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~-~~~~~~-~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..+.+.|...|+|++.+|+++..++.++..+. ...+.+ -....|+||+||||+|||++++.+++.+..+++
T Consensus         7 ~~I~~~Ld~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi   79 (443)
T PRK05201          7 REIVSELDKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFI   79 (443)
T ss_pred             HHHHHHhccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChhe
Confidence            45777788889999999999999998743221 111110 011259999999999999999999999876543

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.80  E-value=9e-09  Score=104.39  Aligned_cols=91  Identities=25%  Similarity=0.400  Sum_probs=63.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcC-----CceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTA-----GLTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~-----glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .+|||.|++||||+.++++++..+++   ++..........     .|+... +.  .+.....+|.+..|++|++||||
T Consensus       220 ~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~~~~~~~lfg~~-~~~~~~~~~~~~g~~~~a~~GtL~lde  298 (534)
T TIGR01817       220 STVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESELFGHE-KGAFTGAIAQRKGRFELADGGTLFLDE  298 (534)
T ss_pred             CCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCHHHHHHHHcCCC-CCccCCCCcCCCCcccccCCCeEEEec
Confidence            59999999999999999999998864   222222111110     011000 00  01111246778899999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~  331 (345)
                      ++.|+...|..|+++++++.+.
T Consensus       299 i~~L~~~~Q~~Ll~~l~~~~~~  320 (534)
T TIGR01817       299 IGEISPAFQAKLLRVLQEGEFE  320 (534)
T ss_pred             hhhCCHHHHHHHHHHHhcCcEE
Confidence            9999999999999999998765

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.

>KOG0989|consensus

Probab=98.80  E-value=7.1e-09  Score=95.04  Aligned_cols=108  Identities=19%  Similarity=0.257  Sum_probs=72.7

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC-eEEEcC----CccCcCCce
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR-SVLTTG----VGTTTAGLT  280 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~-~~~~~~----~~~~~~glt  280 (345)
                      .++.|++.+..++.-++.++.            -.|+||+||||||||+.++++++.+.- ..+-++    ..|...|..
T Consensus        36 de~~gQe~vV~~L~~a~~~~~------------lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis  103 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRRI------------LPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS  103 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhcC------------CceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc
Confidence            457899999999999988631            259999999999999999998876643 222222    234444443


Q ss_pred             EEEEeec-CeeEe----eece--eeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         281 VSALREN-GEWHL----EAGA--LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       281 ~~~~~~~-~~~~~----~~G~--l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        +.++. ..|.-    ..+.  -+.....|+.|||.|.|..+.|++|...||.
T Consensus       104 --vvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~  155 (346)
T KOG0989|consen  104 --VVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMED  155 (346)
T ss_pred             --chhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhc
Confidence              22221 11100    0000  1122237999999999999999999999997

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.77  E-value=2.8e-08  Score=105.44  Aligned_cols=134  Identities=16%  Similarity=0.140  Sum_probs=81.0

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC---CeEEEcCCcc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP---RSVLTTGVGT  274 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~---~~~~~~~~~~  274 (345)
                      ..+.+.+...|+||+.+...+.-++....... .+  ..|...++||+||||+|||.+++.+++.+.   ..+.......
T Consensus       501 ~~l~~~L~~~v~GQ~~ai~~l~~~i~~~~~gl-~~--~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~  577 (821)
T CHL00095        501 LHMEETLHKRIIGQDEAVVAVSKAIRRARVGL-KN--PNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSE  577 (821)
T ss_pred             HHHHHHhcCcCcChHHHHHHHHHHHHHHhhcc-cC--CCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchh
Confidence            45677889999999999888877765321100 00  112223689999999999999999998763   1221111110


Q ss_pred             CcCCceEEEEee-cCee--Eeeece----eeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEee
Q psy1366         275 TTAGLTVSALRE-NGEW--HLEAGA----LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK  334 (345)
Q Consensus       275 ~~~glt~~~~~~-~~~~--~~~~G~----l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k  334 (345)
                      .....+.+.... ...|  .-+.|.    +......|+++||+||++++.++.|+++||+|+++-.+
T Consensus       578 ~~~~~~~~~l~g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~  644 (821)
T CHL00095        578 YMEKHTVSKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSK  644 (821)
T ss_pred             ccccccHHHhcCCCCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCC
Confidence            000000000000 0000  001122    22233579999999999999999999999999887654

>PLN03025 replication factor C subunit; Provisional

Probab=98.77  E-value=4.8e-09  Score=99.55  Aligned_cols=108  Identities=19%  Similarity=0.224  Sum_probs=65.0

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe----EEEcCCccCcCCceE
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS----VLTTGVGTTTAGLTV  281 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~----~~~~~~~~~~~glt~  281 (345)
                      -++.|++.+...+.-.+..+.            ..|+||+||||+|||++++++++.+...    .+..-..+...|.. 
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~------------~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~-   79 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGN------------MPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGID-   79 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCC------------CceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHH-
Confidence            356799888877765555441            1389999999999999999999875211    11111111111100 


Q ss_pred             EEEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         282 SALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       282 ~~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                       ..++. ..+......+......+++|||+|.|....|++|+..||.
T Consensus        80 -~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~  125 (319)
T PLN03025         80 -VVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEI  125 (319)
T ss_pred             -HHHHHHHHHHhccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhc
Confidence             00100 0000000001112357999999999999999999999985

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.77  E-value=1.1e-08  Score=100.62  Aligned_cols=110  Identities=21%  Similarity=0.258  Sum_probs=69.0

Q ss_pred             cccccchHHH---HHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEE
Q psy1366         206 PAIYGLYLVK---LCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVS  282 (345)
Q Consensus       206 p~i~G~~~vk---~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~  282 (345)
                      -+++|++.+.   ..+.-.+.++.            ..|++|+||||||||++++.+++.....+........  +.  .
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~------------~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~--~~--~   75 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGR------------LSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS--GV--K   75 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCC------------CceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc--cH--H
Confidence            3678887663   33444444331            1389999999999999999999877654432211100  00  0


Q ss_pred             EEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         283 ALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       283 ~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                      ..++--+..  ........+.+++|||+++++...|++|+..||++++.+-
T Consensus        76 ~ir~ii~~~--~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~~~iilI  124 (413)
T PRK13342         76 DLREVIEEA--RQRRSAGRRTILFIDEIHRFNKAQQDALLPHVEDGTITLI  124 (413)
T ss_pred             HHHHHHHHH--HHhhhcCCceEEEEechhhhCHHHHHHHHHHhhcCcEEEE
Confidence            001000000  0001122568999999999999999999999999987764

>KOG0745|consensus

Probab=98.76  E-value=2.6e-09  Score=101.73  Aligned_cols=99  Identities=18%  Similarity=0.259  Sum_probs=70.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC-ccCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCC-
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV-GTTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIK-  314 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~-~~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~-  314 (345)
                      ..||||+||+|+|||.|++.+|+++.-++.++.. .-+.+|.-...+-.  ..-.....+-+..|..||+||||+||+. 
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~  305 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITK  305 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcc
Confidence            3599999999999999999999999988766653 33455542211000  0001111234556889999999999976 


Q ss_pred             -------------HHhHHHHHHHHhCCEEEEeeCCe
Q psy1366         315 -------------EHDRTSIHEAMEQQTISVAKDKE  337 (345)
Q Consensus       315 -------------~~~~~~l~eame~~~i~i~k~gi  337 (345)
                                   +..|.+|+..+|--.|.|.+.|.
T Consensus       306 ~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~  341 (564)
T KOG0745|consen  306 KAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGS  341 (564)
T ss_pred             cCccccccccccchhHHHHHHHHhcccEEcccCCCC
Confidence                         46789999999998888866654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.74  E-value=4.3e-08  Score=104.02  Aligned_cols=133  Identities=17%  Similarity=0.158  Sum_probs=81.6

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCcc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGT  274 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~  274 (345)
                      ..+.+.+...|+||+.+..++.-++...... ..+..  |..-.+||.||||+|||.+++++++.+-.   .+.....+.
T Consensus       558 ~~l~~~L~~~v~GQ~~Av~~v~~~i~~~~~g-l~~~~--~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse  634 (852)
T TIGR03345       558 LSLPDRLAERVIGQDHALEAIAERIRTARAG-LEDPR--KPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSE  634 (852)
T ss_pred             HHHHHHhcCeEcChHHHHHHHHHHHHHHhcC-CCCCC--CCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHH
Confidence            4567789999999988887777776432100 01111  22226899999999999999999988732   222221111


Q ss_pred             CcCCceEEEEeec-Cee--Eeeecee----eecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         275 TTAGLTVSALREN-GEW--HLEAGAL----VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       275 ~~~glt~~~~~~~-~~~--~~~~G~l----~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                      .....+.+..... ..|  .-+.|.|    .....+|++||||+|++++.++.|+++|+++.++-.
T Consensus       635 ~~~~~~~~~l~g~~~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~  700 (852)
T TIGR03345       635 FQEAHTVSRLKGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDG  700 (852)
T ss_pred             hhhhhhhccccCCCCCcccccccchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecC
Confidence            0000011100000 001  0123333    233578999999999999999999999999987754

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.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.74  E-value=1.5e-08  Score=100.64  Aligned_cols=117  Identities=17%  Similarity=0.196  Sum_probs=71.7

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC-----------
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV-----------  272 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~-----------  272 (345)
                      -..+++||+.++..+..++..+.           -..++||+||||||||++|+.+++.+...-...+.           
T Consensus        12 ~~~divGq~~i~~~L~~~i~~~~-----------l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i   80 (472)
T PRK14962         12 TFSEVVGQDHVKKLIINALKKNS-----------ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSI   80 (472)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHH
Confidence            33578999999988888877662           11348999999999999999999876531100000           


Q ss_pred             --cc--CcCCceEEEEeecCeeE-e--eec-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC--CEEE
Q psy1366         273 --GT--TTAGLTVSALRENGEWH-L--EAG-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ--QTIS  331 (345)
Q Consensus       273 --~~--~~~glt~~~~~~~~~~~-~--~~G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~--~~i~  331 (345)
                        +.  ....+.++..+.-.+.. +  ... .-..++..+++|||++.+....+++|+..||+  +.+.
T Consensus        81 ~~g~~~dv~el~aa~~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv  149 (472)
T PRK14962         81 DEGTFMDVIELDAASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVV  149 (472)
T ss_pred             hcCCCCccEEEeCcccCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEE
Confidence              00  00011111000000000 0  000 01235678999999999999999999999998  4443

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.73  E-value=2.7e-08  Score=103.84  Aligned_cols=91  Identities=23%  Similarity=0.350  Sum_probs=62.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCC-----ceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAG-----LTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~g-----lt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .+|||.|++|||||.+|++++..+++   ++..........+     ++.. .+.  .+...-..|.+.+|++|++||||
T Consensus       400 ~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~~~~~~lfg~-~~~~~~g~~~~~~g~le~a~~GtL~Lde  478 (686)
T PRK15429        400 STVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGH-ERGAFTGASAQRIGRFELADKSSLFLDE  478 (686)
T ss_pred             CCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChhHhhhhhcCc-ccccccccccchhhHHHhcCCCeEEEec
Confidence            59999999999999999999998864   2221111111111     1110 000  01112235677889999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~  331 (345)
                      ++.++.+.|..|+.+|+++.+.
T Consensus       479 i~~L~~~~Q~~L~~~l~~~~~~  500 (686)
T PRK15429        479 VGDMPLELQPKLLRVLQEQEFE  500 (686)
T ss_pred             hhhCCHHHHHHHHHHHHhCCEE
Confidence            9999999999999999988654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.71  E-value=5.4e-08  Score=103.67  Aligned_cols=133  Identities=15%  Similarity=0.141  Sum_probs=79.3

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCcc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGT  274 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~  274 (345)
                      ..+.+.+...|+|++.+..++.-++...... ..+  ..|....+||+||||||||.+++++++.+..   .+.......
T Consensus       557 ~~l~~~l~~~v~GQ~~av~~v~~~i~~~~~g-l~~--~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~  633 (852)
T TIGR03346       557 LHMEEVLHERVVGQDEAVEAVSDAIRRSRAG-LSD--PNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSE  633 (852)
T ss_pred             HHHHHHhhcccCCChHHHHHHHHHHHHHhcc-CCC--CCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechh
Confidence            3455678888999988877777766532100 000  0122347999999999999999999987632   222111110


Q ss_pred             CcCCceEEEEee--cCee-Eeeecee----eecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         275 TTAGLTVSALRE--NGEW-HLEAGAL----VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       275 ~~~glt~~~~~~--~~~~-~~~~G~l----~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                      .......+....  .|-. ..+.|.+    ......|+++|||++++++.++.|+++|++|.++-.
T Consensus       634 ~~~~~~~~~l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~  699 (852)
T TIGR03346       634 YMEKHSVARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDG  699 (852)
T ss_pred             hcccchHHHhcCCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecC
Confidence            000000000000  0000 0012222    222356999999999999999999999999988743

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.

>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=98.70  E-value=1.5e-08  Score=83.24  Aligned_cols=105  Identities=24%  Similarity=0.209  Sum_probs=62.7

Q ss_pred             cchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC---CeEEEcCCccCcCCceEEEEee
Q psy1366         210 GLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP---RSVLTTGVGTTTAGLTVSALRE  286 (345)
Q Consensus       210 G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~---~~~~~~~~~~~~~glt~~~~~~  286 (345)
                      |++.+...+...+....            ..+++++|+||+|||++++.+++.+.   ..++..............   .
T Consensus         2 ~~~~~~~~i~~~~~~~~------------~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~---~   66 (151)
T cd00009           2 GQEEAIEALREALELPP------------PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVA---E   66 (151)
T ss_pred             chHHHHHHHHHHHhCCC------------CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHH---H
Confidence            55566666666665421            14899999999999999999998872   222221111100000000   0


Q ss_pred             cCe---eEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCE
Q psy1366         287 NGE---WHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQT  329 (345)
Q Consensus       287 ~~~---~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~  329 (345)
                      ...   +..........+.++++|||++.+.......+++.|++..
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~  112 (151)
T cd00009          67 LFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLN  112 (151)
T ss_pred             HhhhhhHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcC
Confidence            000   0011122234567999999999998888888999888754

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.69  E-value=3.1e-08  Score=99.85  Aligned_cols=91  Identities=20%  Similarity=0.348  Sum_probs=63.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eE-EEcCCccCc----CCceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SV-LTTGVGTTT----AGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~-~~~~~~~~~----~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .+|||+|++||||+.++++++..+++   ++ .+....-..    ..|+... +.  .+...-.+|.+..|++|++||||
T Consensus       211 ~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~~e~~lfG~~-~g~~~ga~~~~~g~~~~a~gGtL~lde  289 (509)
T PRK05022        211 LNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESELFGHV-KGAFTGAISNRSGKFELADGGTLFLDE  289 (509)
T ss_pred             CcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHHHHHHhcCcc-ccccCCCcccCCcchhhcCCCEEEecC
Confidence            59999999999999999999999875   22 222111110    0111100 00  01111246778899999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~  331 (345)
                      ++.|+.+.|..|+.+++++.+.
T Consensus       290 I~~L~~~~Q~~Ll~~l~~~~~~  311 (509)
T PRK05022        290 IGELPLALQAKLLRVLQYGEIQ  311 (509)
T ss_pred             hhhCCHHHHHHHHHHHhcCCEe
Confidence            9999999999999999988763

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.69  E-value=6.9e-08  Score=91.84  Aligned_cols=43  Identities=16%  Similarity=0.080  Sum_probs=40.0

Q ss_pred             eceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCC
Q psy1366         294 AGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDK  336 (345)
Q Consensus       294 ~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~g  336 (345)
                      .|.|..|++|++.++|+.|.+.+.+..||.+++++.+.+.+.+
T Consensus       229 ~G~l~~aNrGi~~f~Ei~K~~~~~l~~LL~~~qE~~v~~~~~~  271 (361)
T smart00763      229 DGALNRANRGILEFVEMFKADIKFLHPLLTATQEGNIKGTGGF  271 (361)
T ss_pred             cCccccccCceEEEeehhcCCHHHHHHHhhhhhcceEecCCcc
Confidence            5899999999999999999999999999999999999987553

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

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

Probab=98.68  E-value=4.2e-09  Score=94.46  Aligned_cols=123  Identities=17%  Similarity=0.167  Sum_probs=72.3

Q ss_pred             cCcccccchHHHHHHHHHHhC-CCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEE
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAG-GVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVS  282 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~-g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~  282 (345)
                      ...+++||+.+|+...+.+-= ..+....+    -..-|||++||||||||+++++++..+.-+++..-..    .|-..
T Consensus       119 t~ddViGqEeAK~kcrli~~yLenPe~Fg~----WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat----~liGe  190 (368)
T COG1223         119 TLDDVIGQEEAKRKCRLIMEYLENPERFGD----WAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKAT----ELIGE  190 (368)
T ss_pred             cHhhhhchHHHHHHHHHHHHHhhChHHhcc----cCcceeEEECCCCccHHHHHHHHhcccCCceEEechH----HHHHH
Confidence            456789999998766554321 00111111    1124999999999999999999999887776644211    11000


Q ss_pred             EEeec----CeeEeeeceeeecCCcEEEEcCCCCCCHH------------hHHHHHHHHh-----CCEEEEeeCCe
Q psy1366         283 ALREN----GEWHLEAGALVLSDGGVCCIDEFSSIKEH------------DRTSIHEAME-----QQTISVAKDKE  337 (345)
Q Consensus       283 ~~~~~----~~~~~~~G~l~la~~gi~~IDEidk~~~~------------~~~~l~eame-----~~~i~i~k~gi  337 (345)
                      -+.|+    .+..-.|   ..+...|+||||+|.+.-+            ..++|+.-|+     +|.++|+-.+.
T Consensus       191 hVGdgar~Ihely~rA---~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~  263 (368)
T COG1223         191 HVGDGARRIHELYERA---RKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNR  263 (368)
T ss_pred             HhhhHHHHHHHHHHHH---HhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCC
Confidence            00110    0100001   2345789999999986532            3477888775     46777765443

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

Probab=98.67  E-value=7.4e-08  Score=99.29  Aligned_cols=132  Identities=16%  Similarity=0.168  Sum_probs=82.4

Q ss_pred             HHHHhccCcccccchHHHHHHHHHH----hCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC---CeEEEc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVL----AGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP---RSVLTT  270 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l----~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~---~~~~~~  270 (345)
                      ..+-+.+...|+||+.+-.++.-++    .|=..++       |.--..||.||+|+|||.|++++|..+.   .+....
T Consensus       483 l~le~~L~~rViGQd~AV~avs~aIrraRaGL~dp~-------rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~  555 (786)
T COG0542         483 LNLERRLKKRVIGQDEAVEAVSDAIRRARAGLGDPN-------RPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRI  555 (786)
T ss_pred             HHHHHHHhcceeChHHHHHHHHHHHHHHhcCCCCCC-------CCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceee
Confidence            3556788999999987766555554    3321111       2223899999999999999999999876   233222


Q ss_pred             CCccCcCCceEEEEeec--C-eeEeeeceeeec----CCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCC
Q psy1366         271 GVGTTTAGLTVSALREN--G-EWHLEAGALVLS----DGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDK  336 (345)
Q Consensus       271 ~~~~~~~glt~~~~~~~--~-~~~~~~G~l~la----~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~g  336 (345)
                      .++-.....+++-+...  | --+-+.|.|.-|    ...|+++|||+|..++..+.|+++|++|+++=.++-
T Consensus       556 DMSEy~EkHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr  628 (786)
T COG0542         556 DMSEYMEKHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGR  628 (786)
T ss_pred             chHHHHHHHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCC
Confidence            22111100111100000  0 001223443222    257999999999999999999999999998876654

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.66  E-value=2.8e-08  Score=100.31  Aligned_cols=91  Identities=21%  Similarity=0.283  Sum_probs=61.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe----EEEcCCccCc----CCceEEEEee-cCeeEeeeceeeecCCcEEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS----VLTTGVGTTT----AGLTVSALRE-NGEWHLEAGALVLSDGGVCCIDEF  310 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~----~~~~~~~~~~----~glt~~~~~~-~~~~~~~~G~l~la~~gi~~IDEi  310 (345)
                      .+|||.|++||||+.+|++++..+++.    +.+.......    ..|+...... .+...-.+|.+..|++|++||||+
T Consensus       228 ~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~~~~e~elFG~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI  307 (520)
T PRK10820        228 APLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESELFGHAPGAYPNALEGKKGFFEQANGGSVLLDEI  307 (520)
T ss_pred             CCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCHHHHHHHhcCCCCCCcCCcccCCCChhhhcCCCEEEEeCh
Confidence            499999999999999999999887652    2222111110    0011100000 000012367788899999999999


Q ss_pred             CCCCHHhHHHHHHHHhCCEE
Q psy1366         311 SSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       311 dk~~~~~~~~l~eame~~~i  330 (345)
                      +.|+...|..|+.+++++++
T Consensus       308 ~~L~~~~Q~~Ll~~l~~~~~  327 (520)
T PRK10820        308 GEMSPRMQAKLLRFLNDGTF  327 (520)
T ss_pred             hhCCHHHHHHHHHHHhcCCc
Confidence            99999999999999998754

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.63  E-value=7.9e-08  Score=102.21  Aligned_cols=153  Identities=14%  Similarity=0.137  Sum_probs=85.6

Q ss_pred             cCHHHHHHHHHHHHhhc-----cChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCC
Q psy1366         174 ITPELRAEVTQFWEDHK-----YDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDP  248 (345)
Q Consensus       174 ~~~e~~~~~~~~~~~~~-----~~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~p  248 (345)
                      ++++++..+-.-|....     .+.......+.+.+...|+|++.+...+..++...... ..+  ..|...++||+|||
T Consensus       531 v~~~~i~~vv~~~tgip~~~~~~~~~~~l~~l~~~l~~~viGQ~~ai~~l~~~i~~~~~g-l~~--~~~p~~~~Lf~Gp~  607 (857)
T PRK10865        531 VTDAEIAEVLARWTGIPVSRMLESEREKLLRMEQELHHRVIGQNEAVEAVSNAIRRSRAG-LSD--PNRPIGSFLFLGPT  607 (857)
T ss_pred             cCHHHHHHHHHHHHCCCchhhhhhHHHHHHHHHHHhCCeEeCCHHHHHHHHHHHHHHHhc-ccC--CCCCCceEEEECCC
Confidence            55555555544443221     12222234567789999999987666665554421000 000  00111379999999


Q ss_pred             CChHHHHHHHHHhhCCC---eEEEcCCccC-----cCCceEE----EEeecCeeEeeeceeeecCCcEEEEcCCCCCCHH
Q psy1366         249 GTGKSEILKFAKRMSPR---SVLTTGVGTT-----TAGLTVS----ALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEH  316 (345)
Q Consensus       249 GtGKs~l~~~i~~~~~~---~~~~~~~~~~-----~~glt~~----~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~  316 (345)
                      |||||.+++++++.+..   ++........     ...|..+    +-.+.+.+  -.+++.....+|++|||+++++++
T Consensus       608 G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~~~~LiG~~pgy~g~~~~g~--l~~~v~~~p~~vLllDEieka~~~  685 (857)
T PRK10865        608 GVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEEGGY--LTEAVRRRPYSVILLDEVEKAHPD  685 (857)
T ss_pred             CCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhhHHHHhCCCCcccccchhHH--HHHHHHhCCCCeEEEeehhhCCHH
Confidence            99999999999987742   1211111000     0000000    00000000  011222234689999999999999


Q ss_pred             hHHHHHHHHhCCEEE
Q psy1366         317 DRTSIHEAMEQQTIS  331 (345)
Q Consensus       317 ~~~~l~eame~~~i~  331 (345)
                      .++.|+++|+++.++
T Consensus       686 v~~~Ll~ile~g~l~  700 (857)
T PRK10865        686 VFNILLQVLDDGRLT  700 (857)
T ss_pred             HHHHHHHHHhhCcee
Confidence            999999999998765

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=98.61  E-value=7e-08  Score=90.24  Aligned_cols=101  Identities=20%  Similarity=0.294  Sum_probs=72.9

Q ss_pred             hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe---E---EEcCCccCc--CCceEEE
Q psy1366         212 YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS---V---LTTGVGTTT--AGLTVSA  283 (345)
Q Consensus       212 ~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~---~---~~~~~~~~~--~glt~~~  283 (345)
                      ..+..|-.+|....               ++|+.|++||||..++|+++..+||.   +   ...+.....  ..++...
T Consensus       215 ~~v~qA~k~AmlDA---------------PLLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~lPe~~aEsElFG~a  279 (511)
T COG3283         215 HVVEQAQKLAMLDA---------------PLLITGETGTGKDLLAKACHLASPRHSKPFLALNCASLPEDAAESELFGHA  279 (511)
T ss_pred             HHHHHHHHhhccCC---------------CeEEecCCCchHHHHHHHHhhcCcccCCCeeEeecCCCchhHhHHHHhcCC
Confidence            44555666666655               99999999999999999999999983   1   111221111  1122211


Q ss_pred             EeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         284 LRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       284 ~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                      -.+    .-..|.+.+|++|.+++|||..|++..|..|+..+.+|+..
T Consensus       280 pg~----~gk~GffE~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFR  323 (511)
T COG3283         280 PGD----EGKKGFFEQANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFR  323 (511)
T ss_pred             CCC----CCccchhhhccCCeEEeehhhhcCHHHHHHHHHHhcCCcee
Confidence            111    12378899999999999999999999999999999998764

>KOG2028|consensus

Probab=98.60  E-value=1.2e-08  Score=95.57  Aligned_cols=112  Identities=18%  Similarity=0.226  Sum_probs=71.1

Q ss_pred             cccccchHH--HHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe-EEEcCCccCcCCceEE
Q psy1366         206 PAIYGLYLV--KLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS-VLTTGVGTTTAGLTVS  282 (345)
Q Consensus       206 p~i~G~~~v--k~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~-~~~~~~~~~~~glt~~  282 (345)
                      .+.+||+.+  ..+++..++--...           ..+.|+||||||||+|++.++.-+... .+......+.++  +.
T Consensus       138 ~dyvGQ~hlv~q~gllrs~ieq~~i-----------pSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~--t~  204 (554)
T KOG2028|consen  138 DDYVGQSHLVGQDGLLRSLIEQNRI-----------PSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAK--TN  204 (554)
T ss_pred             HHhcchhhhcCcchHHHHHHHcCCC-----------CceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccc--hH
Confidence            356777544  35566665532110           379999999999999999999887653 111111111111  00


Q ss_pred             EEeec-----CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCC
Q psy1366         283 ALREN-----GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDK  336 (345)
Q Consensus       283 ~~~~~-----~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~g  336 (345)
                      .+|+.     ++..      .-...-|+||||+.+++..+|+.++-..|.|.|++--|.
T Consensus       205 dvR~ife~aq~~~~------l~krkTilFiDEiHRFNksQQD~fLP~VE~G~I~lIGAT  257 (554)
T KOG2028|consen  205 DVRDIFEQAQNEKS------LTKRKTILFIDEIHRFNKSQQDTFLPHVENGDITLIGAT  257 (554)
T ss_pred             HHHHHHHHHHHHHh------hhcceeEEEeHHhhhhhhhhhhcccceeccCceEEEecc
Confidence            11210     1111      112357999999999999999999999999999986553

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=1e-07  Score=92.00  Aligned_cols=109  Identities=19%  Similarity=0.206  Sum_probs=67.6

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC--------c
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT--------T  276 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~--------~  276 (345)
                      +-+|+||+.+++.+.-++..|.           -.+.+||+||||+|||++++.+++.+.-.....+.+..        .
T Consensus        15 ~~~iiGq~~~~~~l~~~~~~~~-----------~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~   83 (363)
T PRK14961         15 FRDIIGQKHIVTAISNGLSLGR-----------IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIE   83 (363)
T ss_pred             hhhccChHHHHHHHHHHHHcCC-----------CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHh
Confidence            3478999999999888887661           11246999999999999999999876421000000000        0


Q ss_pred             CC-------ceEEE-Ee-ec-----CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         277 AG-------LTVSA-LR-EN-----GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       277 ~g-------lt~~~-~~-~~-----~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .|       +.++. .+ +.     ......|   ..++..|++|||+++|+...+++|+..||+
T Consensus        84 ~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p---~~~~~kviIIDEa~~l~~~a~naLLk~lEe  145 (363)
T PRK14961         84 KGLCLDLIEIDAASRTKVEEMREILDNIYYSP---SKSRFKVYLIDEVHMLSRHSFNALLKTLEE  145 (363)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhcCc---ccCCceEEEEEChhhcCHHHHHHHHHHHhc
Confidence            00       00000 00 00     0000000   123456999999999999999999999997

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

Probab=98.55  E-value=3.9e-08  Score=102.22  Aligned_cols=110  Identities=17%  Similarity=0.209  Sum_probs=67.4

Q ss_pred             CcccccchHHHH---HHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceE
Q psy1366         205 CPAIYGLYLVKL---CLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTV  281 (345)
Q Consensus       205 ~p~i~G~~~vk~---~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~  281 (345)
                      ..+++|++.+..   .+.-++..+            ...|++|+||||||||++++.+++.....+.....  ...++  
T Consensus        27 ldd~vGQe~ii~~~~~L~~~i~~~------------~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna--~~~~i--   90 (725)
T PRK13341         27 LEEFVGQDHILGEGRLLRRAIKAD------------RVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNA--VLAGV--   90 (725)
T ss_pred             HHHhcCcHHHhhhhHHHHHHHhcC------------CCceEEEECCCCCCHHHHHHHHHHHhcCcceeehh--hhhhh--
Confidence            346789977652   233333322            11499999999999999999999876543321110  00111  


Q ss_pred             EEEeecCeeEeee-ceee-ecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         282 SALRENGEWHLEA-GALV-LSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       282 ~~~~~~~~~~~~~-G~l~-la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                         ++-.+..-.+ ..+. ...+++++|||++.++...|++|+..||++.+.+.
T Consensus        91 ---~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE~g~IiLI  141 (725)
T PRK13341         91 ---KDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVENGTITLI  141 (725)
T ss_pred             ---HHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhcCceEEEE
Confidence               1100000000 0011 12457999999999999999999999999987663

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.55  E-value=9.5e-08  Score=94.64  Aligned_cols=91  Identities=19%  Similarity=0.332  Sum_probs=64.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcC-----CceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTA-----GLTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~-----glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .++++.|++||||+.++++++..+++   +++.........     .|+.. .+.  .+.....+|.+..|++|++||||
T Consensus       163 ~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~~~~~lfg~-~~~~~~~~~~~~~g~~~~a~~gtl~l~~  241 (445)
T TIGR02915       163 ITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLLESELFGY-EKGAFTGAVKQTLGKIEYAHGGTLFLDE  241 (445)
T ss_pred             CCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHHHHHHhcCC-CCCCcCCCccCCCCceeECCCCEEEEec
Confidence            59999999999999999999998864   222211111100     01100 000  01122347889999999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~  331 (345)
                      ++.|+...|..|+++++++.+.
T Consensus       242 i~~l~~~~q~~l~~~l~~~~~~  263 (445)
T TIGR02915       242 IGDLPLNLQAKLLRFLQERVIE  263 (445)
T ss_pred             hhhCCHHHHHHHHHHHhhCeEE
Confidence            9999999999999999998764

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).

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.55  E-value=1.2e-07  Score=93.56  Aligned_cols=114  Identities=14%  Similarity=0.150  Sum_probs=69.3

Q ss_pred             ccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE----EcCC------
Q psy1366         203 SICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL----TTGV------  272 (345)
Q Consensus       203 s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~----~~~~------  272 (345)
                      .-+.++.||+.+...+..++..+.           -.+.+||+||||||||++|+.+++.+.-.-.    .++.      
T Consensus        15 ~~f~dvVGQe~iv~~L~~~i~~~r-----------i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~   83 (484)
T PRK14956         15 QFFRDVIHQDLAIGALQNALKSGK-----------IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLE   83 (484)
T ss_pred             CCHHHHhChHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHH
Confidence            344578999999998888887662           1123899999999999999999998753210    0110      


Q ss_pred             -----ccCcCCceEEEEeecCee-Eeeecee---eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         273 -----GTTTAGLTVSALRENGEW-HLEAGAL---VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       273 -----~~~~~glt~~~~~~~~~~-~~~~G~l---~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                           ......+.++..+...+. .+.....   ......|++|||++.|+.+.+++|+..||+
T Consensus        84 i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEE  147 (484)
T PRK14956         84 ITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEE  147 (484)
T ss_pred             HHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhc
Confidence                 000000111100000000 0000000   112345999999999999999999999998

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

Probab=98.51  E-value=1.5e-07  Score=93.83  Aligned_cols=92  Identities=21%  Similarity=0.345  Sum_probs=64.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe---EEEcCCccCcC-----CceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS---VLTTGVGTTTA-----GLTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~~~~~~~~~-----glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .++|+.|++||||+.++++++..+++.   +..........     .++... +.  .+.....+|.+..|++|++||||
T Consensus       162 ~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~~~~~lfg~~-~g~~~~~~~~~~g~~~~a~~Gtl~l~~  240 (469)
T PRK10923        162 ISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFGHE-KGAFTGANTIRQGRFEQADGGTLFLDE  240 (469)
T ss_pred             CeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHHHHHHhcCCC-CCCCCCCCcCCCCCeeECCCCEEEEec
Confidence            699999999999999999999988752   22111111000     000000 00  01122357888999999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~i  332 (345)
                      ++.|+.+.|..|+.+++++.+.-
T Consensus       241 i~~l~~~~q~~L~~~l~~~~~~~  263 (469)
T PRK10923        241 IGDMPLDVQTRLLRVLADGQFYR  263 (469)
T ss_pred             cccCCHHHHHHHHHHHhcCcEEe
Confidence            99999999999999999987653

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.51  E-value=1.9e-07  Score=97.58  Aligned_cols=108  Identities=18%  Similarity=0.169  Sum_probs=68.9

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeec-eeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC--------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESH-LLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT--------  275 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~-iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~--------  275 (345)
                      +-+|+||+.++..+.-++..|.-            .| +||+||||+|||++++.+++.+.-.-...+....        
T Consensus        15 FddIIGQe~Iv~~LknaI~~~rl------------~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i   82 (944)
T PRK14949         15 FEQMVGQSHVLHALTNALTQQRL------------HHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEI   82 (944)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCCC------------CeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHH
Confidence            34788999999998888776611            35 4899999999999999999887532111111000        


Q ss_pred             cCCc-------eEEE-E-----eec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         276 TAGL-------TVSA-L-----REN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       276 ~~gl-------t~~~-~-----~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ..|.       .++. .     |+- ......+   ..+...|++|||+++|+.+.+++|+..||+
T Consensus        83 ~~g~~~DviEidAas~~kVDdIReLie~v~~~P---~~gk~KViIIDEAh~LT~eAqNALLKtLEE  145 (944)
T PRK14949         83 AQGRFVDLIEVDAASRTKVDDTRELLDNVQYRP---SRGRFKVYLIDEVHMLSRSSFNALLKTLEE  145 (944)
T ss_pred             hcCCCceEEEeccccccCHHHHHHHHHHHHhhh---hcCCcEEEEEechHhcCHHHHHHHHHHHhc
Confidence            0010       0100 0     000 0000001   123457999999999999999999999997

>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=98.49  E-value=1.3e-08  Score=82.94  Aligned_cols=80  Identities=20%  Similarity=0.269  Sum_probs=50.4

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc---CCceEEEEeecCeeEeeeceeeec-CCcEEEEcCCCCCCHHh
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT---AGLTVSALRENGEWHLEAGALVLS-DGGVCCIDEFSSIKEHD  317 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~---~glt~~~~~~~~~~~~~~G~l~la-~~gi~~IDEidk~~~~~  317 (345)
                      |||+||||+|||++++.+++.+...++........   .+-+....   ..+.-++   ... ...|++|||+|.+....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i---~~~~~~~---~~~~~~~vl~iDe~d~l~~~~   74 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKI---RDFFKKA---KKSAKPCVLFIDEIDKLFPKS   74 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHH---HHHHHHH---HHTSTSEEEEEETGGGTSHHC
T ss_pred             CEEECcCCCCeeHHHHHHHhhccccccccccccccccccccccccc---ccccccc---cccccceeeeeccchhccccc
Confidence            69999999999999999999997665433221111   11000000   0000000   111 25899999999998887


Q ss_pred             -----------HHHHHHHHhC
Q psy1366         318 -----------RTSIHEAMEQ  327 (345)
Q Consensus       318 -----------~~~l~eame~  327 (345)
                                 ...|+..|+.
T Consensus        75 ~~~~~~~~~~~~~~L~~~l~~   95 (132)
T PF00004_consen   75 QPSSSSFEQRLLNQLLSLLDN   95 (132)
T ss_dssp             STSSSHHHHHHHHHHHHHHHT
T ss_pred             ccccccccccccceeeecccc
Confidence                       6788888865

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 ....

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.49  E-value=2.3e-07  Score=93.23  Aligned_cols=112  Identities=16%  Similarity=0.131  Sum_probs=69.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc-----------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG-----------  273 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~-----------  273 (345)
                      +.+|+||+.+++.+.-++..+.           -.+.+||+||||+|||++++.+++.+.-.-...+..           
T Consensus        15 f~divGq~~v~~~L~~~~~~~~-----------l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~   83 (509)
T PRK14958         15 FQEVIGQAPVVRALSNALDQQY-----------LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREID   83 (509)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCC-----------CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHh
Confidence            3468999999999999987662           112379999999999999999998774211000000           


Q ss_pred             ----cCcCCceEEEEeecCee--Eeee--ceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         274 ----TTTAGLTVSALRENGEW--HLEA--GALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       274 ----~~~~glt~~~~~~~~~~--~~~~--G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                          .....+.++....-.++  .++.  -.-..+...|++|||+|+|+.+.+++|+..||+
T Consensus        84 ~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEe  145 (509)
T PRK14958         84 EGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEE  145 (509)
T ss_pred             cCCCceEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhc
Confidence                00001111100000000  0000  001123457999999999999999999999997

>KOG0991|consensus

Probab=98.49  E-value=4.4e-08  Score=86.70  Aligned_cols=109  Identities=20%  Similarity=0.255  Sum_probs=69.0

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC----CccCcCCc
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG----VGTTTAGL  279 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~----~~~~~~gl  279 (345)
                      ...+|+|+++.-..+.+..-.|.            -.|+++.||||+|||+-+..+|+.+-..-|-.+    +.|...|+
T Consensus        25 ~l~dIVGNe~tv~rl~via~~gn------------mP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGI   92 (333)
T KOG0991|consen   25 VLQDIVGNEDTVERLSVIAKEGN------------MPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGI   92 (333)
T ss_pred             HHHHhhCCHHHHHHHHHHHHcCC------------CCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCcccccc
Confidence            44578999776665555444441            149999999999999988888875532222222    23333343


Q ss_pred             eEEEEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHh
Q psy1366         280 TVSALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAME  326 (345)
Q Consensus       280 t~~~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame  326 (345)
                      .+.  |.. ..|.-..-.+......|+.+||.|.|....|.+|...||
T Consensus        93 DvV--Rn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRRtME  138 (333)
T KOG0991|consen   93 DVV--RNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRRTME  138 (333)
T ss_pred             HHH--HHHHHHHHHhhccCCCCceeEEEeeccchhhhHHHHHHHHHHH
Confidence            221  110 222222222333446799999999999999999999998

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.49  E-value=1.8e-07  Score=92.95  Aligned_cols=92  Identities=17%  Similarity=0.255  Sum_probs=64.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCC-----ceEEEEe-ecCeeEeeeceeeecCCcEEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAG-----LTVSALR-ENGEWHLEAGALVLSDGGVCCIDEF  310 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~g-----lt~~~~~-~~~~~~~~~G~l~la~~gi~~IDEi  310 (345)
                      .++|+.|++||||+.++++++..+++   +++..........     |+..... -.+.....+|.+..|++|++||||+
T Consensus       167 ~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ld~i  246 (457)
T PRK11361        167 ASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLLDEI  246 (457)
T ss_pred             cEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHHHHHHhcCCCCCCCCCCCCCCCCceEECCCCEEEEech
Confidence            59999999999999999999987764   2222221111111     1000000 0122233478899999999999999


Q ss_pred             CCCCHHhHHHHHHHHhCCEEE
Q psy1366         311 SSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       311 dk~~~~~~~~l~eame~~~i~  331 (345)
                      +.++...|..|+++++.+.+.
T Consensus       247 ~~l~~~~q~~L~~~l~~~~~~  267 (457)
T PRK11361        247 GEMPLVLQAKLLRILQEREFE  267 (457)
T ss_pred             hhCCHHHHHHHHHHHhcCcEE
Confidence            999999999999999988754

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.48  E-value=3e-07  Score=93.43  Aligned_cols=112  Identities=19%  Similarity=0.208  Sum_probs=69.5

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc-----------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG-----------  273 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~-----------  273 (345)
                      +.+|+|++.+++.+.-++..|           |-...+||+||||+|||++++.+++.+.-.--..+..           
T Consensus        14 FddVIGQe~vv~~L~~aI~~g-----------rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~   82 (702)
T PRK14960         14 FNELVGQNHVSRALSSALERG-----------RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVN   82 (702)
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-----------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHh
Confidence            347899999999999988876           2224669999999999999999998764211000000           


Q ss_pred             ----cCcCCceEEEEeecCee--Eeeec--eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         274 ----TTTAGLTVSALRENGEW--HLEAG--ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       274 ----~~~~glt~~~~~~~~~~--~~~~G--~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                          .....+.++..+.-.+.  .+...  .-..+...|++|||++.|+...+++|+..||+
T Consensus        83 ~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEE  144 (702)
T PRK14960         83 EGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEE  144 (702)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhc
Confidence                00000111100000000  00000  00123457999999999999999999999998

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

Probab=98.46  E-value=3.9e-08  Score=92.01  Aligned_cols=80  Identities=25%  Similarity=0.377  Sum_probs=48.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE-cCCccCcCCceEEEEeecCeeEeeeceeeec---CCcEEEEcCCCCC---
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT-TGVGTTTAGLTVSALRENGEWHLEAGALVLS---DGGVCCIDEFSSI---  313 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~-~~~~~~~~glt~~~~~~~~~~~~~~G~l~la---~~gi~~IDEidk~---  313 (345)
                      -|||+||||||||.|||++|+...-.+.- .|.     .|--..+.++..  +.-..+.+|   ...|+||||||.+   
T Consensus       187 GVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgS-----ElVqKYiGEGaR--lVRelF~lArekaPsIIFiDEIDAIg~k  259 (406)
T COG1222         187 GVLLYGPPGTGKTLLAKAVANQTDATFIRVVGS-----ELVQKYIGEGAR--LVRELFELAREKAPSIIFIDEIDAIGAK  259 (406)
T ss_pred             ceEeeCCCCCcHHHHHHHHHhccCceEEEeccH-----HHHHHHhccchH--HHHHHHHHHhhcCCeEEEEechhhhhcc
Confidence            79999999999999999999887654322 221     110000001000  000111222   2589999999964   


Q ss_pred             --------CHHhHHHHHHHHhC
Q psy1366         314 --------KEHDRTSIHEAMEQ  327 (345)
Q Consensus       314 --------~~~~~~~l~eame~  327 (345)
                              +.+.|-.|+|.+.|
T Consensus       260 R~d~~t~gDrEVQRTmleLL~q  281 (406)
T COG1222         260 RFDSGTSGDREVQRTMLELLNQ  281 (406)
T ss_pred             cccCCCCchHHHHHHHHHHHHh
Confidence                    34678889998865

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=98.45  E-value=9e-08  Score=95.53  Aligned_cols=90  Identities=22%  Similarity=0.312  Sum_probs=64.5

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhCCC---eEEE-cC-Cc---------cCcCCceEEEEeecCeeEeeeceeeecCC
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMSPR---SVLT-TG-VG---------TTTAGLTVSALRENGEWHLEAGALVLSDG  302 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~-~~-~~---------~~~~glt~~~~~~~~~~~~~~G~l~la~~  302 (345)
                      +.++++|+.|+|||||..++|++++.+..   .+.+ ++ .+         +...|-+..+.+.     -..|.+.+|++
T Consensus       334 ~~~~pvll~GEtGtGKe~laraiH~~s~~~gpfvAvNCaAip~~liesELFGy~~GafTga~~k-----G~~g~~~~A~g  408 (606)
T COG3284         334 ATDLPVLLQGETGTGKEVLARAIHQNSEAAGPFVAVNCAAIPEALIESELFGYVAGAFTGARRK-----GYKGKLEQADG  408 (606)
T ss_pred             hcCCCeEecCCcchhHHHHHHHHHhcccccCCeEEEEeccchHHhhhHHHhccCccccccchhc-----cccccceecCC
Confidence            44579999999999999999999987753   1111 11 00         1111111111111     12677889999


Q ss_pred             cEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         303 GVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       303 gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                      |.+|+|||..|+.+.|.+|+.+++++.|+
T Consensus       409 GtlFldeIgd~p~~~Qs~LLrVl~e~~v~  437 (606)
T COG3284         409 GTLFLDEIGDMPLALQSRLLRVLQEGVVT  437 (606)
T ss_pred             CccHHHHhhhchHHHHHHHHHHHhhCcee
Confidence            99999999999999999999999999986

>KOG0739|consensus

Probab=98.45  E-value=7.9e-08  Score=87.88  Aligned_cols=95  Identities=24%  Similarity=0.312  Sum_probs=57.0

Q ss_pred             ccccchHHHHHHHHHHhCCCcc-cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR  285 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~  285 (345)
                      ++-|.|-+|.|+--+.+-.+.- ....|.+ +...-|||+||||||||.|++++|..+.-.++.. ..|.   |.     
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR-~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSv-SSSD---Lv-----  203 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKR-KPWRGILLYGPPGTGKSYLAKAVATEANSTFFSV-SSSD---LV-----  203 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCC-CcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEe-ehHH---HH-----
Confidence            5778888888876665433221 1122222 3335799999999999999999999887433322 1111   11     


Q ss_pred             ecCeeEeeecee-----eec---CCcEEEEcCCCCC
Q psy1366         286 ENGEWHLEAGAL-----VLS---DGGVCCIDEFSSI  313 (345)
Q Consensus       286 ~~~~~~~~~G~l-----~la---~~gi~~IDEidk~  313 (345)
                        ..|.-+.-.|     .+|   ...|+||||||.+
T Consensus       204 --SKWmGESEkLVknLFemARe~kPSIIFiDEiDsl  237 (439)
T KOG0739|consen  204 --SKWMGESEKLVKNLFEMARENKPSIIFIDEIDSL  237 (439)
T ss_pred             --HHHhccHHHHHHHHHHHHHhcCCcEEEeehhhhh
Confidence              1222222222     222   3589999999975

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

Probab=98.45  E-value=1.7e-07  Score=77.80  Aligned_cols=73  Identities=26%  Similarity=0.397  Sum_probs=52.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeE--EEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSV--LTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHD  317 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~--~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~  317 (345)
                      .+|||+|+|||||+.+|++++....+..  +..-..   ..+             ....+..+.+|+++|+|+|.++++.
T Consensus        22 ~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~---~~~-------------~~~~l~~a~~gtL~l~~i~~L~~~~   85 (138)
T PF14532_consen   22 SPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDC---ASL-------------PAELLEQAKGGTLYLKNIDRLSPEA   85 (138)
T ss_dssp             S-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCH---HCT-------------CHHHHHHCTTSEEEEECGCCS-HHH
T ss_pred             CcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEech---hhC-------------cHHHHHHcCCCEEEECChHHCCHHH
Confidence            5999999999999999999999877521  111000   000             0223334689999999999999999


Q ss_pred             HHHHHHHHhCC
Q psy1366         318 RTSIHEAMEQQ  328 (345)
Q Consensus       318 ~~~l~eame~~  328 (345)
                      |..|.++++..
T Consensus        86 Q~~L~~~l~~~   96 (138)
T PF14532_consen   86 QRRLLDLLKRQ   96 (138)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhc
Confidence            99999999853

>KOG1051|consensus

Probab=98.44  E-value=4.3e-07  Score=94.90  Aligned_cols=129  Identities=14%  Similarity=0.196  Sum_probs=87.1

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCce-eeeeceeeeCCCCChHHHHHHHHHhhCCCe---EEEcCCc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKV-RAESHLLLVGDPGTGKSEILKFAKRMSPRS---VLTTGVG  273 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~-r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~~~~~  273 (345)
                      ..|.+.|-..|.||+++-.||..++.....     |... .++.-+||.||.|+|||.|++++|..+-.+   +...+..
T Consensus       554 ~~L~~~L~~~V~gQ~eAv~aIa~AI~~sr~-----gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDms  628 (898)
T KOG1051|consen  554 KKLEERLHERVIGQDEAVAAIAAAIRRSRA-----GLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMS  628 (898)
T ss_pred             HHHHHHHHhhccchHHHHHHHHHHHHhhhc-----ccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechh
Confidence            456778888999999999999888876521     1111 367899999999999999999999987431   1111111


Q ss_pred             c-----CcCCceEEEE-ee-cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEee
Q psy1366         274 T-----TTAGLTVSAL-RE-NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK  334 (345)
Q Consensus       274 ~-----~~~glt~~~~-~~-~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k  334 (345)
                      .     -..|...... .+ +|.   -.+++-.-...|+++|||||++++.++.|+++|+.|+++=.+
T Consensus       629 e~~evskligsp~gyvG~e~gg~---LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~  693 (898)
T KOG1051|consen  629 EFQEVSKLIGSPPGYVGKEEGGQ---LTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSH  693 (898)
T ss_pred             hhhhhhhccCCCcccccchhHHH---HHHHHhcCCceEEEEechhhcCHHHHHHHHHHHhcCccccCC
Confidence            1     0001000000 00 111   133445555789999999999999999999999998887444

>PRK15115 response regulator GlrR; Provisional

Probab=98.41  E-value=3.9e-07  Score=90.28  Aligned_cols=91  Identities=21%  Similarity=0.376  Sum_probs=64.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcC-----CceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTA-----GLTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~-----glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .++++.|++|+||+.+++++++.+++   ++..........     .|+... +.  .+......|.+..|++|++||||
T Consensus       158 ~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~~~~lfg~~-~~~~~~~~~~~~g~~~~a~~gtl~l~~  236 (444)
T PRK15115        158 VSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHA-RGAFTGAVSNREGLFQAAEGGTLFLDE  236 (444)
T ss_pred             CeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHHHHHhcCCC-cCCCCCCccCCCCcEEECCCCEEEEEc
Confidence            58999999999999999999998874   222111110000     011000 00  12223457888999999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~  331 (345)
                      ++.|+...|..|+.+|+++.+.
T Consensus       237 i~~l~~~~q~~L~~~l~~~~~~  258 (444)
T PRK15115        237 IGDMPAPLQVKLLRVLQERKVR  258 (444)
T ss_pred             cccCCHHHHHHHHHHHhhCCEE
Confidence            9999999999999999998764

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=2.4e-07  Score=90.61  Aligned_cols=110  Identities=16%  Similarity=0.153  Sum_probs=68.8

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe-EEEcC----CccCcCC--
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS-VLTTG----VGTTTAG--  278 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~-~~~~~----~~~~~~g--  278 (345)
                      -+|+||+.+++.+.-++..|           |-.+.+||.||||+|||++++.+++.+.-. .+...    ......|  
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~-----------~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c   84 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMG-----------RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGEC   84 (397)
T ss_pred             hhccChHHHHHHHHHHHHhC-----------CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCC
Confidence            37899999999888888766           222359999999999999999999876321 00000    0000000  


Q ss_pred             -----------ceEEEEeecCe-e----E---eeec--eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         279 -----------LTVSALRENGE-W----H---LEAG--ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       279 -----------lt~~~~~~~~~-~----~---~~~G--~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                                 +..... ++.. .    .   .+.-  .-..++..+++|||+++|+.+.+++|+..||+
T Consensus        85 ~~c~~~~~~~~~n~~~~-~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEe  153 (397)
T PRK14955         85 ESCRDFDAGTSLNISEF-DAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEE  153 (397)
T ss_pred             HHHHHHhcCCCCCeEee-cccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhc
Confidence                       000000 0000 0    0   0000  01235678999999999999999999999997

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.40  E-value=4.1e-07  Score=90.43  Aligned_cols=112  Identities=16%  Similarity=0.166  Sum_probs=69.1

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC----eEEEcC---------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR----SVLTTG---------  271 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~---------  271 (345)
                      +.+++||+.+++.+.-++..|           |-..++||.||||+|||++++.+++.+.-    ...-+|         
T Consensus        12 f~dliGQe~vv~~L~~a~~~~-----------ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~   80 (491)
T PRK14964         12 FKDLVGQDVLVRILRNAFTLN-----------KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIK   80 (491)
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-----------CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHh
Confidence            357899999999888777766           22247999999999999999999985421    000000         


Q ss_pred             --CccCcCCceEEEEeecCee--Eee-ec-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         272 --VGTTTAGLTVSALRENGEW--HLE-AG-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       272 --~~~~~~glt~~~~~~~~~~--~~~-~G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        .......+.++..+.-++.  .++ .. .-..+...|++|||++.|+.+.+++|+..||+
T Consensus        81 ~~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEe  142 (491)
T PRK14964         81 NSNHPDVIEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEE  142 (491)
T ss_pred             ccCCCCEEEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhC
Confidence              0000001111100000000  000 00 00235678999999999999999999999997

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.40  E-value=4.7e-07  Score=93.03  Aligned_cols=111  Identities=22%  Similarity=0.218  Sum_probs=68.1

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC----------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT----------  275 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~----------  275 (345)
                      .+|+||+.+++.|.-++..|.           -.+-+||+|++|+|||++++.+++.+.-.....+....          
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-----------L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~   84 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-----------LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDE   84 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhc
Confidence            468999999999998887661           11235999999999999999999877421110110000          


Q ss_pred             --cCC---ceEEEEeecCee--Eeee--ceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         276 --TAG---LTVSALRENGEW--HLEA--GALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       276 --~~g---lt~~~~~~~~~~--~~~~--G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        ...   +.++..+.-++.  .++.  -........|++|||+|+|+...+++|+..||+
T Consensus        85 G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEE  145 (830)
T PRK07003         85 GRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEE  145 (830)
T ss_pred             CCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHh
Confidence              000   000000000000  0000  000123467999999999999999999999998

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.39  E-value=4.2e-07  Score=91.57  Aligned_cols=112  Identities=14%  Similarity=0.126  Sum_probs=68.9

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc----------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT----------  274 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~----------  274 (345)
                      +.+|+||+.++..+.-++..|           |..+.+||+||||+|||++++.+++.+.-.-...+...          
T Consensus        15 f~diiGq~~~v~~L~~~i~~~-----------rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~   83 (546)
T PRK14957         15 FAEVAGQQHALNSLVHALETQ-----------KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAIN   83 (546)
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-----------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHh
Confidence            346889999999888888765           22234889999999999999999986642100000000          


Q ss_pred             --CcCC---ceEEEEeecCe--eEee-ec-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         275 --TTAG---LTVSALRENGE--WHLE-AG-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       275 --~~~g---lt~~~~~~~~~--~~~~-~G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        ....   +.++....-.+  ..++ .- .-..++..|++|||+++|+...+++|+..||+
T Consensus        84 ~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEe  145 (546)
T PRK14957         84 NNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEE  145 (546)
T ss_pred             cCCCCceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhc
Confidence              0001   11100000000  0000 00 01234567999999999999999999999998

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.38  E-value=6.2e-07  Score=85.30  Aligned_cols=109  Identities=22%  Similarity=0.210  Sum_probs=66.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC------eEEEcCCccCcCC
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR------SVLTTGVGTTTAG  278 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~------~~~~~~~~~~~~g  278 (345)
                      ..++.|++.++..+.-++..+..            .|+||+||||||||++++++++.+..      .++.+........
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~~~~------------~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~   81 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDSPNL------------PHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQG   81 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhCCCC------------ceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcc
Confidence            34567999988888777665411            38999999999999999999886632      1222211000000


Q ss_pred             ceEEEEeecCeeE--ee--------------------ecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         279 LTVSALRENGEWH--LE--------------------AGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       279 lt~~~~~~~~~~~--~~--------------------~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        .........|.  +.                    ++.. ..++..+++|||++.++++.+..|++.||+
T Consensus        82 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~  151 (337)
T PRK12402         82 --KKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQ  151 (337)
T ss_pred             --hhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHh
Confidence              00000000000  00                    0101 124568999999999999999999999985

>KOG0737|consensus

Probab=98.38  E-value=1.2e-07  Score=89.15  Aligned_cols=110  Identities=30%  Similarity=0.355  Sum_probs=67.6

Q ss_pred             CcccccchHHHHHHHHHHhCCC--cccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGV--GRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVS  282 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~--~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~  282 (345)
                      +-+|.|.+.+|.++.....-..  +.....|...+..-.|||+||||||||.+|+++++.+.-.+...+.+    .+|  
T Consensus        91 f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s----~lt--  164 (386)
T KOG0737|consen   91 FDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVS----NLT--  164 (386)
T ss_pred             hhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeecc----ccc--
Confidence            3478888888776644433211  11222455567778999999999999999999999887544322221    111  


Q ss_pred             EEeecCeeEeeeceeee-----c---CCcEEEEcCCCCCCHHhHHHHHHHH
Q psy1366         283 ALRENGEWHLEAGALVL-----S---DGGVCCIDEFSSIKEHDRTSIHEAM  325 (345)
Q Consensus       283 ~~~~~~~~~~~~G~l~l-----a---~~gi~~IDEidk~~~~~~~~l~eam  325 (345)
                           ..|.-++-.++.     |   ...|+||||+|.+--.-+..=||||
T Consensus       165 -----~KWfgE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R~s~dHEa~  210 (386)
T KOG0737|consen  165 -----SKWFGEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQRRSTDHEAT  210 (386)
T ss_pred             -----hhhHHHHHHHHHHHHhhhhhcCcceeehhhHHHHHhhcccchHHHH
Confidence                 133333333322     2   2689999999986543345556665

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.38  E-value=5.9e-07  Score=90.89  Aligned_cols=115  Identities=16%  Similarity=0.185  Sum_probs=71.9

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC-e---EEEcCCcc-----
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR-S---VLTTGVGT-----  274 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~-~---~~~~~~~~-----  274 (345)
                      -+.+++||+.++..+.-++..|           |..+.+||.||||+|||++|+.+++.+.- .   ...+|.-.     
T Consensus        14 ~F~dIIGQe~iv~~L~~aI~~~-----------rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i   82 (605)
T PRK05896         14 NFKQIIGQELIKKILVNAILNN-----------KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESI   82 (605)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC-----------CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHH
Confidence            4457889999999888888765           22235999999999999999999987631 0   00011000     


Q ss_pred             ---CcCC---ceEEE------Eeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC---CEEEE
Q psy1366         275 ---TTAG---LTVSA------LREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ---QTISV  332 (345)
Q Consensus       275 ---~~~g---lt~~~------~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~---~~i~i  332 (345)
                         ....   +.++.      .|+- ..+...|   ..++.+|++|||++.|+...+++|+..||+   ..+-|
T Consensus        83 ~~~~h~DiieIdaas~igVd~IReIi~~~~~~P---~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfI  153 (605)
T PRK05896         83 NTNQSVDIVELDAASNNGVDEIRNIIDNINYLP---TTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFI  153 (605)
T ss_pred             HcCCCCceEEeccccccCHHHHHHHHHHHHhch---hhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEE
Confidence               0000   11100      0000 0000001   235678999999999999999999999995   45554

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.37  E-value=4.5e-07  Score=88.24  Aligned_cols=123  Identities=16%  Similarity=0.152  Sum_probs=72.5

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeE---EEcCC--------c
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSV---LTTGV--------G  273 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~---~~~~~--------~  273 (345)
                      +.+|+||+.++..+.-++..+.......+  .+-.+.+||.||||+|||++++.+++.+.-.-   ..+|.        .
T Consensus         4 f~~IiGq~~~~~~L~~~i~~~~~~~~~~~--~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~   81 (394)
T PRK07940          4 WDDLVGQEAVVAELRAAARAARADVAAAG--SGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLA   81 (394)
T ss_pred             hhhccChHHHHHHHHHHHHhccccccccC--CCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhc
Confidence            45789999999998888876632111111  11224599999999999999999987642110   00000        0


Q ss_pred             cCcCCceEE------E----Eeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC---CEEEE
Q psy1366         274 TTTAGLTVS------A----LREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ---QTISV  332 (345)
Q Consensus       274 ~~~~glt~~------~----~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~---~~i~i  332 (345)
                      .+...+...      .    +|+- ......|   ..++..|++|||+|+|++..+++|+..||+   .++.|
T Consensus        82 ~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p---~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fI  151 (394)
T PRK07940         82 GTHPDVRVVAPEGLSIGVDEVRELVTIAARRP---STGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWL  151 (394)
T ss_pred             CCCCCEEEeccccccCCHHHHHHHHHHHHhCc---ccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEE
Confidence            000011000      0    0100 0000011   224567999999999999999999999998   55544

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.36  E-value=1e-06  Score=88.24  Aligned_cols=113  Identities=16%  Similarity=0.204  Sum_probs=70.7

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc-cCcCCceE-
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG-TTTAGLTV-  281 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~-~~~~glt~-  281 (345)
                      -+-+++||+.+...+.-++..+           |-..++||.||||+|||++++.+++.+.-.....+.. ....|... 
T Consensus        19 ~f~dliGq~~vv~~L~~ai~~~-----------ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~   87 (507)
T PRK06645         19 NFAELQGQEVLVKVLSYTILND-----------RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTN   87 (507)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC-----------CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChH
Confidence            3456899999999888877766           2225899999999999999999998775321111100 00000000 


Q ss_pred             -EEEeec--Cee-Eeeec-----------------eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         282 -SALREN--GEW-HLEAG-----------------ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       282 -~~~~~~--~~~-~~~~G-----------------~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                       ....++  .++ .+.+.                 .-..++..|++|||++.++...+++|+..||+
T Consensus        88 C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEe  154 (507)
T PRK06645         88 CISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEE  154 (507)
T ss_pred             HHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhh
Confidence             000000  000 00000                 01235678999999999999999999999997

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=6e-07  Score=91.26  Aligned_cols=112  Identities=21%  Similarity=0.257  Sum_probs=69.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc--------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT--------  276 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~--------  276 (345)
                      +-+|+||+.++..|.-++..+           |-..++||.||||+|||++++.+++.+.-.-...+.....        
T Consensus        15 f~dIiGQe~v~~~L~~ai~~~-----------ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~   83 (624)
T PRK14959         15 FAEVAGQETVKAILSRAAQEN-----------RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVT   83 (624)
T ss_pred             HHHhcCCHHHHHHHHHHHHcC-----------CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHh
Confidence            346789999999888888765           2225889999999999999999998774211000100000        


Q ss_pred             CC--ceEEEEeecCeeEee--------ec-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         277 AG--LTVSALRENGEWHLE--------AG-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       277 ~g--lt~~~~~~~~~~~~~--------~G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .|  .............++        .. .-..+...|++|||+++|+.+.+++|+..||+
T Consensus        84 ~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEE  145 (624)
T PRK14959         84 QGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEE  145 (624)
T ss_pred             cCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhc
Confidence            00  000000000000000        00 00224567999999999999999999999996

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.35  E-value=7.5e-07  Score=88.68  Aligned_cols=92  Identities=21%  Similarity=0.336  Sum_probs=64.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe---EEEcCCccCcCC-----ceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS---VLTTGVGTTTAG-----LTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~~~~~~~~~g-----lt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .++++.|++||||+.++++++...++.   ++..........     ++.. .+.  .+......|.+..|++|++||||
T Consensus       158 ~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~~~~lfg~-~~~~~~~~~~~~~g~~~~a~~gtl~l~e  236 (463)
T TIGR01818       158 ITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLIESELFGH-EKGAFTGANTRRQGRFEQADGGTLFLDE  236 (463)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHHHHHhcCC-CCCCCCCcccCCCCcEEECCCCeEEEEc
Confidence            699999999999999999999988752   222211111000     1000 000  01112246778899999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~i  332 (345)
                      ++.++.+.|..|+++++++.+.-
T Consensus       237 i~~l~~~~q~~ll~~l~~~~~~~  259 (463)
T TIGR01818       237 IGDMPLDAQTRLLRVLADGEFYR  259 (463)
T ss_pred             hhhCCHHHHHHHHHHHhcCcEEE
Confidence            99999999999999999988754

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.35  E-value=5.5e-07  Score=91.37  Aligned_cols=109  Identities=16%  Similarity=0.180  Sum_probs=68.5

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeE--EEcCCccCcC-----
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSV--LTTGVGTTTA-----  277 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~--~~~~~~~~~~-----  277 (345)
                      +.+|+||+.+++.|.-++..|.           -.+-+||.|++|+|||++++.+++.+.-.-  -..+..+...     
T Consensus        15 FddVIGQe~vv~~L~~al~~gR-----------LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~s   83 (700)
T PRK12323         15 FTTLVGQEHVVRALTHALEQQR-----------LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRA   83 (700)
T ss_pred             HHHHcCcHHHHHHHHHHHHhCC-----------CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHH
Confidence            3578999999999998888762           112359999999999999999998774210  0000000000     


Q ss_pred             -------------CceEEEEeecC------ee-EeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         278 -------------GLTVSALRENG------EW-HLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       278 -------------glt~~~~~~~~------~~-~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                                   .+.++..+.-+      ++ .+.+   ......|++|||+|+|+...+++|+..||+
T Consensus        84 C~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P---~~gr~KViIIDEah~Ls~~AaNALLKTLEE  150 (700)
T PRK12323         84 CTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAP---TAGRFKVYMIDEVHMLTNHAFNAMLKTLEE  150 (700)
T ss_pred             HHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhch---hcCCceEEEEEChHhcCHHHHHHHHHhhcc
Confidence                         01111000000      00 0000   123357999999999999999999999998

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.34  E-value=1.8e-06  Score=82.87  Aligned_cols=113  Identities=14%  Similarity=0.130  Sum_probs=68.9

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE----EcCC-------
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL----TTGV-------  272 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~----~~~~-------  272 (345)
                      ...++.|++.++..+.-++..|.           -...+||+||||+|||++++.+++.+.-...    .+|.       
T Consensus        12 ~~~~iig~~~~~~~l~~~~~~~~-----------~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~   80 (355)
T TIGR02397        12 TFEDVIGQEHIVQTLKNAIKNGR-----------IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEI   80 (355)
T ss_pred             cHhhccCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHH
Confidence            44578999999998888887662           1135899999999999999999987642200    0000       


Q ss_pred             -ccCcCCc---eEEEEee--c-CeeEeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         273 -GTTTAGL---TVSALRE--N-GEWHLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       273 -~~~~~gl---t~~~~~~--~-~~~~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                       ......+   .+.....  . .+..-..... ..++..+++|||+|.++...+++|+..||+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~  143 (355)
T TIGR02397        81 NSGSSLDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEE  143 (355)
T ss_pred             hcCCCCCEEEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhC
Confidence             0000000   0000000  0 0000000111 235567999999999999999999999986

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.33  E-value=7.3e-07  Score=91.34  Aligned_cols=111  Identities=18%  Similarity=0.225  Sum_probs=69.0

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeE-EEcCCccC--------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSV-LTTGVGTT--------  275 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~-~~~~~~~~--------  275 (345)
                      +.+|+||+.++..+.-++..|.           -...+||+||||+|||++++.+++.+.-.. ...+....        
T Consensus        15 ~~eiiGq~~~~~~L~~~i~~~~-----------i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i   83 (585)
T PRK14950         15 FAELVGQEHVVQTLRNAIAEGR-----------VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAI   83 (585)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCC-----------CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHH
Confidence            3478999999999988887661           113579999999999999999998764100 00000000        


Q ss_pred             cCCceEEEE-eec-C--------ee--EeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         276 TAGLTVSAL-REN-G--------EW--HLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       276 ~~glt~~~~-~~~-~--------~~--~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ..|...-+. -+. .        +.  .+... -..++..|++|||+++|+.+.+++|+..||+
T Consensus        84 ~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~-p~~~~~kVvIIDEa~~L~~~a~naLLk~LEe  146 (585)
T PRK14950         84 AEGSAVDVIEMDAASHTSVDDAREIIERVQFR-PALARYKVYIIDEVHMLSTAAFNALLKTLEE  146 (585)
T ss_pred             hcCCCCeEEEEeccccCCHHHHHHHHHHHhhC-cccCCeEEEEEeChHhCCHHHHHHHHHHHhc
Confidence            000000000 000 0        00  00000 1236678999999999999999999999997

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.33  E-value=9.8e-07  Score=89.15  Aligned_cols=108  Identities=16%  Similarity=0.157  Sum_probs=67.9

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc---------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT---------  276 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~---------  276 (345)
                      .+|+||+.+++.+.-++..+.           -.+.+||+||||+|||++++.+++.+.-.....+.+...         
T Consensus        16 ~divGq~~v~~~L~~~i~~~~-----------~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~   84 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQR-----------LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDS   84 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----------CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhc
Confidence            468899999999988887652           112368999999999999999998764211001100000         


Q ss_pred             ---CC---ceEEEE------eec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         277 ---AG---LTVSAL------REN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       277 ---~g---lt~~~~------~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                         ..   +.++..      |+- ......|   ..++..|++|||+|+|+...+++|+..||+
T Consensus        85 ~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p---~~~~~kVvIIDEad~ls~~a~naLLK~LEe  145 (527)
T PRK14969         85 GRFVDLIEVDAASNTQVDAMRELLDNAQYAP---TRGRFKVYIIDEVHMLSKSAFNAMLKTLEE  145 (527)
T ss_pred             CCCCceeEeeccccCCHHHHHHHHHHHhhCc---ccCCceEEEEcCcccCCHHHHHHHHHHHhC
Confidence               00   000000      000 0000001   124567999999999999999999999998

>KOG0733|consensus

Probab=98.32  E-value=1.3e-07  Score=93.72  Aligned_cols=87  Identities=21%  Similarity=0.270  Sum_probs=54.4

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHH
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEH  316 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~  316 (345)
                      +..--+||.||||||||.||+++|..+.-+++.........|......+.-.+..-+|   ......|+||||||-+.+.
T Consensus       221 ~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSGESEkkiRelF~~A---~~~aPcivFiDeIDAI~pk  297 (802)
T KOG0733|consen  221 RPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGESEKKIRELFDQA---KSNAPCIVFIDEIDAITPK  297 (802)
T ss_pred             CCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCcccHHHHHHHHHHH---hccCCeEEEeecccccccc
Confidence            3445799999999999999999999998877655444444444332211111111111   1223689999999998775


Q ss_pred             hHHHHHHHHhC
Q psy1366         317 DRTSIHEAMEQ  327 (345)
Q Consensus       317 ~~~~l~eame~  327 (345)
                      -. .-.+-||+
T Consensus       298 Re-~aqreMEr  307 (802)
T KOG0733|consen  298 RE-EAQREMER  307 (802)
T ss_pred             hh-hHHHHHHH
Confidence            33 33444444

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.31  E-value=7.1e-07  Score=91.39  Aligned_cols=109  Identities=20%  Similarity=0.209  Sum_probs=69.4

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeec-eeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC-------
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESH-LLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT-------  275 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~-iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~-------  275 (345)
                      -+.+|+||+.++..+.-++..|.           - .| +||+|++|+|||++++.+++.+.-.....+....       
T Consensus        14 ~f~divGQe~vv~~L~~~l~~~r-----------l-~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~   81 (647)
T PRK07994         14 TFAEVVGQEHVLTALANALDLGR-----------L-HHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCRE   81 (647)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-----------C-CeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHH
Confidence            34578999999999998888762           1 35 5899999999999999999877532100000000       


Q ss_pred             -----cCC---ceEEE------Eeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         276 -----TAG---LTVSA------LREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       276 -----~~g---lt~~~------~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                           ...   +.++.      .|+- ......+   ......|++|||+++|+...+++|+..||+
T Consensus        82 i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p---~~g~~KV~IIDEah~Ls~~a~NALLKtLEE  145 (647)
T PRK07994         82 IEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAP---ARGRFKVYLIDEVHMLSRHSFNALLKTLEE  145 (647)
T ss_pred             HHcCCCCCceeecccccCCHHHHHHHHHHHHhhh---hcCCCEEEEEechHhCCHHHHHHHHHHHHc
Confidence                 000   11110      0000 0000001   123456999999999999999999999998

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.30  E-value=1.9e-07  Score=90.96  Aligned_cols=29  Identities=31%  Similarity=0.503  Sum_probs=25.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .++||+||||||||.+++++++.+...++
T Consensus       166 ~gvLL~GppGtGKT~lAkaia~~~~~~~i  194 (389)
T PRK03992        166 KGVLLYGPPGTGKTLLAKAVAHETNATFI  194 (389)
T ss_pred             CceEEECCCCCChHHHHHHHHHHhCCCEE
Confidence            47999999999999999999998876544

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.29  E-value=1.8e-06  Score=91.13  Aligned_cols=109  Identities=22%  Similarity=0.240  Sum_probs=68.4

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeec-eeeeCCCCChHHHHHHHHHhhCCCe----EEEcCC--------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESH-LLLVGDPGTGKSEILKFAKRMSPRS----VLTTGV--------  272 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~-iLl~G~pGtGKs~l~~~i~~~~~~~----~~~~~~--------  272 (345)
                      .+|+||+.+++.|.-++..+           |- .| +||.|++|+|||++++.+++.+.=.    ..-+|.        
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~-----------ri-~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~   82 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSG-----------RI-NHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALA   82 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhC-----------CC-CceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHH
Confidence            46789999999988888766           22 25 7999999999999999999877410    000000        


Q ss_pred             ccCcCCceEEEEeecCe------e-Eee--e-ceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         273 GTTTAGLTVSALRENGE------W-HLE--A-GALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       273 ~~~~~glt~~~~~~~~~------~-~~~--~-G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ......+..... +...      . .+.  . -.-......|++|||+|+|+...+++|+..||+
T Consensus        83 ~g~~~~~dv~ei-daas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEE  146 (824)
T PRK07764         83 PGGPGSLDVTEI-DAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEE  146 (824)
T ss_pred             cCCCCCCcEEEe-cccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhC
Confidence            000000111100 1000      0 000  0 001234578999999999999999999999996

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=98.29  E-value=1e-06  Score=87.09  Aligned_cols=91  Identities=24%  Similarity=0.375  Sum_probs=63.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe---EEEcCCccCcCC-----ceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS---VLTTGVGTTTAG-----LTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~~~~~~~~~g-----lt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .++++.|++||||+.++++++..+++.   ++..........     |+.. .+.  .+......|.+..|++|++||||
T Consensus       163 ~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~~~~~~~lfg~-~~~~~~~~~~~~~g~~~~a~~gtl~lde  241 (441)
T PRK10365        163 ATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLESELFGH-EKGAFTGADKRREGRFVEADGGTLFLDE  241 (441)
T ss_pred             CeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCHHHHHHHhcCC-CCCCcCCCCcCCCCceeECCCCEEEEec
Confidence            589999999999999999999888752   222111111000     1000 000  01112246888999999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~  331 (345)
                      ++.|+...|..|+.+++.+.+.
T Consensus       242 i~~l~~~~q~~l~~~l~~~~~~  263 (441)
T PRK10365        242 IGDISPMMQVRLLRAIQEREVQ  263 (441)
T ss_pred             cccCCHHHHHHHHHHHccCcEE
Confidence            9999999999999999998864

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.29  E-value=1.4e-06  Score=89.35  Aligned_cols=110  Identities=23%  Similarity=0.236  Sum_probs=68.6

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC----------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT----------  275 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~----------  275 (345)
                      .+|+|++.+++.|.-++..+           |-...+||+|++|+|||++++.+++.+.-.....+....          
T Consensus        16 ddIIGQe~vv~~L~~ai~~~-----------rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~   84 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEG-----------RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDA   84 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcC-----------CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhc
Confidence            46899999999998888866           222358999999999999999999876421111110000          


Q ss_pred             --cCCc---eEEEEee--c-CeeEeee-c-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         276 --TAGL---TVSALRE--N-GEWHLEA-G-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       276 --~~gl---t~~~~~~--~-~~~~~~~-G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        ...+   .++....  . .+. ++. - .-..+...|++|||+++|+...+++|+..||+
T Consensus        85 g~~~DvlEidaAs~~gVd~IRel-le~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEE  145 (709)
T PRK08691         85 GRYVDLLEIDAASNTGIDNIREV-LENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEE  145 (709)
T ss_pred             cCccceEEEeccccCCHHHHHHH-HHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHh
Confidence              0000   0000000  0 000 000 0 00224567999999999999999999999996

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=2.3e-06  Score=82.71  Aligned_cols=107  Identities=12%  Similarity=0.161  Sum_probs=68.4

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR  285 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~  285 (345)
                      .++.||+.++..+.-.+-.|.           -..++||+||||+|||++++.+++.+.......    ...+.......
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-----------~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~----~~~~~~~~~~~   81 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-----------LAQALLFCGPRGVGKTTCARILARKINQPGYDD----PNEDFSFNIFE   81 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC----CCCCCCcceEE
Confidence            467899999998888887662           124899999999999999999998764311100    00011000000


Q ss_pred             -ec-C-----ee---Eeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         286 -EN-G-----EW---HLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       286 -~~-~-----~~---~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                       +. +     ..   .-++... ..++..+++|||++.+....+++|+..||+
T Consensus        82 l~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~  134 (367)
T PRK14970         82 LDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEE  134 (367)
T ss_pred             eccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhC
Confidence             00 0     00   0000011 134567999999999999999999999987

>KOG0734|consensus

Probab=98.29  E-value=2.6e-07  Score=90.31  Aligned_cols=102  Identities=22%  Similarity=0.254  Sum_probs=58.1

Q ss_pred             cCcccccchHHHHHHHHHHh--CCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc-C--cCC
Q psy1366         204 ICPAIYGLYLVKLCLAVVLA--GGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT-T--TAG  278 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~--~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~-~--~~g  278 (345)
                      -+.++.|.|++|.-+.-...  ....+...-|.++.  --|||+||||||||.|+|++|..+.-++|...... .  -+|
T Consensus       302 ~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLP--KGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VG  379 (752)
T KOG0734|consen  302 TFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLP--KGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVG  379 (752)
T ss_pred             ccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCC--CceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhc
Confidence            36788899999876644321  11111112222222  26999999999999999999999887776442210 1  112


Q ss_pred             ceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCC
Q psy1366         279 LTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSI  313 (345)
Q Consensus       279 lt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~  313 (345)
                      ..|..+|+     +-+-|-. ....|+||||||..
T Consensus       380 vGArRVRd-----LF~aAk~-~APcIIFIDEiDav  408 (752)
T KOG0734|consen  380 VGARRVRD-----LFAAAKA-RAPCIIFIDEIDAV  408 (752)
T ss_pred             ccHHHHHH-----HHHHHHh-cCCeEEEEechhhh
Confidence            21211121     0000111 12689999999964

>KOG0738|consensus

Probab=98.28  E-value=2.9e-07  Score=87.01  Aligned_cols=64  Identities=25%  Similarity=0.236  Sum_probs=42.8

Q ss_pred             cccccchHHHHHHHHHHhCCCc-ccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVG-RGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~-~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .+|.|.+.+|+-|.-|.+-... .....|.+ |..-.|||+||||||||.|||+++......+|..
T Consensus       212 ~DIagl~~AK~lL~EAVvlPi~mPe~F~Gir-rPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNV  276 (491)
T KOG0738|consen  212 DDIAGLHEAKKLLKEAVVLPIWMPEFFKGIR-RPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNV  276 (491)
T ss_pred             HhhcchHHHHHHHHHHHhhhhhhHHHHhhcc-cccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEe
Confidence            3678887777666555442211 11112222 4445899999999999999999999887666544

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.27  E-value=3.2e-06  Score=79.74  Aligned_cols=106  Identities=19%  Similarity=0.216  Sum_probs=64.7

Q ss_pred             ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeE----EEcCCccCcCCceEE
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSV----LTTGVGTTTAGLTVS  282 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~----~~~~~~~~~~glt~~  282 (345)
                      +++|++.++..+.-++-.+..            .|+||+|+||+|||++++.+++.+....    +..-..+...+..  
T Consensus        18 ~~~g~~~~~~~l~~~i~~~~~------------~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~--   83 (319)
T PRK00440         18 EIVGQEEIVERLKSYVKEKNM------------PHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGID--   83 (319)
T ss_pred             HhcCcHHHHHHHHHHHhCCCC------------CeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchH--
Confidence            467999888888877765421            3799999999999999999988753211    1100000000000  


Q ss_pred             EEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         283 ALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       283 ~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ..++. .++. ....+..++..+++|||++.+..+.+..|+..||+
T Consensus        84 ~~~~~i~~~~-~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~  128 (319)
T PRK00440         84 VIRNKIKEFA-RTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEM  128 (319)
T ss_pred             HHHHHHHHHH-hcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhc
Confidence            00000 0000 00011123467999999999999989999999985

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=2.1e-06  Score=87.25  Aligned_cols=110  Identities=21%  Similarity=0.216  Sum_probs=69.2

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeec-eeeeCCCCChHHHHHHHHHhhCCCeE----EEcCC-------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESH-LLLVGDPGTGKSEILKFAKRMSPRSV----LTTGV-------  272 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~-iLl~G~pGtGKs~l~~~i~~~~~~~~----~~~~~-------  272 (345)
                      +.+|+||+.+++.+.-++..|.-            .| +||.||+|||||++++.+++.+.-.-    .-+|.       
T Consensus        12 f~eivGq~~i~~~L~~~i~~~r~------------~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i   79 (584)
T PRK14952         12 FAEVVGQEHVTEPLSSALDAGRI------------NHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVAL   79 (584)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCC------------CeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHh
Confidence            35789999999999888887621            36 69999999999999999998764110    00000       


Q ss_pred             ccCcCC-ceEEEEeec----CeeEe-----ee-ceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         273 GTTTAG-LTVSALREN----GEWHL-----EA-GALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       273 ~~~~~g-lt~~~~~~~----~~~~~-----~~-G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ..+..+ +.... -+.    +--.+     .. -.-..++..|++|||++.|+...+++|+..||+
T Consensus        80 ~~~~~~~~dvie-idaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEE  144 (584)
T PRK14952         80 APNGPGSIDVVE-LDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEE  144 (584)
T ss_pred             hcccCCCceEEE-eccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhc
Confidence            000000 11100 000    00000     00 001235678999999999999999999999998

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=1.5e-06  Score=88.78  Aligned_cols=111  Identities=14%  Similarity=0.130  Sum_probs=68.7

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc------------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG------------  273 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~------------  273 (345)
                      -+|+|++.++..+.-++..|.           -.+.+||+||+|+|||++++.+++.+.-.-...+..            
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~-----------~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~   84 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGR-----------VAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITE   84 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhc
Confidence            478999999999998887662           113469999999999999999998764210000000            


Q ss_pred             cCcCCc---eEEEE---eecCeeEeeec-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         274 TTTAGL---TVSAL---RENGEWHLEAG-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       274 ~~~~gl---t~~~~---~~~~~~~~~~G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .+...+   .++..   .+-.+..-... .-..++..|++|||+++|+...+++|+..||+
T Consensus        85 g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEe  145 (576)
T PRK14965         85 GRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEE  145 (576)
T ss_pred             CCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHc
Confidence            000000   00000   00000000000 00235678999999999999999999999997

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.27  E-value=2.3e-06  Score=85.96  Aligned_cols=110  Identities=17%  Similarity=0.210  Sum_probs=68.1

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeec-eeeeCCCCChHHHHHHHHHhhCCC----eEEEcCC----ccC
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESH-LLLVGDPGTGKSEILKFAKRMSPR----SVLTTGV----GTT  275 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~-iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~~----~~~  275 (345)
                      +-+++||+.++..+..++..|.-            .| +||+||||+|||++++.+++.+.-    ....++.    ...
T Consensus        13 fdeiiGqe~v~~~L~~~I~~grl------------~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~   80 (535)
T PRK08451         13 FDELIGQESVSKTLSLALDNNRL------------AHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSA   80 (535)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCC------------CeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHH
Confidence            34689999999999988877621            25 489999999999999999987621    1000000    000


Q ss_pred             cCCc-------eEEEEe--ec-CeeEeeec--eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         276 TAGL-------TVSALR--EN-GEWHLEAG--ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       276 ~~gl-------t~~~~~--~~-~~~~~~~G--~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ..|.       .++..+  +. .+. ++..  .-..+...|++|||++.|+.+.+++|+..||+
T Consensus        81 ~~~~h~dv~eldaas~~gId~IRel-ie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEE  143 (535)
T PRK08451         81 LENRHIDIIEMDAASNRGIDDIREL-IEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEE  143 (535)
T ss_pred             hhcCCCeEEEeccccccCHHHHHHH-HHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhh
Confidence            0000       000000  00 000 0000  01225578999999999999999999999997

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.26  E-value=1.6e-06  Score=88.28  Aligned_cols=112  Identities=15%  Similarity=0.141  Sum_probs=69.1

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC---------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT---------  275 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~---------  275 (345)
                      +-++.||+.++..+.-++..+.           -.+.+||+||+|||||++++.+++.+.-.-...+.+..         
T Consensus        15 f~~viGq~~v~~~L~~~i~~~~-----------~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~   83 (559)
T PRK05563         15 FEDVVGQEHITKTLKNAIKQGK-----------ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAIT   83 (559)
T ss_pred             HHhccCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHh
Confidence            3478999999999988888662           12347899999999999999999876421100110000         


Q ss_pred             ---cCC---ceEEEEee-c--CeeEeeec-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         276 ---TAG---LTVSALRE-N--GEWHLEAG-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       276 ---~~g---lt~~~~~~-~--~~~~~~~G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                         ...   +.++.... +  .+..-... +-..++..|++|||+++|....+++|+..||+
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEe  145 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEE  145 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcC
Confidence               000   01100000 0  00000000 01235678999999999999999999999997

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.25  E-value=1.8e-07  Score=93.18  Aligned_cols=63  Identities=29%  Similarity=0.179  Sum_probs=40.4

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .+|.|++.+|.-+......-.......|  ++..-.|||+||||||||.++++++..+..+++..
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~g--l~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l  290 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYG--LPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRL  290 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcC--CCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEE
Confidence            4688999998766532110000000001  11223799999999999999999999988776544

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.25  E-value=8.5e-07  Score=83.83  Aligned_cols=103  Identities=20%  Similarity=0.260  Sum_probs=64.2

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceee-eCCCCChHHHHHHHHHhhCCCeE-EEcCCccCcCCceEEE
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLL-VGDPGTGKSEILKFAKRMSPRSV-LTTGVGTTTAGLTVSA  283 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl-~G~pGtGKs~l~~~i~~~~~~~~-~~~~~~~~~~glt~~~  283 (345)
                      -++.|++.++..+.-.+-.|..            .|++| +||||+|||++++++++.....+ +.+...   ..  ...
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~~------------~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~---~~--~~~   83 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGRI------------PNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD---CR--IDF   83 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCC------------CeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc---cc--HHH
Confidence            3678999988887777655421            25555 89999999999999998765433 222211   00  000


Q ss_pred             Eeec-CeeEeeeceeeecCCcEEEEcCCCCC-CHHhHHHHHHHHhC
Q psy1366         284 LREN-GEWHLEAGALVLSDGGVCCIDEFSSI-KEHDRTSIHEAMEQ  327 (345)
Q Consensus       284 ~~~~-~~~~~~~G~l~la~~gi~~IDEidk~-~~~~~~~l~eame~  327 (345)
                      .++. .++. .... ..++..+++|||+|.+ ..+.+..|...||+
T Consensus        84 i~~~l~~~~-~~~~-~~~~~~vliiDe~d~l~~~~~~~~L~~~le~  127 (316)
T PHA02544         84 VRNRLTRFA-STVS-LTGGGKVIIIDEFDRLGLADAQRHLRSFMEA  127 (316)
T ss_pred             HHHHHHHHH-Hhhc-ccCCCeEEEEECcccccCHHHHHHHHHHHHh
Confidence            0110 0110 0000 1245789999999999 66778888888986

>KOG0736|consensus

Probab=98.24  E-value=1.6e-06  Score=88.13  Aligned_cols=102  Identities=25%  Similarity=0.253  Sum_probs=57.4

Q ss_pred             ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc----CCceEE
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT----AGLTVS  282 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~----~glt~~  282 (345)
                      +|-|.+.+|.-|+-.+--.-.-..=-+...|...-|||+||||||||.+||++|..+.-++...- +...    .|-.-.
T Consensus       673 DVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVK-GPELLNMYVGqSE~  751 (953)
T KOG0736|consen  673 DVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVK-GPELLNMYVGQSEE  751 (953)
T ss_pred             cccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeEEeec-CHHHHHHHhcchHH
Confidence            46678899988776543211100001122344458999999999999999999988765543221 1000    000000


Q ss_pred             EEeecCeeEeeeceeeecCCcEEEEcCCCCCCH
Q psy1366         283 ALRENGEWHLEAGALVLSDGGVCCIDEFSSIKE  315 (345)
Q Consensus       283 ~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~  315 (345)
                      -+|+  -|   . ..-.|...|+|+||+|.+.+
T Consensus       752 NVR~--VF---e-rAR~A~PCVIFFDELDSlAP  778 (953)
T KOG0736|consen  752 NVRE--VF---E-RARSAAPCVIFFDELDSLAP  778 (953)
T ss_pred             HHHH--HH---H-HhhccCCeEEEeccccccCc
Confidence            0010  00   0 01235689999999998765

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.24  E-value=1.9e-06  Score=88.43  Aligned_cols=112  Identities=21%  Similarity=0.206  Sum_probs=70.2

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCC-----
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAG-----  278 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~g-----  278 (345)
                      .+.++.|++.++..+.-++..+           |-..++||+||||+|||++++.+++.+.-... .+......|     
T Consensus        14 ~f~~liGq~~i~~~L~~~l~~~-----------rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~-~~~~~~~Cg~C~~C   81 (620)
T PRK14948         14 RFDELVGQEAIATTLKNALISN-----------RIAPAYLFTGPRGTGKTSSARILAKSLNCLNS-DKPTPEPCGKCELC   81 (620)
T ss_pred             cHhhccChHHHHHHHHHHHHcC-----------CCCceEEEECCCCCChHHHHHHHHHHhcCCCc-CCCCCCCCcccHHH
Confidence            3456889999999888888765           22258999999999999999999988743110 000000001     


Q ss_pred             --------ceEEEEee---cC-----eeEeeec-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         279 --------LTVSALRE---NG-----EWHLEAG-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       279 --------lt~~~~~~---~~-----~~~~~~G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                              +.......   .+     +..-... .-+.+...|++|||+|+|+.+.+++|+..||+
T Consensus        82 ~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEe  147 (620)
T PRK14948         82 RAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEE  147 (620)
T ss_pred             HHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhc
Confidence                    00000000   00     0000000 00235567999999999999999999999997

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

Probab=98.21  E-value=1.8e-06  Score=90.71  Aligned_cols=111  Identities=20%  Similarity=0.255  Sum_probs=65.3

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC----------CCeEEEcCCccC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS----------PRSVLTTGVGTT  275 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~----------~~~~~~~~~~~~  275 (345)
                      ..++|++..-..++-.|...            ...|++|+||||||||.+++.+++.+          ...++....++.
T Consensus       182 ~~~igr~~ei~~~~~~L~~~------------~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l  249 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRR------------KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSL  249 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcC------------CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHH
Confidence            35789976655555555433            11499999999999999999999865          122222211111


Q ss_pred             cCCceEEEEeecCeeEeee-cee---eecCCcEEEEcCCCCCC---------HHhHHHHHHHHhCCEEEEe
Q psy1366         276 TAGLTVSALRENGEWHLEA-GAL---VLSDGGVCCIDEFSSIK---------EHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       276 ~~glt~~~~~~~~~~~~~~-G~l---~la~~gi~~IDEidk~~---------~~~~~~l~eame~~~i~i~  333 (345)
                      .+|..   .+  |+|.-.- ..+   ....+.|+||||++.+-         .+.++.|..+|+.+.|.+-
T Consensus       250 ~a~~~---~~--g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g~i~~I  315 (731)
T TIGR02639       250 LAGTK---YR--GDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSGKLRCI  315 (731)
T ss_pred             hhhcc---cc--chHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCCCeEEE
Confidence            11100   00  1111000 001   11235799999999773         3456788999999988764

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=2.3e-06  Score=85.81  Aligned_cols=110  Identities=16%  Similarity=0.184  Sum_probs=67.7

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeece-eeeCCCCChHHHHHHHHHhhCCC--eEE-EcCC---------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHL-LLVGDPGTGKSEILKFAKRMSPR--SVL-TTGV---------  272 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~i-Ll~G~pGtGKs~l~~~i~~~~~~--~~~-~~~~---------  272 (345)
                      .+|+||+.++..+.-++..+.-            .|. ||+||||+|||++++++++.+.-  ... .+|.         
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l------------~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~   81 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRL------------GHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRR   81 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCC------------CeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhc
Confidence            4689999999988888776521            255 99999999999999999987631  000 0000         


Q ss_pred             ccC--cCCceEEEEee--c-CeeEeeece-eeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         273 GTT--TAGLTVSALRE--N-GEWHLEAGA-LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       273 ~~~--~~glt~~~~~~--~-~~~~~~~G~-l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      +.+  ...+.++....  . .+..-.... -..++..+++|||++.++.+.+++|+..||+
T Consensus        82 ~~h~dv~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEe  142 (504)
T PRK14963         82 GAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEE  142 (504)
T ss_pred             CCCCceEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHh
Confidence            000  00011110000  0 000000000 1235678999999999999999999999988

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.20  E-value=1.9e-06  Score=78.98  Aligned_cols=93  Identities=24%  Similarity=0.374  Sum_probs=62.9

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhC-------CCeEEEcCC---ccCc-CCceEEEEee--cCeeEeeeceeeecCCc
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMS-------PRSVLTTGV---GTTT-AGLTVSALRE--NGEWHLEAGALVLSDGG  303 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~-------~~~~~~~~~---~~~~-~glt~~~~~~--~~~~~~~~G~l~la~~g  303 (345)
                      |+..+|||.||.|.|||.|++.+.++-       ++-+.+.-.   +.++ ..|+.-+ +.  +|.-.-.+|.|-.||||
T Consensus       206 rsr~p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghv-kgaftga~~~r~gllrsadgg  284 (531)
T COG4650         206 RSRAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHV-KGAFTGARESREGLLRSADGG  284 (531)
T ss_pred             hccCCeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhh-ccccccchhhhhhhhccCCCc
Confidence            445699999999999999999997642       333322211   0000 0011100 10  12223457889999999


Q ss_pred             EEEEcCCCCCCHHhHHHHHHHHhCCEE
Q psy1366         304 VCCIDEFSSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       304 i~~IDEidk~~~~~~~~l~eame~~~i  330 (345)
                      .+|+|||..+..+.|.-|+.|+|+...
T Consensus       285 mlfldeigelgadeqamllkaieekrf  311 (531)
T COG4650         285 MLFLDEIGELGADEQAMLLKAIEEKRF  311 (531)
T ss_pred             eEehHhhhhcCccHHHHHHHHHHhhcc
Confidence            999999999999999999999998654

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

Probab=98.19  E-value=4.2e-06  Score=81.87  Aligned_cols=105  Identities=15%  Similarity=0.146  Sum_probs=65.0

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe-----E-EEc--CCccCc-
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS-----V-LTT--GVGTTT-  276 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~-----~-~~~--~~~~~~-  276 (345)
                      -++++.+..-..++.+|..+              -|++|.|+||||||++++.++..+...     + .+.  ...+.. 
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--------------~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeD  240 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--------------KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYED  240 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--------------CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHH
Confidence            45666666666677777654              399999999999999999999876421     1 000  000000 


Q ss_pred             --CCceEEEEeecCeeEeeecee----eec-----CCcEEEEcCCCCCCHHh-HHHHHHHHhCC
Q psy1366         277 --AGLTVSALRENGEWHLEAGAL----VLS-----DGGVCCIDEFSSIKEHD-RTSIHEAMEQQ  328 (345)
Q Consensus       277 --~glt~~~~~~~~~~~~~~G~l----~la-----~~gi~~IDEidk~~~~~-~~~l~eame~~  328 (345)
                        .|+..    ....+...+|.+    ..|     .+.+++|||+|+.+.+. ...++.+||.+
T Consensus       241 FI~G~rP----~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~kiFGel~~lLE~~  300 (459)
T PRK11331        241 FIQGYRP----NGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLMEHD  300 (459)
T ss_pred             HhcccCC----CCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHHHhhhhhhhhcccc
Confidence              01100    012345556643    111     35799999999999654 66778888853

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.18  E-value=4e-06  Score=86.63  Aligned_cols=111  Identities=18%  Similarity=0.196  Sum_probs=68.2

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC-CccC----cCCce
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG-VGTT----TAGLT  280 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~-~~~~----~~glt  280 (345)
                      .+|.||+.+++.+.-++..|           |..+.+||+||+|+|||++|+.+++.+.-.-.... ....    ..|..
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~-----------rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~   86 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSN-----------KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNS   86 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcC-----------CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCC
Confidence            46889999999998888766           22234699999999999999999987642110000 0000    00000


Q ss_pred             EEEE-eec----C-----eeEeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         281 VSAL-REN----G-----EWHLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       281 ~~~~-~~~----~-----~~~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .-+. -++    +     +..-....+ ..++..|++|||++.|....+++|+..||+
T Consensus        87 ~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEE  144 (725)
T PRK07133         87 LDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEE  144 (725)
T ss_pred             CcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhc
Confidence            0000 000    0     000000001 224568999999999999999999999997

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.17  E-value=5.7e-06  Score=84.07  Aligned_cols=110  Identities=15%  Similarity=0.149  Sum_probs=69.2

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE----EcCC------ccC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL----TTGV------GTT  275 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~----~~~~------~~~  275 (345)
                      -+|+||+.++..+.-++..|.           -.+.+||+||||+|||++++.+++.+.-.-.    .+|.      -..
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~-----------i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~   84 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNK-----------IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDN   84 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHc
Confidence            478999999999888887662           1135999999999999999999987642100    0000      000


Q ss_pred             cCCceEEEEeecC------ee-Eee--ec-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         276 TAGLTVSALRENG------EW-HLE--AG-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       276 ~~glt~~~~~~~~------~~-~~~--~G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ...+..... ++.      +. .+.  .- .-..++..|++|||++.|+...+++|+..||+
T Consensus        85 ~~~~dv~~i-dgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEe  145 (563)
T PRK06647         85 DNSLDVIEI-DGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEE  145 (563)
T ss_pred             CCCCCeEEe-cCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhcc
Confidence            000110000 000      00 000  00 00235678999999999999999999999997

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.17  E-value=1.9e-06  Score=88.01  Aligned_cols=108  Identities=18%  Similarity=0.186  Sum_probs=67.7

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeE--EEcCCccCc-------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSV--LTTGVGTTT-------  276 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~--~~~~~~~~~-------  276 (345)
                      -+|+||+.+...|.-++..+.           -.+-+||+|++|+|||++++.+++.+.-.-  -..|.....       
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-----------l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C   84 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-----------LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQAC   84 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHH
Confidence            467899999999999888762           222359999999999999999998764100  000000000       


Q ss_pred             -----------CCceEEEEe------ec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         277 -----------AGLTVSALR------EN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       277 -----------~glt~~~~~------~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                                 ..+.++..+      +- ......+   ..+...|++|||+|.|+.+.+++|+..||+
T Consensus        85 ~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p---~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEE  150 (618)
T PRK14951         85 RDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKP---VQGRFKVFMIDEVHMLTNTAFNAMLKTLEE  150 (618)
T ss_pred             HHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCc---ccCCceEEEEEChhhCCHHHHHHHHHhccc
Confidence                       011111000      00 0000000   123457999999999999999999999997

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=1.7e-06  Score=88.60  Aligned_cols=110  Identities=15%  Similarity=0.141  Sum_probs=70.0

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeE------------EEcCC
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSV------------LTTGV  272 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~------------~~~~~  272 (345)
                      +.+|+||+.++..+.-++..|           |-.+++||.||||+|||++++.+++.+.-..            .-+|.
T Consensus        15 f~eivGQe~i~~~L~~~i~~~-----------ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~   83 (620)
T PRK14954         15 FADITAQEHITHTIQNSLRMD-----------RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGE   83 (620)
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-----------CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCcc
Confidence            447899999999988888766           2224599999999999999999998763210            00000


Q ss_pred             c------cCcCCceEEEEeecCeeE-----------eeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         273 G------TTTAGLTVSALRENGEWH-----------LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       273 ~------~~~~glt~~~~~~~~~~~-----------~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      -      .....+..... ++....           +.-+ -..++.-|++|||+++|+...+++|+..||+
T Consensus        84 C~sC~~~~~g~~~n~~~~-d~~s~~~vd~Ir~l~e~~~~~-P~~~~~KVvIIdEad~Lt~~a~naLLK~LEe  153 (620)
T PRK14954         84 CESCRDFDAGTSLNISEF-DAASNNSVDDIRQLRENVRYG-PQKGRYRVYIIDEVHMLSTAAFNAFLKTLEE  153 (620)
T ss_pred             CHHHHHHhccCCCCeEEe-cccccCCHHHHHHHHHHHHhh-hhcCCCEEEEEeChhhcCHHHHHHHHHHHhC
Confidence            0      00000111000 100000           0000 1345678999999999999999999999998

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.14  E-value=5.5e-06  Score=82.24  Aligned_cols=110  Identities=22%  Similarity=0.172  Sum_probs=67.8

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEE-----cCC------cc
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLT-----TGV------GT  274 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~-----~~~------~~  274 (345)
                      -+|+||+.++..+.-++..|.           -...+||+||||+|||++++.+++.+.-....     +|.      ..
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~-----------i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~   85 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNR-----------AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEIS   85 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----------CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHh
Confidence            478999999988887777652           12358999999999999999999876321000     000      00


Q ss_pred             CcCCceEEEEeec----C-eeE---ee-ec-eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         275 TTAGLTVSALREN----G-EWH---LE-AG-ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       275 ~~~glt~~~~~~~----~-~~~---~~-~G-~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      +......... ++    + +..   .+ .. .-..++..|++|||+|+|+.+.+++|+..||+
T Consensus        86 ~~~~~d~~~i-~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEe  147 (451)
T PRK06305         86 SGTSLDVLEI-DGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEE  147 (451)
T ss_pred             cCCCCceEEe-eccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhc
Confidence            0000000000 00    0 000   00 00 00235678999999999999999999999998

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.14  E-value=4.6e-07  Score=87.55  Aligned_cols=29  Identities=31%  Similarity=0.503  Sum_probs=25.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .++||+||||||||++++++++.+...++
T Consensus       157 ~gvLL~GppGtGKT~lakaia~~l~~~~~  185 (364)
T TIGR01242       157 KGVLLYGPPGTGKTLLAKAVAHETNATFI  185 (364)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhCCCCEE
Confidence            36999999999999999999998876654

Many proteins may score above the trusted cutoff because an internal

>PRK04195 replication factor C large subunit; Provisional

Probab=98.11  E-value=2.8e-06  Score=85.20  Aligned_cols=111  Identities=20%  Similarity=0.260  Sum_probs=64.8

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR  285 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~  285 (345)
                      .++.|++.++..+.-.+.....     |   +...++||+||||+|||++++++++.++..+..... +.....  ...+
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~-----g---~~~~~lLL~GppG~GKTtla~ala~el~~~~ielna-sd~r~~--~~i~   82 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLK-----G---KPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNA-SDQRTA--DVIE   82 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhc-----C---CCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcc-cccccH--HHHH
Confidence            4578998888777665543210     0   112489999999999999999999988654332211 100000  0000


Q ss_pred             ec-CeeEeeeceeeecCCcEEEEcCCCCCCH----HhHHHHHHHHhCC
Q psy1366         286 EN-GEWHLEAGALVLSDGGVCCIDEFSSIKE----HDRTSIHEAMEQQ  328 (345)
Q Consensus       286 ~~-~~~~~~~G~l~la~~gi~~IDEidk~~~----~~~~~l~eame~~  328 (345)
                      .- +. ......+.-....+++|||+|.+..    ....+|+..|+..
T Consensus        83 ~~i~~-~~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~  129 (482)
T PRK04195         83 RVAGE-AATSGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKKA  129 (482)
T ss_pred             HHHHH-hhccCcccCCCCeEEEEecCcccccccchhHHHHHHHHHHcC
Confidence            00 00 0000111112567999999999976    4567888888854

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=98.09  E-value=4.6e-06  Score=80.80  Aligned_cols=69  Identities=23%  Similarity=0.383  Sum_probs=52.1

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCcccC-C-C-CCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRGG-E-D-GSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~-~-~-~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|.+.+...|+|++.+|+++..++..+..+.. . + +...+ ..||||+||||+|||++++++++.+..+++
T Consensus         5 ~I~~~Ld~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~-p~~ILLiGppG~GKT~lAraLA~~l~~~fi   76 (441)
T TIGR00390         5 EIVAELDKYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVT-PKNILMIGPTGVGKTEIARRLAKLANAPFI   76 (441)
T ss_pred             HHHHHHhhhccCHHHHHHHHHHHHHhhhhhhccccccccccC-CceEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            46677778899999999999999997643321 1 1 11111 259999999999999999999999876543

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.

>CHL00176 ftsH cell division protein; Validated

Probab=98.08  E-value=1.3e-06  Score=89.76  Aligned_cols=63  Identities=25%  Similarity=0.251  Sum_probs=40.3

Q ss_pred             CcccccchHHHHHHHHHHhC--CCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAG--GVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~--g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +.+|.|.+.+|..+.-.+.-  .......-|.  +...++||+||||||||.++++++..+..+++.
T Consensus       182 f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~--~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~  246 (638)
T CHL00176        182 FRDIAGIEEAKEEFEEVVSFLKKPERFTAVGA--KIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFS  246 (638)
T ss_pred             HHhccChHHHHHHHHHHHHHHhCHHHHhhccC--CCCceEEEECCCCCCHHHHHHHHHHHhCCCeee
Confidence            35688988888765443211  1000000111  223479999999999999999999988765543

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.08  E-value=1e-05  Score=82.78  Aligned_cols=111  Identities=17%  Similarity=0.201  Sum_probs=70.7

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeE-EEc-CCccCcCC----
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSV-LTT-GVGTTTAG----  278 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~-~~~-~~~~~~~g----  278 (345)
                      +.+++||+.+++.+.-++..|           |-..++||.|++|+|||++++.+++.+.-.. ... |......|    
T Consensus        23 f~dliGq~~~v~~L~~~~~~g-----------ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~   91 (598)
T PRK09111         23 FDDLIGQEAMVRTLTNAFETG-----------RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEH   91 (598)
T ss_pred             HHHhcCcHHHHHHHHHHHHcC-----------CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHH
Confidence            347899999999998888776           2224699999999999999999998764210 011 10000111    


Q ss_pred             -----------c---eEEEEe--ec-Cee--EeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         279 -----------L---TVSALR--EN-GEW--HLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       279 -----------l---t~~~~~--~~-~~~--~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                                 +   .++...  +. .+.  ..... -..++..|++|||++.|+...+++|+..||+
T Consensus        92 C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~-P~~a~~KVvIIDEad~Ls~~a~naLLKtLEe  158 (598)
T PRK09111         92 CQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYR-PVSARYKVYIIDEVHMLSTAAFNALLKTLEE  158 (598)
T ss_pred             HHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhc-hhcCCcEEEEEEChHhCCHHHHHHHHHHHHh
Confidence                       0   000000  00 000  00000 1346678999999999999999999999997

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.07  E-value=3.7e-06  Score=80.67  Aligned_cols=111  Identities=18%  Similarity=0.211  Sum_probs=69.8

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe----E--EEcCCc-----
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS----V--LTTGVG-----  273 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~----~--~~~~~~-----  273 (345)
                      ...++||+.++..+.-++..|           |..+-+||.|++|+||+++++.+++.+.-.    .  ...+..     
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~g-----------rl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~   90 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREG-----------KLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASP   90 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcC-----------CCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCH
Confidence            457899999999999999887           333459999999999999999999876321    0  000000     


Q ss_pred             -------cCcCCceEEEEe---e-cCee--Eee-------eceee----ecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         274 -------TTTAGLTVSALR---E-NGEW--HLE-------AGALV----LSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       274 -------~~~~glt~~~~~---~-~~~~--~~~-------~G~l~----la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                             .+..++.. +.+   + ++.+  .+.       ...+.    ....-|++|||+|.|+...+++|+..||+
T Consensus        91 ~c~~i~~~~hPdl~~-l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEE  167 (351)
T PRK09112         91 VWRQIAQGAHPNLLH-ITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEE  167 (351)
T ss_pred             HHHHHHcCCCCCEEE-eecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhc
Confidence                   00011110 000   0 0000  000       00011    12345999999999999999999999997

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.06  E-value=2.3e-06  Score=69.31  Aligned_cols=83  Identities=20%  Similarity=0.253  Sum_probs=46.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe----EEEcCCccCcCCce-------EEEEeecCeeEeeeceeeecCC---cEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS----VLTTGVGTTTAGLT-------VSALRENGEWHLEAGALVLSDG---GVC  305 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~----~~~~~~~~~~~glt-------~~~~~~~~~~~~~~G~l~la~~---gi~  305 (345)
                      .+++|+||||+|||++++.++..+...    ++.+..........       ................+..+..   .++
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi   82 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDVL   82 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCEE
Confidence            489999999999999999999988764    23332211110000       0000000000000122223333   999


Q ss_pred             EEcCCCCCCHHhHHHHH
Q psy1366         306 CIDEFSSIKEHDRTSIH  322 (345)
Q Consensus       306 ~IDEidk~~~~~~~~l~  322 (345)
                      +|||++.+.........
T Consensus        83 iiDei~~~~~~~~~~~~   99 (148)
T smart00382       83 ILDEITSLLDAEQEALL   99 (148)
T ss_pred             EEECCcccCCHHHHHHH
Confidence            99999999887665544

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.

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

Probab=98.06  E-value=1.2e-06  Score=85.37  Aligned_cols=60  Identities=23%  Similarity=0.281  Sum_probs=37.6

Q ss_pred             ccccchHHHHHHHHHHhCCCc---ccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVG---RGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~---~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      +|.|.+..|..+.-++.-...   ....-|  +...-++||+||||||||+++++++..+...++
T Consensus       146 digGl~~~k~~l~~~v~~pl~~~~~~~~~G--l~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi  208 (398)
T PTZ00454        146 DIGGLDIQKQEIREAVELPLTCPELYEQIG--IDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFI  208 (398)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcCHHHHHhcC--CCCCceEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            577877766655444321100   000011  122248999999999999999999998776544

>KOG0727|consensus

Probab=98.06  E-value=8.4e-07  Score=79.57  Aligned_cols=81  Identities=23%  Similarity=0.338  Sum_probs=47.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE-EcCCccCcCCceEEEEeecCeeEeeeceeeec---CCcEEEEcCCCCC--
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL-TTGVGTTTAGLTVSALRENGEWHLEAGALVLS---DGGVCCIDEFSSI--  313 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~-~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la---~~gi~~IDEidk~--  313 (345)
                      -.+||+||||||||+|++++++....++. +.|.-     +....+.++..++  -..+-+|   ...|+||||+|.+  
T Consensus       190 rgvllygppg~gktml~kava~~t~a~firvvgse-----fvqkylgegprmv--rdvfrlakenapsiifideidaiat  262 (408)
T KOG0727|consen  190 RGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSE-----FVQKYLGEGPRMV--RDVFRLAKENAPSIIFIDEIDAIAT  262 (408)
T ss_pred             cceEEeCCCCCcHHHHHHHHhhccchheeeeccHH-----HHHHHhccCcHHH--HHHHHHHhccCCcEEEeehhhhHhh
Confidence            37999999999999999999987544332 22210     0000000000000  0001122   2579999999863  


Q ss_pred             ---------CHHhHHHHHHHHhC
Q psy1366         314 ---------KEHDRTSIHEAMEQ  327 (345)
Q Consensus       314 ---------~~~~~~~l~eame~  327 (345)
                               +.+.|..|+|.+.|
T Consensus       263 krfdaqtgadrevqril~ellnq  285 (408)
T KOG0727|consen  263 KRFDAQTGADREVQRILIELLNQ  285 (408)
T ss_pred             hhccccccccHHHHHHHHHHHHh
Confidence                     44667788888875

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.05  E-value=1.2e-06  Score=88.00  Aligned_cols=30  Identities=33%  Similarity=0.486  Sum_probs=26.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .++||+||||||||.++++++..+..+++.
T Consensus        89 ~giLL~GppGtGKT~la~alA~~~~~~~~~  118 (495)
T TIGR01241        89 KGVLLVGPPGTGKTLLAKAVAGEAGVPFFS  118 (495)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCCeee
Confidence            479999999999999999999988766543

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.03  E-value=8.7e-06  Score=81.43  Aligned_cols=114  Identities=16%  Similarity=0.155  Sum_probs=69.2

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe--EE--EcCC-------
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS--VL--TTGV-------  272 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~--~~--~~~~-------  272 (345)
                      .+-++.||+.+...+.-++..+.-           .+.+||+||||+|||++++.+++.+.-.  ..  .++.       
T Consensus        14 ~f~diiGq~~i~~~L~~~i~~~~i-----------~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i   82 (486)
T PRK14953         14 FFKEVIGQEIVVRILKNAVKLQRV-----------SHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEI   82 (486)
T ss_pred             cHHHccChHHHHHHHHHHHHcCCC-----------CeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHH
Confidence            334678999999999888876621           1236899999999999999999976521  00  0000       


Q ss_pred             -ccCcCCce---EEEEeecCee-Eee--ecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         273 -GTTTAGLT---VSALRENGEW-HLE--AGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       273 -~~~~~glt---~~~~~~~~~~-~~~--~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                       +++...+.   ++..+.-... .+.  .... ..++..|++|||+++|+.+.+++|+..||+-
T Consensus        83 ~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEep  146 (486)
T PRK14953         83 DKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEP  146 (486)
T ss_pred             hcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcC
Confidence             00001110   0000000000 000  0000 2355789999999999999999999999984

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.03  E-value=1.9e-05  Score=74.79  Aligned_cols=112  Identities=16%  Similarity=0.125  Sum_probs=70.8

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe--------E-EEcCCccCc
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS--------V-LTTGVGTTT  276 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~--------~-~~~~~~~~~  276 (345)
                      .+|.||+.++..+..++..|.           -.+-.||+||+|+||+++++.+++.+--.        + .....  ..
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~-----------~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~--~~   70 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR-----------FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPI--NK   70 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-----------CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccc--cC
Confidence            468899999999999987762           22345899999999999999999864210        0 00000  00


Q ss_pred             CCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC---CEEEE
Q psy1366         277 AGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ---QTISV  332 (345)
Q Consensus       277 ~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~---~~i~i  332 (345)
                      .......+|+--++. ... -..++.-|++||+.|+|+...+++|+..||+   +++-|
T Consensus        71 ~~i~v~~ir~~~~~~-~~~-p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~i  127 (313)
T PRK05564         71 KSIGVDDIRNIIEEV-NKK-PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFII  127 (313)
T ss_pred             CCCCHHHHHHHHHHH-hcC-cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEE
Confidence            000000001100000 001 1235678999999999999999999999998   55554

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.01  E-value=1.3e-05  Score=72.23  Aligned_cols=68  Identities=10%  Similarity=0.224  Sum_probs=47.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC----CeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP----RSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEH  316 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~----~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~  316 (345)
                      +++|+|+||||||.|++++++.+.    ..++++.....            ..      .-...+.++++|||++.++..
T Consensus        44 ~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~------------~~------~~~~~~~~~liiDdi~~l~~~  105 (227)
T PRK08903         44 FFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPL------------LA------FDFDPEAELYAVDDVERLDDA  105 (227)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhH------------HH------HhhcccCCEEEEeChhhcCch
Confidence            899999999999999999988652    12222211100            00      011234679999999999998


Q ss_pred             hHHHHHHHHh
Q psy1366         317 DRTSIHEAME  326 (345)
Q Consensus       317 ~~~~l~eame  326 (345)
                      .+..|+..|+
T Consensus       106 ~~~~L~~~~~  115 (227)
T PRK08903        106 QQIALFNLFN  115 (227)
T ss_pred             HHHHHHHHHH
Confidence            8999988884

>KOG0652|consensus

Probab=98.00  E-value=1.9e-06  Score=77.62  Aligned_cols=83  Identities=24%  Similarity=0.377  Sum_probs=48.7

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCc--eEEEEeecCeeEeeeceeeecC---CcEEEEcCCC
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGL--TVSALRENGEWHLEAGALVLSD---GGVCCIDEFS  311 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~gl--t~~~~~~~~~~~~~~G~l~la~---~gi~~IDEid  311 (345)
                      |..-.+|++||||||||.++|+++......+.      ..+|-  ..-...++..  +.-.++.+|.   ..|+||||+|
T Consensus       203 ~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFL------KLAgPQLVQMfIGdGAk--LVRDAFaLAKEkaP~IIFIDElD  274 (424)
T KOG0652|consen  203 RPPKGVLMYGPPGTGKTLMARACAAQTNATFL------KLAGPQLVQMFIGDGAK--LVRDAFALAKEKAPTIIFIDELD  274 (424)
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHHhccchHH------HhcchHHHhhhhcchHH--HHHHHHHHhhccCCeEEEEechh
Confidence            44457999999999999999999876432111      11110  0000011100  1111222332   5799999998


Q ss_pred             CCC-----------HHhHHHHHHHHhC
Q psy1366         312 SIK-----------EHDRTSIHEAMEQ  327 (345)
Q Consensus       312 k~~-----------~~~~~~l~eame~  327 (345)
                      .+.           .+.|..++|.+.|
T Consensus       275 AIGtKRfDSek~GDREVQRTMLELLNQ  301 (424)
T KOG0652|consen  275 AIGTKRFDSEKAGDREVQRTMLELLNQ  301 (424)
T ss_pred             hhccccccccccccHHHHHHHHHHHHh
Confidence            643           3567889999876

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.99  E-value=4.2e-06  Score=79.05  Aligned_cols=86  Identities=24%  Similarity=0.261  Sum_probs=52.5

Q ss_pred             ec-eeeeCCCCChHHHHHHHHHhhCCCeEEEc---------------CCccCcCCceEEEEeec----------Ce-eEe
Q psy1366         240 SH-LLLVGDPGTGKSEILKFAKRMSPRSVLTT---------------GVGTTTAGLTVSALREN----------GE-WHL  292 (345)
Q Consensus       240 ~~-iLl~G~pGtGKs~l~~~i~~~~~~~~~~~---------------~~~~~~~glt~~~~~~~----------~~-~~~  292 (345)
                      .| +||.||||+|||+++.++++.+.-.....               |.......++++..+..          .+ ...
T Consensus        24 ~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~~~~  103 (325)
T COG0470          24 PHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLSE  103 (325)
T ss_pred             CceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCcchHHHHHHHHHHhcc
Confidence            37 99999999999999999998664111000               00001111222211110          00 000


Q ss_pred             eeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         293 EAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       293 ~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      .+   ..+..-|++|||+|.|..+.+++|+..||+-
T Consensus       104 ~~---~~~~~kviiidead~mt~~A~nallk~lEep  136 (325)
T COG0470         104 SP---LEGGYKVVIIDEADKLTEDAANALLKTLEEP  136 (325)
T ss_pred             CC---CCCCceEEEeCcHHHHhHHHHHHHHHHhccC
Confidence            01   0234579999999999999999999999973

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.98  E-value=3.1e-06  Score=90.01  Aligned_cols=113  Identities=15%  Similarity=0.185  Sum_probs=65.2

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe----------EEEcCCccC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS----------VLTTGVGTT  275 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~----------~~~~~~~~~  275 (345)
                      ..++|++..-..++..|....            ..|++|+||||+|||++++.+++.....          ++....+..
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~------------~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l  254 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRR------------QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLL  254 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC------------cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhh
Confidence            458899776555555555431            1399999999999999999999876321          111111110


Q ss_pred             cCCceEEEEeecCeeEeeec-eee---e-cCCcEEEEcCCCCCCH-----HhHH---HHHHHHhCCEEEEeeC
Q psy1366         276 TAGLTVSALRENGEWHLEAG-ALV---L-SDGGVCCIDEFSSIKE-----HDRT---SIHEAMEQQTISVAKD  335 (345)
Q Consensus       276 ~~glt~~~~~~~~~~~~~~G-~l~---l-a~~gi~~IDEidk~~~-----~~~~---~l~eame~~~i~i~k~  335 (345)
                      .+|-     +--|+|.-.-. .+.   . ..+.|+||||++.+..     ..++   .|..+|+.|.+.+--|
T Consensus       255 ~ag~-----~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G~l~~Iga  322 (852)
T TIGR03345       255 QAGA-----SVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARGELRTIAA  322 (852)
T ss_pred             hccc-----ccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCCCeEEEEe
Confidence            1110     00012210000 010   0 1357999999999853     2233   5889999999887443

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.96  E-value=7.7e-06  Score=78.93  Aligned_cols=48  Identities=23%  Similarity=0.320  Sum_probs=40.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..+|+||+.+++.+.-++..|           |-.+-+||.||+|+||++++.++++.+
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~~-----------rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRSG-----------RLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             hhhccChHHHHHHHHHHHHcC-----------CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            357999999999999998877           222349999999999999999998865

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.96  E-value=4e-06  Score=88.26  Aligned_cols=62  Identities=27%  Similarity=0.254  Sum_probs=40.7

Q ss_pred             ccccchHHHHHHHHHHhCCCcc-cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      +|.|++.+|..+.-.+.-.... ..-.....+....+||+||||||||.++++++..+...++
T Consensus       454 di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi  516 (733)
T TIGR01243       454 DIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFI  516 (733)
T ss_pred             hcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            5778888888876665422110 0000011222346999999999999999999998876554

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

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

Probab=97.95  E-value=1.8e-06  Score=84.99  Aligned_cols=29  Identities=31%  Similarity=0.515  Sum_probs=25.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .++||+||||||||.++++++..+...++
T Consensus       218 ~gVLL~GPPGTGKT~LAraIA~el~~~fi  246 (438)
T PTZ00361        218 KGVILYGPPGTGKTLLAKAVANETSATFL  246 (438)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCCCEE
Confidence            47999999999999999999998765543

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.94  E-value=9.9e-06  Score=72.57  Aligned_cols=73  Identities=22%  Similarity=0.387  Sum_probs=45.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC----eEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR----SVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKE  315 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~  315 (345)
                      .+++|+|+||||||.+++++++.+..    .+|++...-...         ..++ +  ..  +...++++|||++.++.
T Consensus        39 ~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~---------~~~~-~--~~--~~~~~lLvIDdi~~l~~  104 (226)
T TIGR03420        39 RFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQA---------DPEV-L--EG--LEQADLVCLDDVEAIAG  104 (226)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHh---------HHHH-H--hh--cccCCEEEEeChhhhcC
Confidence            48999999999999999999976531    223221110000         0000 0  00  12346999999999987


Q ss_pred             Hh--HHHHHHHHh
Q psy1366         316 HD--RTSIHEAME  326 (345)
Q Consensus       316 ~~--~~~l~eame  326 (345)
                      ..  +..|.++++
T Consensus       105 ~~~~~~~L~~~l~  117 (226)
T TIGR03420       105 QPEWQEALFHLYN  117 (226)
T ss_pred             ChHHHHHHHHHHH
Confidence            44  777877764

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.

>KOG0742|consensus

Probab=97.92  E-value=1.1e-05  Score=76.99  Aligned_cols=78  Identities=27%  Similarity=0.367  Sum_probs=49.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeec---CeeEeeeceeeecC-CcEEEEcCCC-----
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALREN---GEWHLEAGALVLSD-GGVCCIDEFS-----  311 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~---~~~~~~~G~l~la~-~gi~~IDEid-----  311 (345)
                      |||++||||||||.+++-++..++-.. ..-++...+.|.+-.+-..   -+|.-      .+. |=++||||.|     
T Consensus       386 NilfyGPPGTGKTm~ArelAr~SGlDY-A~mTGGDVAPlG~qaVTkiH~lFDWak------kS~rGLllFIDEADAFLce  458 (630)
T KOG0742|consen  386 NILFYGPPGTGKTMFARELARHSGLDY-AIMTGGDVAPLGAQAVTKIHKLFDWAK------KSRRGLLLFIDEADAFLCE  458 (630)
T ss_pred             heeeeCCCCCCchHHHHHHHhhcCCce-ehhcCCCccccchHHHHHHHHHHHHHh------hcccceEEEehhhHHHHHH
Confidence            899999999999999999998876432 2222333333332211110   12321      122 3468999997     


Q ss_pred             ----CCCHHhHHHHHHHH
Q psy1366         312 ----SIKEHDRTSIHEAM  325 (345)
Q Consensus       312 ----k~~~~~~~~l~eam  325 (345)
                          .|+++++.+|.-.+
T Consensus       459 RnktymSEaqRsaLNAlL  476 (630)
T KOG0742|consen  459 RNKTYMSEAQRSALNALL  476 (630)
T ss_pred             hchhhhcHHHHHHHHHHH
Confidence                48888888877665

>KOG0735|consensus

Probab=97.91  E-value=4e-06  Score=84.67  Aligned_cols=114  Identities=20%  Similarity=0.204  Sum_probs=67.8

Q ss_pred             ccccchHHHHHHHHHHhCCCcc-cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc---CCceEE
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT---AGLTVS  282 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~---~glt~~  282 (345)
                      +|-|...+|.++.-.+.-...- .......+|....|||+||||||||.|+.+++..++-.+...-.+.-.   -|-.-.
T Consensus       668 digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyIGaSEq  747 (952)
T KOG0735|consen  668 DIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYIGASEQ  747 (952)
T ss_pred             ecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHhcccHH
Confidence            5778888888887766543221 111233456667999999999999999999999887554322111000   010000


Q ss_pred             EEeecCeeEeeeceeeecCCcEEEEcCCCCCCH-----------HhHHHHHHHHh
Q psy1366         283 ALRENGEWHLEAGALVLSDGGVCCIDEFSSIKE-----------HDRTSIHEAME  326 (345)
Q Consensus       283 ~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~-----------~~~~~l~eame  326 (345)
                      .+|+   ...+|   ..|...|+|.||||.+.+           ..-+.|+.-|+
T Consensus       748 ~vR~---lF~rA---~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelD  796 (952)
T KOG0735|consen  748 NVRD---LFERA---QSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELD  796 (952)
T ss_pred             HHHH---HHHHh---hccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhc
Confidence            0111   00011   235689999999998765           23466777775

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

Probab=97.91  E-value=7.2e-06  Score=76.48  Aligned_cols=68  Identities=24%  Similarity=0.338  Sum_probs=51.5

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeee---eceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAE---SHLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~---~~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .+++.+...|+||+.+|++++.||..-..+.. -...+|..   -|||++||+|+|||.++|.+|+++..++
T Consensus         8 eIV~eLd~yIIGQ~~AKkaVAIALRNR~RR~q-L~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPF   78 (444)
T COG1220           8 EIVSELDRYIIGQDEAKKAVAIALRNRWRRMQ-LEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPF   78 (444)
T ss_pred             HHHHHHHhHhcCcHHHHHHHHHHHHHHHHHHh-cCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            46777778899999999999999987543211 00111221   2999999999999999999999997654

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=97.89  E-value=5.6e-06  Score=80.21  Aligned_cols=132  Identities=21%  Similarity=0.186  Sum_probs=74.4

Q ss_pred             HHHHHHHHHhhccChhhHHHHHHhcc--CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHH
Q psy1366         179 RAEVTQFWEDHKYDGLAARNHILASI--CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEIL  256 (345)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~l~~s~--~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~  256 (345)
                      .+.+.+-.+.+..+.|.  +.|++|+  -|+-+. +..|...+..++.-+          ..+-|++++||||||||.++
T Consensus       160 l~~~~~~R~~FT~dEWi--d~LlrSiG~~P~~~~-~r~k~~~L~rl~~fv----------e~~~Nli~lGp~GTGKThla  226 (449)
T TIGR02688       160 LDYYKEGRKEFTLEEWI--DVLIRSIGYEPEGFE-ARQKLLLLARLLPLV----------EPNYNLIELGPKGTGKSYIY  226 (449)
T ss_pred             HHHHHHHHhhcCHHHHH--HHHHHhcCCCcccCC-hHHHHHHHHhhHHHH----------hcCCcEEEECCCCCCHHHHH
Confidence            34454444445556673  7788886  565443 333333333332221          22259999999999999999


Q ss_pred             HHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHH----hHHHHHHHHhCCEEEE
Q psy1366         257 KFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEH----DRTSIHEAMEQQTISV  332 (345)
Q Consensus       257 ~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~----~~~~l~eame~~~i~i  332 (345)
                      ..+...+   ...+|...+.+.|......      -..|.+  +.--+++|||+..++.+    ..+.|-..||+++.+-
T Consensus       227 ~~l~~~~---a~~sG~f~T~a~Lf~~L~~------~~lg~v--~~~DlLI~DEvgylp~~~~~~~v~imK~yMesg~fsR  295 (449)
T TIGR02688       227 NNLSPYV---ILISGGTITVAKLFYNIST------RQIGLV--GRWDVVAFDEVATLKFAKPKELIGILKNYMESGSFTR  295 (449)
T ss_pred             HHHhHHH---HHHcCCcCcHHHHHHHHHH------HHHhhh--ccCCEEEEEcCCCCcCCchHHHHHHHHHHHHhCceec
Confidence            9876441   1223333333332211000      012222  33468999999985543    3467788899988775


Q ss_pred             ee
Q psy1366         333 AK  334 (345)
Q Consensus       333 ~k  334 (345)
                      -+
T Consensus       296 G~  297 (449)
T TIGR02688       296 GD  297 (449)
T ss_pred             cc
Confidence            33

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.

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

Probab=97.87  E-value=3.1e-06  Score=85.17  Aligned_cols=109  Identities=22%  Similarity=0.227  Sum_probs=60.4

Q ss_pred             ccccchHHHHHHHHHHhCCCcccC-CCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGG-EDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR  285 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~-~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~  285 (345)
                      ++.|.+.+|..+.-+..-...... .....++....+||+||||||||.|+++++..+...+.....++    ++     
T Consensus       243 diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~----l~-----  313 (494)
T COG0464         243 DIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSE----LL-----  313 (494)
T ss_pred             hhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHH----Hh-----
Confidence            355566666655444332211100 00012344458999999999999999999998776654432221    11     


Q ss_pred             ecCeeEeeece-----ee---ecCCcEEEEcCCCCCCH-----------HhHHHHHHHHh
Q psy1366         286 ENGEWHLEAGA-----LV---LSDGGVCCIDEFSSIKE-----------HDRTSIHEAME  326 (345)
Q Consensus       286 ~~~~~~~~~G~-----l~---la~~gi~~IDEidk~~~-----------~~~~~l~eame  326 (345)
                        +.|.-+...     +.   .....|+||||+|++-.           ...+.|+..|.
T Consensus       314 --sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d  371 (494)
T COG0464         314 --SKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELD  371 (494)
T ss_pred             --ccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhc
Confidence              112111111     11   23378999999998532           33455666663

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.86  E-value=8.2e-06  Score=69.78  Aligned_cols=107  Identities=18%  Similarity=0.196  Sum_probs=60.6

Q ss_pred             cchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEE---cCC--------ccCcCC
Q psy1366         210 GLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLT---TGV--------GTTTAG  278 (345)
Q Consensus       210 G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~---~~~--------~~~~~g  278 (345)
                      ||+.+.+.+.-++-.+           |-.+.+||.||+|+||+++++.+++.+--.-..   .+.        ......
T Consensus         1 gq~~~~~~L~~~~~~~-----------~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d   69 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG-----------RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPD   69 (162)
T ss_dssp             S-HHHHHHHHHHHHCT-----------C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTT
T ss_pred             CcHHHHHHHHHHHHcC-----------CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcc
Confidence            7888888888777766           222347999999999999999998754211000   000        000011


Q ss_pred             ceEEEEeecC--eeEee---------eceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         279 LTVSALRENG--EWHLE---------AGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       279 lt~~~~~~~~--~~~~~---------~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      +... ..++.  ....+         .-.-..+..-|++|||+|+|+.+.+++|+..||+-
T Consensus        70 ~~~~-~~~~~~~~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEep  129 (162)
T PF13177_consen   70 FIII-KPDKKKKSIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEP  129 (162)
T ss_dssp             EEEE-ETTTSSSSBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHST
T ss_pred             eEEE-ecccccchhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCC
Confidence            1000 00000  00000         00001144679999999999999999999999973

...

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

Probab=97.84  E-value=2.2e-06  Score=81.48  Aligned_cols=33  Identities=18%  Similarity=0.093  Sum_probs=27.4

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      ...-++|+||||||||.+++++++.+.-.+...
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~elg~~~i~v  179 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKMGIEPIVM  179 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEE
Confidence            335799999999999999999999987665433

>KOG0733|consensus

Probab=97.83  E-value=8.4e-06  Score=81.16  Aligned_cols=60  Identities=28%  Similarity=0.341  Sum_probs=44.0

Q ss_pred             ccccchHHHHHHHHHHhCCCcccC---CCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGG---EDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~---~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      +|-|++.++.-+-++.+..+.+..   .-|.  +...-|||+||||+|||.|||++|+.+.-.+.
T Consensus       512 dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi--~~PsGvLL~GPPGCGKTLlAKAVANEag~NFi  574 (802)
T KOG0733|consen  512 DIGALEEVRLELNMAILAPIKRPDLFKALGI--DAPSGVLLCGPPGCGKTLLAKAVANEAGANFI  574 (802)
T ss_pred             hcccHHHHHHHHHHHHhhhccCHHHHHHhCC--CCCCceEEeCCCCccHHHHHHHHhhhccCceE
Confidence            466778999999888887654311   1122  23458999999999999999999998765543

>PF13337 Lon_2: Putative ATP-dependent Lon protease

Probab=97.83  E-value=9.6e-05  Score=72.12  Aligned_cols=133  Identities=27%  Similarity=0.320  Sum_probs=89.6

Q ss_pred             HHHHHHHHHhhccChhhHHHHHHhcc--CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHH
Q psy1366         179 RAEVTQFWEDHKYDGLAARNHILASI--CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEIL  256 (345)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~l~~s~--~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~  256 (345)
                      ++.+.+-.+....+.|.  +.|++|+  -|+-+. +..|..++.=|+=-+          ..+.|++=.||.|||||.+-
T Consensus       159 l~~~~~~R~~FT~eEWi--D~LlrS~G~eP~~~~-~r~Kl~~L~RLiPlV----------E~N~NliELgPrGTGKS~vy  225 (457)
T PF13337_consen  159 LDEYREARKEFTTEEWI--DLLLRSIGYEPSGFS-ERQKLLLLARLIPLV----------ERNYNLIELGPRGTGKSYVY  225 (457)
T ss_pred             HHHHHHHHHhcCHHHHH--HHHHHhcCCCccccC-HHHHHHHHHhHHHhc----------ccccceEEEcCCCCCceeeh
Confidence            34444444455566773  7888886  554443 355655555555333          23469999999999999996


Q ss_pred             HHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCC---HHhHHHHHHHHhCCEEEEe
Q psy1366         257 KFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIK---EHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       257 ~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~---~~~~~~l~eame~~~i~i~  333 (345)
                      +   +++|.+..++|...|.+-|..-..+  +    ..|.+-.  .-++++||+..++   ++....|-..||+|..+..
T Consensus       226 ~---eiSp~~~liSGG~~T~A~LFyn~~~--~----~~GlV~~--~D~VafDEv~~i~f~d~d~i~imK~YMesG~fsRG  294 (457)
T PF13337_consen  226 K---EISPYGILISGGQVTVAKLFYNMST--G----QIGLVGR--WDVVAFDEVAGIKFKDKDEIQIMKDYMESGSFSRG  294 (457)
T ss_pred             h---hcCcccEEEECCCcchHHheeeccC--C----cceeeee--ccEEEEEeccCcccCChHHHHHHHHHHhccceeec
Confidence            5   5567788889887777777654322  1    2455443  3478999999876   5555788889999998876


Q ss_pred             eC
Q psy1366         334 KD  335 (345)
Q Consensus       334 k~  335 (345)
                      +.
T Consensus       295 ~~  296 (457)
T PF13337_consen  295 KE  296 (457)
T ss_pred             cc
Confidence            63

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.83  E-value=2e-05  Score=81.01  Aligned_cols=113  Identities=13%  Similarity=0.190  Sum_probs=69.0

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeE-EEcCCc---------
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSV-LTTGVG---------  273 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~-~~~~~~---------  273 (345)
                      -+.+|+||+.++..+.-++..|.           -.+.+||+||+|+|||++++.+++.+.-.. ...+..         
T Consensus        15 ~f~~viGq~~~~~~L~~~i~~~~-----------l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~   83 (614)
T PRK14971         15 TFESVVGQEALTTTLKNAIATNK-----------LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVA   83 (614)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC-----------CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHH
Confidence            34478999999999888887662           112389999999999999999998763100 000000         


Q ss_pred             -cCcCCceEEEEe---ecC--ee--Ee-eece-eeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         274 -TTTAGLTVSALR---ENG--EW--HL-EAGA-LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       274 -~~~~glt~~~~~---~~~--~~--~~-~~G~-l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                       .....+......   ..+  +.  .+ ++-. -..++..|++|||++.|+.+.+++|+..||+
T Consensus        84 ~~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEe  147 (614)
T PRK14971         84 FNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEE  147 (614)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhC
Confidence             000000000000   000  00  00 0000 0235678999999999999999999999997

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.83  E-value=5.8e-05  Score=71.43  Aligned_cols=111  Identities=14%  Similarity=0.129  Sum_probs=70.0

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC-------ccCcC
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV-------GTTTA  277 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~-------~~~~~  277 (345)
                      +.+|+||+.++..+.-++..|           |-.+..||.||+|+||+.++.++++.+--.- ..|.       ..+..
T Consensus         3 f~~iiGq~~~~~~L~~~i~~~-----------rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~-~c~~c~~~~~~~~~hP   70 (314)
T PRK07399          3 FANLIGQPLAIELLTAAIKQN-----------RIAPAYLFAGPEGVGRKLAALCFIEGLLSQG-SPSKNIRRRLEEGNHP   70 (314)
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-----------CCCceEEEECCCCCCHHHHHHHHHHHHcCCC-CCCCcHhcccccCCCC
Confidence            357899999999999998877           3336999999999999999999987642100 0000       00000


Q ss_pred             CceE-E--EEeecC----eeEeeec---------------e--------eeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         278 GLTV-S--ALRENG----EWHLEAG---------------A--------LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       278 glt~-~--~~~~~~----~~~~~~G---------------~--------l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .+.. .  ...++.    .+.-..|               .        -..++..|++||+.|+|+....++|+..||+
T Consensus        71 Dl~~i~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEE  150 (314)
T PRK07399         71 DLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEE  150 (314)
T ss_pred             CEEEEeccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhC
Confidence            1100 0  000000    0000000               0        0235678999999999999999999999995

>KOG0728|consensus

Probab=97.82  E-value=3.7e-06  Score=75.43  Aligned_cols=80  Identities=23%  Similarity=0.347  Sum_probs=49.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE-EEcCCccCcCCceEEEEeecCeeEeeeceeeecC---CcEEEEcCCCCC---
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV-LTTGVGTTTAGLTVSALRENGEWHLEAGALVLSD---GGVCCIDEFSSI---  313 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~-~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~---~gi~~IDEidk~---  313 (345)
                      .+||+||||||||.|+++++....-.+ .++|.     .|......++..++  -..++.|.   ..|+|.||||.+   
T Consensus       183 GvlLygppgtGktLlaraVahht~c~firvsgs-----elvqk~igegsrmv--relfvmarehapsiifmdeidsigs~  255 (404)
T KOG0728|consen  183 GVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGS-----ELVQKYIGEGSRMV--RELFVMAREHAPSIIFMDEIDSIGSS  255 (404)
T ss_pred             ceEEecCCCCchhHHHHHHHhhcceEEEEechH-----HHHHHHhhhhHHHH--HHHHHHHHhcCCceEeeecccccccc
Confidence            699999999999999999998765332 33321     11110000100000  01122222   579999999986   


Q ss_pred             --------CHHhHHHHHHHHhC
Q psy1366         314 --------KEHDRTSIHEAMEQ  327 (345)
Q Consensus       314 --------~~~~~~~l~eame~  327 (345)
                              +.+.|..++|.+.|
T Consensus       256 r~e~~~ggdsevqrtmlellnq  277 (404)
T KOG0728|consen  256 RVESGSGGDSEVQRTMLELLNQ  277 (404)
T ss_pred             cccCCCCccHHHHHHHHHHHHh
Confidence                    45778899999976

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

Probab=97.81  E-value=7.3e-06  Score=82.66  Aligned_cols=104  Identities=21%  Similarity=0.222  Sum_probs=62.7

Q ss_pred             cCcccccchHHHHHHHHHHhCCC--cccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc---CC
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGV--GRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT---AG  278 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~--~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~---~g  278 (345)
                      -+-++-|.+.+|.-+...+.-=.  .+...-|.++  .-.+||+||||||||.|+|+++..++-+.+..+.+...   +|
T Consensus       148 ~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGaki--PkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemfVG  225 (596)
T COG0465         148 TFADVAGVDEAKEELSELVDFLKNPKKYQALGAKI--PKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVG  225 (596)
T ss_pred             ChhhhcCcHHHHHHHHHHHHHHhCchhhHhccccc--ccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhhcC
Confidence            45678888888877655543211  1122223322  23899999999999999999999998876544322111   34


Q ss_pred             ceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCH
Q psy1366         279 LTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKE  315 (345)
Q Consensus       279 lt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~  315 (345)
                      ..++.+|+-   ..++.  . ....|+||||+|....
T Consensus       226 vGAsRVRdL---F~qAk--k-~aP~IIFIDEiDAvGr  256 (596)
T COG0465         226 VGASRVRDL---FEQAK--K-NAPCIIFIDEIDAVGR  256 (596)
T ss_pred             CCcHHHHHH---HHHhh--c-cCCCeEEEehhhhccc
Confidence            444444431   11111  1 1257999999997643

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.81  E-value=1.3e-05  Score=85.53  Aligned_cols=112  Identities=20%  Similarity=0.274  Sum_probs=65.2

Q ss_pred             ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC----------eEEEcCCccCc
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR----------SVLTTGVGTTT  276 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~----------~~~~~~~~~~~  276 (345)
                      .++|++..-..++-.|...            ..-|++|+||||+|||++++.++..+..          .++....++..
T Consensus       179 ~vigr~~ei~~~i~iL~r~------------~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~  246 (857)
T PRK10865        179 PVIGRDEEIRRTIQVLQRR------------TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALV  246 (857)
T ss_pred             cCCCCHHHHHHHHHHHhcC------------CcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhh
Confidence            4899976655555555433            1138999999999999999999987632          22211111111


Q ss_pred             CCceEEEEeecCeeEeeec-ee---eec-CCcEEEEcCCCCCCH--------HhHHHHHHHHhCCEEEEeeC
Q psy1366         277 AGLTVSALRENGEWHLEAG-AL---VLS-DGGVCCIDEFSSIKE--------HDRTSIHEAMEQQTISVAKD  335 (345)
Q Consensus       277 ~glt~~~~~~~~~~~~~~G-~l---~la-~~gi~~IDEidk~~~--------~~~~~l~eame~~~i~i~k~  335 (345)
                      +|.     +..|+|.-.-- .+   ..+ ..-|+||||++.+..        +.++.|..+|+.+.+.+--+
T Consensus       247 ag~-----~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g~l~~Iga  313 (857)
T PRK10865        247 AGA-----KYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGA  313 (857)
T ss_pred             hcc-----chhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcCCCeEEEc
Confidence            110     10122210000 01   111 245999999998853        24677888888888876443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.80  E-value=1.2e-05  Score=85.64  Aligned_cols=111  Identities=18%  Similarity=0.270  Sum_probs=65.0

Q ss_pred             ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC----------CeEEEcCCccCc
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP----------RSVLTTGVGTTT  276 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~----------~~~~~~~~~~~~  276 (345)
                      .++|.+.....++-.|...            ..-|++|+||||+|||.+++.++....          ..++....++-.
T Consensus       180 ~~igr~~ei~~~~~~L~r~------------~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~  247 (821)
T CHL00095        180 PVIGREKEIERVIQILGRR------------TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLL  247 (821)
T ss_pred             CCCCcHHHHHHHHHHHccc------------ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHh
Confidence            4889877666666666533            113999999999999999999988652          223322111111


Q ss_pred             CCceEEEEeecCeeEeeecee----eecCCcEEEEcCCCCCCH--------HhHHHHHHHHhCCEEEEee
Q psy1366         277 AGLTVSALRENGEWHLEAGAL----VLSDGGVCCIDEFSSIKE--------HDRTSIHEAMEQQTISVAK  334 (345)
Q Consensus       277 ~glt~~~~~~~~~~~~~~G~l----~la~~gi~~IDEidk~~~--------~~~~~l~eame~~~i~i~k  334 (345)
                      +|.     +--|+|.-.-..+    ....+.|+|||||+.+-.        +..+.|..+|+.+.+.+--
T Consensus       248 ag~-----~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg~l~~Ig  312 (821)
T CHL00095        248 AGT-----KYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARGELQCIG  312 (821)
T ss_pred             ccC-----CCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCCCcEEEE
Confidence            111     0012221110111    112356899999975432        3456788899998887643

>KOG0731|consensus

Probab=97.79  E-value=1e-05  Score=83.34  Aligned_cols=65  Identities=25%  Similarity=0.249  Sum_probs=43.3

Q ss_pred             cCcccccchHHHHHHHHHH--hCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         204 ICPAIYGLYLVKLCLAVVL--AGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l--~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -+.++-|.+.+|.-|.-..  .....+...-|.++.  --+||+||||||||.|||++|..+.-+++..
T Consensus       309 ~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiP--kGvLL~GPPGTGKTLLAKAiAGEAgVPF~sv  375 (774)
T KOG0731|consen  309 KFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIP--KGVLLVGPPGTGKTLLAKAIAGEAGVPFFSV  375 (774)
T ss_pred             ccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCc--CceEEECCCCCcHHHHHHHHhcccCCceeee
Confidence            3567788888887664332  111111222233322  2699999999999999999999998877644

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

Probab=97.78  E-value=3.1e-05  Score=81.18  Aligned_cols=115  Identities=22%  Similarity=0.280  Sum_probs=64.0

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC-----C-----CeEEEcCCc
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS-----P-----RSVLTTGVG  273 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~-----~-----~~~~~~~~~  273 (345)
                      +.| ++|.+..-.-++-.|...            ...|+||+||||||||.+++.++...     |     ..++.....
T Consensus       185 ~~~-liGR~~ei~~~i~iL~r~------------~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~  251 (758)
T PRK11034        185 IDP-LIGREKELERAIQVLCRR------------RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG  251 (758)
T ss_pred             CCc-CcCCCHHHHHHHHHHhcc------------CCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHH
Confidence            344 788865555555555432            11489999999999999999998653     1     112211110


Q ss_pred             cCcCCceEEEEeecCeeEeee----ceeeecCCcEEEEcCCCCC------C---HHhHHHHHHHHhCCEEEEeeCC
Q psy1366         274 TTTAGLTVSALRENGEWHLEA----GALVLSDGGVCCIDEFSSI------K---EHDRTSIHEAMEQQTISVAKDK  336 (345)
Q Consensus       274 ~~~~glt~~~~~~~~~~~~~~----G~l~la~~gi~~IDEidk~------~---~~~~~~l~eame~~~i~i~k~g  336 (345)
                          .+.+.. +-.|+|.-.-    ..+....++|+|||||+.+      +   .+.-+.|..+++.+.+.+--++
T Consensus       252 ----~llaG~-~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g~i~vIgAT  322 (758)
T PRK11034        252 ----SLLAGT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGST  322 (758)
T ss_pred             ----HHhccc-chhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCCCeEEEecC
Confidence                111100 0011221110    0112245789999999976      1   2233457788889888775544

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.77  E-value=2.9e-05  Score=77.70  Aligned_cols=29  Identities=31%  Similarity=0.415  Sum_probs=25.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .++||+||||||||++++++++.+...++
T Consensus       217 ~GILLyGPPGTGKT~LAKAlA~eL~~~i~  245 (512)
T TIGR03689       217 KGVLLYGPPGCGKTLIAKAVANSLAQRIG  245 (512)
T ss_pred             cceEEECCCCCcHHHHHHHHHHhhccccc
Confidence            47999999999999999999998765543

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.77  E-value=1.6e-05  Score=83.83  Aligned_cols=29  Identities=31%  Similarity=0.448  Sum_probs=25.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      -++||+||||||||+|++++++.++..++
T Consensus       213 ~giLL~GppGtGKT~laraia~~~~~~~i  241 (733)
T TIGR01243       213 KGVLLYGPPGTGKTLLAKAVANEAGAYFI  241 (733)
T ss_pred             ceEEEECCCCCChHHHHHHHHHHhCCeEE
Confidence            47999999999999999999998876554

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.

>KOG0744|consensus

Probab=97.74  E-value=1.1e-05  Score=74.91  Aligned_cols=55  Identities=24%  Similarity=0.322  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC
Q psy1366         213 LVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV  272 (345)
Q Consensus       213 ~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~  272 (345)
                      .++-|...+++.-  +. -+.+-+..+--|||.||||||||+|+|++++-+  ++.+.+.
T Consensus       154 ll~Ya~s~l~fse--k~-vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkL--SIR~~~~  208 (423)
T KOG0744|consen  154 LLSYAASALLFSE--KK-VNTNLITWNRLILLHGPPGTGKTSLCKALAQKL--SIRTNDR  208 (423)
T ss_pred             HHHHHHHHHHHHh--cC-CCCceeeeeeEEEEeCCCCCChhHHHHHHHHhh--eeeecCc
Confidence            3344445555533  11 123345566689999999999999999999865  3444443

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.73  E-value=2.1e-05  Score=74.97  Aligned_cols=108  Identities=17%  Similarity=0.161  Sum_probs=65.5

Q ss_pred             cccc-chHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe----EEEcCC--------c
Q psy1366         207 AIYG-LYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS----VLTTGV--------G  273 (345)
Q Consensus       207 ~i~G-~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~----~~~~~~--------~  273 (345)
                      .|.| |+.+.+.+.-++..|           |-.+-+||+||+|+||+++++.+++.+--.    ...+|.        .
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~-----------~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~   74 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKN-----------RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDS   74 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-----------CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhc
Confidence            4566 888888888887766           222345999999999999999998765211    000000        0


Q ss_pred             cCcCCceEEEEeecCeeEe----------eeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         274 TTTAGLTVSALRENGEWHL----------EAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       274 ~~~~glt~~~~~~~~~~~~----------~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .+...+... ..++....+          ...+ ..++..|++|||+++|+...+++|+..||+
T Consensus        75 ~~hpD~~~i-~~~~~~i~id~ir~l~~~~~~~~-~~~~~kvviI~~a~~~~~~a~NaLLK~LEE  136 (329)
T PRK08058         75 GNHPDVHLV-APDGQSIKKDQIRYLKEEFSKSG-VESNKKVYIIEHADKMTASAANSLLKFLEE  136 (329)
T ss_pred             CCCCCEEEe-ccccccCCHHHHHHHHHHHhhCC-cccCceEEEeehHhhhCHHHHHHHHHHhcC
Confidence            000011100 000000000          0000 335568999999999999999999999996

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.73  E-value=0.0001  Score=63.43  Aligned_cols=90  Identities=23%  Similarity=0.386  Sum_probs=49.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC---CC---eEEEcCC--ccCcCCceE---------EEEee-------cCeeEeee--
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS---PR---SVLTTGV--GTTTAGLTV---------SALRE-------NGEWHLEA--  294 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~---~~---~~~~~~~--~~~~~glt~---------~~~~~-------~~~~~~~~--  294 (345)
                      |++|.|+||+|||++++.+.+.+   +.   .+++...  .....|+..         ...+.       .|.|....  
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~~~~~v~Gf~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~~e~   80 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKKKGLPVGGFYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVDLES   80 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHHTCGGEEEEEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-HHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhccCCccceEEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEcHHH
Confidence            79999999999999999988877   22   2333221  111112111         11111       13333321  


Q ss_pred             ----c--eeee--cCCcEEEEcCCCCC---CHHhHHHHHHHHhCCEE
Q psy1366         295 ----G--ALVL--SDGGVCCIDEFSSI---KEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       295 ----G--~l~l--a~~gi~~IDEidk~---~~~~~~~l~eame~~~i  330 (345)
                          |  +|..  .+..+++||||.+|   .+..+.++.++|+...-
T Consensus        81 fe~~~~~~L~~~~~~~~liviDEIG~mEl~~~~F~~~v~~~l~s~~~  127 (168)
T PF03266_consen   81 FEEIGLPALRNALSSSDLIVIDEIGKMELKSPGFREAVEKLLDSNKP  127 (168)
T ss_dssp             HHCCCCCCCHHHHHCCHEEEE---STTCCC-CHHHHHHHHHHCTTSE
T ss_pred             HHHHHHHHHHhhcCCCCEEEEeccchhhhcCHHHHHHHHHHHcCCCc
Confidence                1  1222  36689999999986   45778899999986543

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.

>KOG0730|consensus

Probab=97.72  E-value=5.3e-06  Score=83.29  Aligned_cols=61  Identities=25%  Similarity=0.230  Sum_probs=41.4

Q ss_pred             cccccchHHHHHHHHHHhCCCcc---cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGR---GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~---~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .+|-|+|.+|+-+-.+..-....   ...-|  +...--|||+||||||||+++|++|..+.-++.
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~G--i~ppkGVLlyGPPGC~KT~lAkalAne~~~nFl  497 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFG--ISPPKGVLLYGPPGCGKTLLAKALANEAGMNFL  497 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhc--CCCCceEEEECCCCcchHHHHHHHhhhhcCCee
Confidence            46788999998877554432211   01111  122237999999999999999999998876553

>KOG0743|consensus

Probab=97.70  E-value=1.9e-05  Score=76.41  Aligned_cols=96  Identities=17%  Similarity=0.159  Sum_probs=58.0

Q ss_pred             CcccccchHHHHHHHHHHhCCCccc---CCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRG---GEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTV  281 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~---~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~  281 (345)
                      +..+.=...+|+.|.--|..-....   ..-|.  ...---||+||||||||+++-++|..+.-.+|.         |..
T Consensus       200 F~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGk--awKRGYLLYGPPGTGKSS~IaAmAn~L~ydIyd---------LeL  268 (457)
T KOG0743|consen  200 FETLAMDPDLKERIIDDLDDFIKGKDFYKRVGK--AWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYD---------LEL  268 (457)
T ss_pred             ccccccChhHHHHHHHHHHHHHhcchHHHhcCc--chhccceeeCCCCCCHHHHHHHHHhhcCCceEE---------eee
Confidence            3334445677777765544322111   11111  112368999999999999999999999988874         333


Q ss_pred             EEEeecCeeEeeeceeeecCCcEEEEcCCCCC
Q psy1366         282 SALRENGEWHLEAGALVLSDGGVCCIDEFSSI  313 (345)
Q Consensus       282 ~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~  313 (345)
                      +.++++.+  +.-=.+.-.+..|++|.+||..
T Consensus       269 t~v~~n~d--Lr~LL~~t~~kSIivIEDIDcs  298 (457)
T KOG0743|consen  269 TEVKLDSD--LRHLLLATPNKSILLIEDIDCS  298 (457)
T ss_pred             ccccCcHH--HHHHHHhCCCCcEEEEeecccc
Confidence            33333322  2222233356789999999864

>PRK06893 DNA replication initiation factor; Validated

Probab=97.67  E-value=7.5e-05  Score=67.48  Aligned_cols=70  Identities=17%  Similarity=0.322  Sum_probs=41.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC----CCeEEEcCCccCcCCceEEEEeecCeeEeeecee-eecCCcEEEEcCCCCCC-
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS----PRSVLTTGVGTTTAGLTVSALRENGEWHLEAGAL-VLSDGGVCCIDEFSSIK-  314 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l-~la~~gi~~IDEidk~~-  314 (345)
                      .++|+|+||+|||.|++++++.+    .+..|.+......  ..             +..+ .+.+..+++|||++.+. 
T Consensus        41 ~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~--~~-------------~~~~~~~~~~dlLilDDi~~~~~  105 (229)
T PRK06893         41 FFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQY--FS-------------PAVLENLEQQDLVCLDDLQAVIG  105 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhh--hh-------------HHHHhhcccCCEEEEeChhhhcC
Confidence            68999999999999999998764    2334433211000  00             0000 11234699999999974 


Q ss_pred             -HHhHHHHHHHH
Q psy1366         315 -EHDRTSIHEAM  325 (345)
Q Consensus       315 -~~~~~~l~eam  325 (345)
                       ++.+..|+..+
T Consensus       106 ~~~~~~~l~~l~  117 (229)
T PRK06893        106 NEEWELAIFDLF  117 (229)
T ss_pred             ChHHHHHHHHHH
Confidence             33344555544

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.66  E-value=2.7e-05  Score=83.30  Aligned_cols=113  Identities=19%  Similarity=0.263  Sum_probs=64.5

Q ss_pred             ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe----------EEEcCCccCc
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS----------VLTTGVGTTT  276 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~----------~~~~~~~~~~  276 (345)
                      .++|++..-..++-.|.....            -|++|+||||+|||.+++.++......          ++....++  
T Consensus       174 ~~igr~~ei~~~~~~l~r~~~------------~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~--  239 (852)
T TIGR03346       174 PVIGRDEEIRRTIQVLSRRTK------------NNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA--  239 (852)
T ss_pred             cCCCcHHHHHHHHHHHhcCCC------------CceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH--
Confidence            388997666656655654311            389999999999999999998865321          11111000  


Q ss_pred             CCceEEEEeecCeeEee-eceee---ec-CCcEEEEcCCCCCCH--------HhHHHHHHHHhCCEEEEeeCC
Q psy1366         277 AGLTVSALRENGEWHLE-AGALV---LS-DGGVCCIDEFSSIKE--------HDRTSIHEAMEQQTISVAKDK  336 (345)
Q Consensus       277 ~glt~~~~~~~~~~~~~-~G~l~---la-~~gi~~IDEidk~~~--------~~~~~l~eame~~~i~i~k~g  336 (345)
                        +.+.. +-.|+|... ...+.   .. .+.|+||||++.+..        +..+.|..+|+.+.+.+--++
T Consensus       240 --l~a~~-~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g~i~~IgaT  309 (852)
T TIGR03346       240 --LIAGA-KYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARGELHCIGAT  309 (852)
T ss_pred             --Hhhcc-hhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcCceEEEEeC
Confidence              00000 000111000 00011   11 256999999998742        345677788888888775443

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.

>PHA01747 putative ATP-dependent protease

Probab=97.65  E-value=0.00033  Score=66.44  Aligned_cols=88  Identities=19%  Similarity=0.206  Sum_probs=63.8

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCC---
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIK---  314 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~---  314 (345)
                      .+.|++=.||.|||||.+.+-+.+++|.++  +|...+.+-|..-...  +    ..|.+-+.  -++++||+..+.   
T Consensus       189 ~NyNliELgPRGTGKS~~f~eis~fsp~~i--SGG~~TvA~LFyN~~t--~----~~GLVg~~--D~VaFDEVa~i~f~~  258 (425)
T PHA01747        189 RPVHIIELSNRGTGKTTTFVILQELFNFRY--YTEPPTYANLVYDAKT--N----ALGLVFLS--NGLIFDEIQTWKDSN  258 (425)
T ss_pred             CCeeEEEecCCCCChhhHHHHhhhcCCcee--eCCCCchHHheEecCC--C----ceeEEeec--cEEEEEccccccCCC
Confidence            447999999999999999999999888777  6655555555543211  1    24555443  368899999976   


Q ss_pred             -HHhHHHHHHHHhCCEEEEeeC
Q psy1366         315 -EHDRTSIHEAMEQQTISVAKD  335 (345)
Q Consensus       315 -~~~~~~l~eame~~~i~i~k~  335 (345)
                       .+....|...||++..+-.+.
T Consensus       259 ~kdiv~IMKdYMesG~FsRG~~  280 (425)
T PHA01747        259 MRAINSTLSTGMENCVWTRGAG  280 (425)
T ss_pred             HHHHHHHHHHHhhcceeecCCC
Confidence             345567778899998876554

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.60  E-value=0.00019  Score=60.43  Aligned_cols=27  Identities=19%  Similarity=0.407  Sum_probs=23.3

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.+++.|+||+|||+++..+++.+..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~   31 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLRE   31 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHh
Confidence            368999999999999999999976643

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=97.52  E-value=0.00016  Score=63.09  Aligned_cols=86  Identities=15%  Similarity=0.118  Sum_probs=50.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc------------CcCCceEEEEeecCeeEe--------eecee-ee
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT------------TTAGLTVSALRENGEWHL--------EAGAL-VL  299 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~------------~~~glt~~~~~~~~~~~~--------~~G~l-~l  299 (345)
                      .+||+||||+|||++++.+++.+--.-...+.+.            ...++.. ...+++....        ..... ..
T Consensus        16 ~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~-~~~~~~~~~~~~i~~i~~~~~~~~~~   94 (188)
T TIGR00678        16 AYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHR-LEPEGQSIKVDQVRELVEFLSRTPQE   94 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEE-eccccCcCCHHHHHHHHHHHccCccc
Confidence            5999999999999999999876532100000000            0001100 0000000000        00000 23


Q ss_pred             cCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         300 SDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       300 a~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ++..|++|||+++|+++.+++|+..||+
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~  122 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEE  122 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcC
Confidence            4567999999999999999999999987

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.

>KOG0726|consensus

Probab=97.51  E-value=1.2e-05  Score=73.57  Aligned_cols=81  Identities=21%  Similarity=0.327  Sum_probs=46.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeE-EEcCCccCcCCceEEEEeecCeeEeeeceeeec---CCcEEEEcCCCCCC-
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSV-LTTGVGTTTAGLTVSALRENGEWHLEAGALVLS---DGGVCCIDEFSSIK-  314 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~-~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la---~~gi~~IDEidk~~-  314 (345)
                      -.|+|+|+||||||.||+++|+.....+ .+.|     ..|-.....++...+-  -.+-.|   ...|+||||||.+. 
T Consensus       220 KGVIlyG~PGTGKTLLAKAVANqTSATFlRvvG-----seLiQkylGdGpklvR--qlF~vA~e~apSIvFiDEIdAiGt  292 (440)
T KOG0726|consen  220 KGVILYGEPGTGKTLLAKAVANQTSATFLRVVG-----SELIQKYLGDGPKLVR--ELFRVAEEHAPSIVFIDEIDAIGT  292 (440)
T ss_pred             CeeEEeCCCCCchhHHHHHHhcccchhhhhhhh-----HHHHHHHhccchHHHH--HHHHHHHhcCCceEEeehhhhhcc
Confidence            3799999999999999999997543211 1111     0111111111100000  000001   25799999999753 


Q ss_pred             ----------HHhHHHHHHHHhC
Q psy1366         315 ----------EHDRTSIHEAMEQ  327 (345)
Q Consensus       315 ----------~~~~~~l~eame~  327 (345)
                                .+.|..++|.+.|
T Consensus       293 KRyds~SggerEiQrtmLELLNQ  315 (440)
T KOG0726|consen  293 KRYDSNSGGEREIQRTMLELLNQ  315 (440)
T ss_pred             ccccCCCccHHHHHHHHHHHHHh
Confidence                      3567889999976

>KOG0740|consensus

Probab=97.51  E-value=2.4e-05  Score=75.93  Aligned_cols=101  Identities=29%  Similarity=0.252  Sum_probs=56.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCcc-cCCCCCceeee-eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAE-SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVS  282 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~-~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~  282 (345)
                      .-+|.|.+.+|+++..+.+=...+ ....|.  |.. -.+||.||||+|||.|++++|..+...++-.    ++..|+..
T Consensus       152 ~~di~gl~~~k~~l~e~vi~p~lr~d~F~gl--r~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~i----SassLtsK  225 (428)
T KOG0740|consen  152 WDDIAGLEDAKQSLKEAVILPLLRPDLFLGL--REPVRGLLLFGPPGTGKTMLAKAIATESGATFFNI----SASSLTSK  225 (428)
T ss_pred             ccCCcchhhHHHHhhhhhhhcccchHhhhcc--ccccchhheecCCCCchHHHHHHHHhhhcceEeec----cHHHhhhh
Confidence            346788888888876554432211 111111  111 2799999999999999999999876554432    12223322


Q ss_pred             EEeecCeeEeeeceee---ecCCcEEEEcCCCCC
Q psy1366         283 ALRENGEWHLEAGALV---LSDGGVCCIDEFSSI  313 (345)
Q Consensus       283 ~~~~~~~~~~~~G~l~---la~~gi~~IDEidk~  313 (345)
                      +.-++ +..+.+ .+.   ....+|+||||+|++
T Consensus       226 ~~Ge~-eK~vra-lf~vAr~~qPsvifidEidsl  257 (428)
T KOG0740|consen  226 YVGES-EKLVRA-LFKVARSLQPSVIFIDEIDSL  257 (428)
T ss_pred             ccChH-HHHHHH-HHHHHHhcCCeEEEechhHHH
Confidence            22111 110100 011   123689999999874

>KOG0729|consensus

Probab=97.48  E-value=2.3e-05  Score=71.01  Aligned_cols=79  Identities=22%  Similarity=0.349  Sum_probs=47.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc----CCceEEEEeecCeeEeeeceeeec-CCcEEEEcCCCCC--
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT----AGLTVSALRENGEWHLEAGALVLS-DGGVCCIDEFSSI--  313 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~----~glt~~~~~~~~~~~~~~G~l~la-~~gi~~IDEidk~--  313 (345)
                      .+||+||||||||.++|++++-....+... .+|..    .|-.+..+|+       --.+... ...++|+||+|.+  
T Consensus       213 gvllygppgtgktl~aravanrtdacfirv-igselvqkyvgegarmvre-------lf~martkkaciiffdeidaigg  284 (435)
T KOG0729|consen  213 GVLLYGPPGTGKTLCARAVANRTDACFIRV-IGSELVQKYVGEGARMVRE-------LFEMARTKKACIIFFDEIDAIGG  284 (435)
T ss_pred             ceEEeCCCCCchhHHHHHHhcccCceEEee-hhHHHHHHHhhhhHHHHHH-------HHHHhcccceEEEEeeccccccC
Confidence            799999999999999999997655433211 11111    1111111111       0001111 2478999999864  


Q ss_pred             ---------CHHhHHHHHHHHhC
Q psy1366         314 ---------KEHDRTSIHEAMEQ  327 (345)
Q Consensus       314 ---------~~~~~~~l~eame~  327 (345)
                               +.+.|..++|.+.|
T Consensus       285 arfddg~ggdnevqrtmleli~q  307 (435)
T KOG0729|consen  285 ARFDDGAGGDNEVQRTMLELINQ  307 (435)
T ss_pred             ccccCCCCCcHHHHHHHHHHHHh
Confidence                     34678899999876

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.47  E-value=0.00014  Score=57.68  Aligned_cols=84  Identities=19%  Similarity=0.304  Sum_probs=50.9

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHH---
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEH---  316 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~---  316 (345)
                      |.|+|+||+|||.+++.+++.+-......    ......   .+.  ..-|   -|-   ....++++|||......   
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~----~~~~vy---~~~~~~~~w---~gY---~~q~vvi~DD~~~~~~~~~~   67 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEP----TKDSVY---TRNPGDKFW---DGY---QGQPVVIIDDFGQDNDGYNY   67 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccC----CCCcEE---eCCCccchh---hcc---CCCcEEEEeecCccccccch
Confidence            67999999999999999776543322000    000000   011  1111   111   13578999999998854   


Q ss_pred             -hHHHHHHHHhCCEEEEeeCCeE
Q psy1366         317 -DRTSIHEAMEQQTISVAKDKES  338 (345)
Q Consensus       317 -~~~~l~eame~~~i~i~k~gi~  338 (345)
                       +...|+..+..-......|++.
T Consensus        68 ~~~~~l~~l~s~~~~~~~~a~~~   90 (107)
T PF00910_consen   68 SDESELIRLISSNPFQPNMADLE   90 (107)
T ss_pred             HHHHHHHHHHhcCCcccccccHh
Confidence             5667788887777777666543

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

>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=97.46  E-value=0.00045  Score=62.50  Aligned_cols=73  Identities=27%  Similarity=0.363  Sum_probs=45.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTS  320 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~  320 (345)
                      .-.+.||+|||||...+.+++.+++.+++-......   ....+.     .+-.|+.  ..|..+|+|||++++.+....
T Consensus        34 ~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~---~~~~l~-----ril~G~~--~~GaW~cfdefnrl~~~vLS~  103 (231)
T PF12774_consen   34 GGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQM---DYQSLS-----RILKGLA--QSGAWLCFDEFNRLSEEVLSV  103 (231)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS----HHHHH-----HHHHHHH--HHT-EEEEETCCCSSHHHHHH
T ss_pred             CCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccc---cHHHHH-----HHHHHHh--hcCchhhhhhhhhhhHHHHHH
Confidence            456899999999999999999999987764322111   000000     0011221  236689999999999887766


Q ss_pred             HHH
Q psy1366         321 IHE  323 (345)
Q Consensus       321 l~e  323 (345)
                      +.+
T Consensus       104 i~~  106 (231)
T PF12774_consen  104 ISQ  106 (231)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            633

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.46  E-value=6.9e-05  Score=74.74  Aligned_cols=114  Identities=18%  Similarity=0.129  Sum_probs=75.2

Q ss_pred             ccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC----------
Q psy1366         203 SICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV----------  272 (345)
Q Consensus       203 s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~----------  272 (345)
                      ..++++.|++.+.+.|.-++..+           |-.+-.||.|+-|||||+++|.+|+.+.=.-...+.          
T Consensus        13 ~~F~evvGQe~v~~~L~nal~~~-----------ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~   81 (515)
T COG2812          13 KTFDDVVGQEHVVKTLSNALENG-----------RIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKE   81 (515)
T ss_pred             ccHHHhcccHHHHHHHHHHHHhC-----------cchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHh
Confidence            45678899999999999999977           333579999999999999999999877421101111          


Q ss_pred             -----ccCcCCceEEEEee---cCeeEeee-ceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         273 -----GTTTAGLTVSALRE---NGEWHLEA-GALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       273 -----~~~~~glt~~~~~~---~~~~~~~~-G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                           ......+.++..+.   ..+..-+. -+-+.+...|..|||.+.++....++||.-+|+
T Consensus        82 I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEE  145 (515)
T COG2812          82 INEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEE  145 (515)
T ss_pred             hhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhccccc
Confidence                 11111122221110   00000000 011345678999999999999999999999997

>PRK12377 putative replication protein; Provisional

Probab=97.45  E-value=0.00012  Score=66.94  Aligned_cols=84  Identities=20%  Similarity=0.311  Sum_probs=49.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eE-EEcCCccCcCCceEEEEeecCeeEeeecee-eecCCcEEEEcCC--CC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SV-LTTGVGTTTAGLTVSALRENGEWHLEAGAL-VLSDGGVCCIDEF--SS  312 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~-~~~~~~~~~~glt~~~~~~~~~~~~~~G~l-~la~~gi~~IDEi--dk  312 (345)
                      .+++|+|+||||||.|+.+++..+..   .+ |++.. .-...+..+.  +.+. .. ...+ .+.+--+++||||  ..
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~-~l~~~l~~~~--~~~~-~~-~~~l~~l~~~dLLiIDDlg~~~  176 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVP-DVMSRLHESY--DNGQ-SG-EKFLQELCKVDLLVLDEIGIQR  176 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHH-HHHHHHHHHH--hccc-hH-HHHHHHhcCCCEEEEcCCCCCC
Confidence            48999999999999999999987632   11 11110 0000000000  0000 00 0111 1345679999999  45


Q ss_pred             CCHHhHHHHHHHHhCC
Q psy1366         313 IKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       313 ~~~~~~~~l~eame~~  328 (345)
                      .++..+..|+++++.+
T Consensus       177 ~s~~~~~~l~~ii~~R  192 (248)
T PRK12377        177 ETKNEQVVLNQIIDRR  192 (248)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            6777888999998765

>PRK06620 hypothetical protein; Validated

Probab=97.41  E-value=0.00039  Score=62.20  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=21.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .++|+||||+|||.|++++++...
T Consensus        46 ~l~l~Gp~G~GKThLl~a~~~~~~   69 (214)
T PRK06620         46 TLLIKGPSSSGKTYLTKIWQNLSN   69 (214)
T ss_pred             eEEEECCCCCCHHHHHHHHHhccC
Confidence            699999999999999999887654

>CHL00206 ycf2 Ycf2; Provisional

Probab=97.39  E-value=0.00013  Score=81.32  Aligned_cols=31  Identities=29%  Similarity=0.477  Sum_probs=26.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -.|||+||||||||.|||++|..+.-+++..
T Consensus      1631 KGILLiGPPGTGKTlLAKALA~es~VPFIsI 1661 (2281)
T CHL00206       1631 RGILVIGSIGTGRSYLVKYLATNSYVPFITV 1661 (2281)
T ss_pred             CceEEECCCCCCHHHHHHHHHHhcCCceEEE
Confidence            3799999999999999999999988765443

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.34  E-value=0.00015  Score=65.88  Aligned_cols=23  Identities=26%  Similarity=0.302  Sum_probs=21.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +++|+||||+|||.|++++++.+
T Consensus        47 ~l~l~Gp~G~GKThLl~a~~~~~   69 (235)
T PRK08084         47 YIYLWSREGAGRSHLLHAACAEL   69 (235)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            89999999999999999988754

>PRK06526 transposase; Provisional

Probab=97.33  E-value=2.4e-05  Score=71.76  Aligned_cols=83  Identities=20%  Similarity=0.278  Sum_probs=45.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eE-EEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCC-
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SV-LTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIK-  314 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~-~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~-  314 (345)
                      .|++|+||||||||.|+.+++..+-.   .+ |.+.. .-...+..+  ...+.  +....-.+..--+++|||++..+ 
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~-~l~~~l~~~--~~~~~--~~~~l~~l~~~dlLIIDD~g~~~~  173 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAA-QWVARLAAA--HHAGR--LQAELVKLGRYPLLIVDEVGYIPF  173 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHH-HHHHHHHHH--HhcCc--HHHHHHHhccCCEEEEcccccCCC
Confidence            58999999999999999999765421   11 11000 000000000  00010  00000112345689999999864 


Q ss_pred             -HHhHHHHHHHHhC
Q psy1366         315 -EHDRTSIHEAMEQ  327 (345)
Q Consensus       315 -~~~~~~l~eame~  327 (345)
                       +..+..|++.++.
T Consensus       174 ~~~~~~~L~~li~~  187 (254)
T PRK06526        174 EPEAANLFFQLVSS  187 (254)
T ss_pred             CHHHHHHHHHHHHH
Confidence             5556678888754

>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=97.32  E-value=0.00021  Score=66.22  Aligned_cols=86  Identities=17%  Similarity=0.163  Sum_probs=45.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcC----Cc-cCcCCc----eEEEEeecCeeEeeeceeeecCCcEEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG----VG-TTTAGL----TVSALRENGEWHLEAGALVLSDGGVCCIDEF  310 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~----~~-~~~~gl----t~~~~~~~~~~~~~~G~l~la~~gi~~IDEi  310 (345)
                      .|+||+||+|+|||.+++..-+.++...|...    .. +++..+    .....+..+. .+.|   .....-|+|||++
T Consensus        34 ~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~-~~gP---~~~k~lv~fiDDl  109 (272)
T PF12775_consen   34 RPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTSNQLQKIIESKLEKRRGR-VYGP---PGGKKLVLFIDDL  109 (272)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHHHHHHHCCCTTECECTTE-EEEE---ESSSEEEEEEETT
T ss_pred             CcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCHHHHHHHHhhcEEcCCCC-CCCC---CCCcEEEEEeccc
Confidence            59999999999999999887766655332211    11 111100    0011111221 1222   1123458999999


Q ss_pred             CCCCHHh------HHHHHHHHhCCE
Q psy1366         311 SSIKEHD------RTSIHEAMEQQT  329 (345)
Q Consensus       311 dk~~~~~------~~~l~eame~~~  329 (345)
                      +.-.++.      ...|.+.|+++-
T Consensus       110 N~p~~d~ygtq~~iElLRQ~i~~~g  134 (272)
T PF12775_consen  110 NMPQPDKYGTQPPIELLRQLIDYGG  134 (272)
T ss_dssp             T-S---TTS--HHHHHHHHHHHCSE
T ss_pred             CCCCCCCCCCcCHHHHHHHHHHhcC
Confidence            8765432      356677777754

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.32  E-value=0.00014  Score=70.90  Aligned_cols=52  Identities=23%  Similarity=0.193  Sum_probs=34.3

Q ss_pred             cCc-ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         204 ICP-AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       204 ~~p-~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..| .++|.+.....+...+..+...        ....+++++|+||+|||.+++.+.+.+
T Consensus        27 ~~P~~l~~Re~e~~~l~~~l~~~~~~--------~~~~~~lI~G~~GtGKT~l~~~v~~~l   79 (394)
T PRK00411         27 YVPENLPHREEQIEELAFALRPALRG--------SRPLNVLIYGPPGTGKTTTVKKVFEEL   79 (394)
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHHhCC--------CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            344 4667766555555555333110        011379999999999999999998765

>PRK08116 hypothetical protein; Validated

Probab=97.31  E-value=6.6e-05  Score=69.50  Aligned_cols=86  Identities=16%  Similarity=0.219  Sum_probs=49.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC---Ce-EEEcCCccCcCCceEEEEeecCeeEeeecee-eecCCcEEEEcCC--CC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP---RS-VLTTGVGTTTAGLTVSALRENGEWHLEAGAL-VLSDGGVCCIDEF--SS  312 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~---~~-~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l-~la~~gi~~IDEi--dk  312 (345)
                      ..++|+|+||+|||.|+.++++.+-   .+ +|++... -...+..+. .+..... ....+ .+.+..+++|||+  ++
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~-ll~~i~~~~-~~~~~~~-~~~~~~~l~~~dlLviDDlg~e~  191 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQ-LLNRIKSTY-KSSGKED-ENEIIRSLVNADLLILDDLGAER  191 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH-HHHHHHHHH-hcccccc-HHHHHHHhcCCCEEEEecccCCC
Confidence            4699999999999999999988652   22 2322100 000000000 0000000 00111 1345579999999  56


Q ss_pred             CCHHhHHHHHHHHhCC
Q psy1366         313 IKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       313 ~~~~~~~~l~eame~~  328 (345)
                      .++..+..|+++++.+
T Consensus       192 ~t~~~~~~l~~iin~r  207 (268)
T PRK08116        192 DTEWAREKVYNIIDSR  207 (268)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            7777888899988754

>KOG0651|consensus

Probab=97.30  E-value=9.2e-05  Score=68.51  Aligned_cols=82  Identities=21%  Similarity=0.250  Sum_probs=48.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC---ccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCC----
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV---GTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSS----  312 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~---~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk----  312 (345)
                      .-+||+||||||||.+++++++-..-.......   -+...|-.+...|+.  | -.|--.   -..++|+||||.    
T Consensus       167 kg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyiGEsaRlIRem--f-~yA~~~---~pciifmdeiDAigGR  240 (388)
T KOG0651|consen  167 KGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIGESARLIRDM--F-RYAREV---IPCIIFMDEIDAIGGR  240 (388)
T ss_pred             ceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhcccHHHHHHHH--H-HHHhhh---CceEEeehhhhhhccE
Confidence            479999999999999999999987754322211   111222222222221  0 001000   148999999985    


Q ss_pred             -------CCHHhHHHHHHHHhC
Q psy1366         313 -------IKEHDRTSIHEAMEQ  327 (345)
Q Consensus       313 -------~~~~~~~~l~eame~  327 (345)
                             .+...|..|.|.+.|
T Consensus       241 r~se~Ts~dreiqrTLMeLlnq  262 (388)
T KOG0651|consen  241 RFSEGTSSDREIQRTLMELLNQ  262 (388)
T ss_pred             EeccccchhHHHHHHHHHHHHh
Confidence                   344566777777764

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.29  E-value=0.00037  Score=56.62  Aligned_cols=61  Identities=16%  Similarity=0.200  Sum_probs=47.2

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..|..+|...+|||..++..++-++.+-.....     -+..+-+.|-|+||||||.+++.+|+.+
T Consensus        17 ~~L~~~L~~~l~GQhla~~~v~~ai~~~l~~~~-----p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   17 TGLEKDLQRNLFGQHLAVEVVVNAIKGHLANPN-----PRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHHHHcCCC-----CCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            456777888899999999988888876532211     1333677899999999999999999864

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

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.29  E-value=0.00045  Score=61.59  Aligned_cols=89  Identities=21%  Similarity=0.294  Sum_probs=50.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe--------EEEcCCccCcCC-ceEEEEeecCe--eEee--e---cee--ee-c
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS--------VLTTGVGTTTAG-LTVSALRENGE--WHLE--A---GAL--VL-S  300 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~--------~~~~~~~~~~~g-lt~~~~~~~~~--~~~~--~---G~l--~l-a  300 (345)
                      .|.|++||||+|||+++|-+++++.-.        +-+....+..+| +.+--..+-+.  -.+.  |   |.+  +. -
T Consensus       138 lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~~gmmmaIrsm  217 (308)
T COG3854         138 LNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKAEGMMMAIRSM  217 (308)
T ss_pred             eeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHHHHHHHHHHhc
Confidence            699999999999999999999876432        211222222221 10000000000  0000  0   111  01 1


Q ss_pred             CCcEEEEcCCCCCCHHhHHHHHHHHhCCEE
Q psy1366         301 DGGVCCIDEFSSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       301 ~~gi~~IDEidk~~~~~~~~l~eame~~~i  330 (345)
                      ..-|+.+|||..+.+.  .++++|++-|.=
T Consensus       218 ~PEViIvDEIGt~~d~--~A~~ta~~~GVk  245 (308)
T COG3854         218 SPEVIIVDEIGTEEDA--LAILTALHAGVK  245 (308)
T ss_pred             CCcEEEEeccccHHHH--HHHHHHHhcCcE
Confidence            2578999999997664  689999988743

>TIGR02653 Lon_rel_chp conserved hypothetical protein

Probab=97.26  E-value=0.001  Score=67.65  Aligned_cols=132  Identities=26%  Similarity=0.269  Sum_probs=88.2

Q ss_pred             HHHHHHHHHhhccChhhHHHHHHhcc--CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHH
Q psy1366         179 RAEVTQFWEDHKYDGLAARNHILASI--CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEIL  256 (345)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~l~~s~--~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~  256 (345)
                      .+.+.+-.+.+..+.|.  +.|++|+  -|+-+. +..|..++.=|+==+.          .|.|++=.||-|||||.+-
T Consensus       167 l~~~~~~R~~FT~dEWi--d~LlrSiG~eP~~~~-~r~K~~~L~RliPlVE----------~N~Nl~ELgPrgTGKS~~y  233 (675)
T TIGR02653       167 MNEVFEGRRHFTSDEWI--DVLLRSVGMEPTNLE-RRTKWHLLTRLIPLVE----------NNYNLCELGPRGTGKSHVY  233 (675)
T ss_pred             HHHHHHHHHhCCHHHHH--HHHHHhcCCCccccC-HHHHHHHHHhhhhhcc----------cccceEEECCCCCCcceee
Confidence            44554444555567774  7788886  554443 4666666555553333          3369999999999999997


Q ss_pred             HHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCC---HHhHHHHHHHHhCCEEEEe
Q psy1366         257 KFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIK---EHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       257 ~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~---~~~~~~l~eame~~~i~i~  333 (345)
                      +   +++|.+..++|...+.+-|+.-...  +    ..|.+-+  --++++||+..++   ++..+.|-..||+|+.+--
T Consensus       234 ~---eiSp~~~liSGG~~T~A~LFyn~~~--~----~~GlVg~--~D~VaFDEva~i~f~d~d~v~imK~YM~sG~FsRG  302 (675)
T TIGR02653       234 K---ECSPNSILMSGGQTTVANLFYNMST--R----QIGLVGM--WDVVAFDEVAGIEFKDKDGVQIMKDYMASGSFARG  302 (675)
T ss_pred             e---ccCCceEEEECCccchhHeeEEcCC--C----ceeEEee--ccEEEEeeccccccCCHHHHHHHHHHhhcCccccc
Confidence            7   6778999999887777777664322  1    2444432  3478999998754   4445677788999887654


Q ss_pred             e
Q psy1366         334 K  334 (345)
Q Consensus       334 k  334 (345)
                      +
T Consensus       303 ~  303 (675)
T TIGR02653       303 K  303 (675)
T ss_pred             c
Confidence            3

This model describes a protein family of unknown function, about 690 residues in length, in which some members show C-terminal sequence similarity to Pfam model pfam05362, which is the Lon protease C-terminal proteolytic domain, from MEROPS family S16. However, the annotated catalytic sites of E. coli Lon protease are not conserved in members of this family. Members have a motif GP[RK][GS]TGKS, similar to the ATP-binding P-loop motif GxxGxGK[ST].

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.22  E-value=0.00037  Score=70.18  Aligned_cols=42  Identities=12%  Similarity=0.102  Sum_probs=34.8

Q ss_pred             eceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeC
Q psy1366         294 AGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKD  335 (345)
Q Consensus       294 ~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~  335 (345)
                      .|+|..|++|++=+=|+-|.+.+....|+.|-+++.|...++
T Consensus       248 ~G~L~~aNrGl~EFvEm~K~~~~~L~~LLtatQE~~i~~~~~  289 (644)
T PRK15455        248 SGGLCRANQGLLEFVEMFKAPIKVLHPLLTATQEGNYNGTEG  289 (644)
T ss_pred             CchhhhccCCcEeeHHHhcCcHHHHHHhcCCCccCcccCCCC
Confidence            678889998887777999999999999999999998855443

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.19  E-value=0.0001  Score=76.41  Aligned_cols=29  Identities=34%  Similarity=0.501  Sum_probs=25.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      ++||+||||+|||+++++++..++.+++.
T Consensus       187 gill~G~~G~GKt~~~~~~a~~~~~~f~~  215 (644)
T PRK10733        187 GVLMVGPPGTGKTLLAKAIAGEAKVPFFT  215 (644)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHcCCCEEE
Confidence            69999999999999999999988766543

>KOG2170|consensus

Probab=97.19  E-value=0.00017  Score=66.55  Aligned_cols=120  Identities=15%  Similarity=0.172  Sum_probs=80.1

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcC
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTA  277 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~  277 (345)
                      +.|-..+...++||..+|..+.-++.+-.....     -+...-+-|-|.|||||+..++.+++.+    |..|..|.-+
T Consensus        74 ~~Le~dL~~~lfGQHla~~~Vv~alk~~~~n~~-----p~KPLvLSfHG~tGTGKN~Va~iiA~n~----~~~Gl~S~~V  144 (344)
T KOG2170|consen   74 DGLEKDLARALFGQHLAKQLVVNALKSHWANPN-----PRKPLVLSFHGWTGTGKNYVAEIIAENL----YRGGLRSPFV  144 (344)
T ss_pred             hHHHHHHHHHhhchHHHHHHHHHHHHHHhcCCC-----CCCCeEEEecCCCCCchhHHHHHHHHHH----HhccccchhH
Confidence            556777888899999999999998887533221     2334678889999999999999999865    3344433332


Q ss_pred             CceEEEE-eec----CeeEe-----eeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHh
Q psy1366         278 GLTVSAL-REN----GEWHL-----EAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAME  326 (345)
Q Consensus       278 glt~~~~-~~~----~~~~~-----~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame  326 (345)
                      -...+.. --.    ..|..     ..|.+...+..+.++||.|||++...++|.-.++
T Consensus       145 ~~fvat~hFP~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfLd  203 (344)
T KOG2170|consen  145 HHFVATLHFPHASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFLD  203 (344)
T ss_pred             HHhhhhccCCChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcCHhHHHHHhhhhc
Confidence            2222110 000    00100     1233344567899999999999999999988887

>KOG0990|consensus

Probab=97.17  E-value=8e-05  Score=69.14  Aligned_cols=90  Identities=19%  Similarity=0.216  Sum_probs=54.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeec-------CeeEeeec--eee-ecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALREN-------GEWHLEAG--ALV-LSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~-------~~~~~~~G--~l~-la~~gi~~IDE  309 (345)
                      .|+|++||||||||....+.+..+..+   .+.++-...|.++..|+-       ..|...-+  ... -+.-..+.+||
T Consensus        63 Ph~L~YgPPGtGktsti~a~a~~ly~~---~~~~~m~lelnaSd~rgid~vr~qi~~fast~~~~~fst~~~fKlvILDE  139 (360)
T KOG0990|consen   63 PHLLFYGPPGTGKTSTILANARDFYSP---HPTTSMLLELNASDDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDE  139 (360)
T ss_pred             CcccccCCCCCCCCCchhhhhhhhcCC---CCchhHHHHhhccCccCCcchHHHHHHHHhhccceeccccCceeEEEecc
Confidence            399999999999999888888776543   111111112222222210       11111000  001 12245789999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~i  332 (345)
                      .|.|..+.|++|..+.|+-+...
T Consensus       140 ADaMT~~AQnALRRviek~t~n~  162 (360)
T KOG0990|consen  140 ADAMTRDAQNALRRVIEKYTANT  162 (360)
T ss_pred             hhHhhHHHHHHHHHHHHHhccce
Confidence            99999999999999998865443

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.16  E-value=0.00023  Score=67.85  Aligned_cols=85  Identities=16%  Similarity=0.132  Sum_probs=50.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe----EEEcCC--------ccCcCCceEEE------------Eeec-CeeEeee
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS----VLTTGV--------GTTTAGLTVSA------------LREN-GEWHLEA  294 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~----~~~~~~--------~~~~~glt~~~------------~~~~-~~~~~~~  294 (345)
                      +.+||.||+|+||+++++.+++.+--.    ...+|.        ..+-..+..-.            +|+- ...... 
T Consensus        23 ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~-  101 (328)
T PRK05707         23 HAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQT-  101 (328)
T ss_pred             eeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhhc-
Confidence            459999999999999999999865310    000000        00000111000            0000 000000 


Q ss_pred             ceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         295 GALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       295 G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        -..+..-|++|||.|+|+....++|+..||+
T Consensus       102 --~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEE  132 (328)
T PRK05707        102 --AQLGGRKVVLIEPAEAMNRNAANALLKSLEE  132 (328)
T ss_pred             --cccCCCeEEEECChhhCCHHHHHHHHHHHhC
Confidence              0234567999999999999999999999998

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

Probab=97.16  E-value=5.3e-05  Score=61.62  Aligned_cols=98  Identities=17%  Similarity=0.196  Sum_probs=52.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhCC--------C-eEEEcCCcc-CcCCceEEEEeecCee--E-eee----cee---e
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMSP--------R-SVLTTGVGT-TTAGLTVSALRENGEW--H-LEA----GAL---V  298 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~~--------~-~~~~~~~~~-~~~glt~~~~~~~~~~--~-~~~----G~l---~  298 (345)
                      .-+++++|+||+|||.+++.+++...        . .++...... +..++.......-+..  . ...    ..+   .
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            34899999999999999999998752        2 222222111 1111100000000000  0 000    000   0


Q ss_pred             ecC-CcEEEEcCCCCC-CHHhHHHHHHHHhCCEEEEeeCC
Q psy1366         299 LSD-GGVCCIDEFSSI-KEHDRTSIHEAMEQQTISVAKDK  336 (345)
Q Consensus       299 la~-~gi~~IDEidk~-~~~~~~~l~eame~~~i~i~k~g  336 (345)
                      ... ..+++|||+|.+ +......|...+++..+++--.|
T Consensus        84 ~~~~~~~lviDe~~~l~~~~~l~~l~~l~~~~~~~vvl~G  123 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLFSDEFLEFLRSLLNESNIKVVLVG  123 (131)
T ss_dssp             HHCTEEEEEEETTHHHHTHHHHHHHHHHTCSCBEEEEEEE
T ss_pred             HhcCCeEEEEeChHhcCCHHHHHHHHHHHhCCCCeEEEEE
Confidence            111 248999999999 98888888888887777764444

>PRK08181 transposase; Validated

Probab=97.16  E-value=3.3e-05  Score=71.42  Aligned_cols=81  Identities=21%  Similarity=0.308  Sum_probs=45.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---e-EEEcCCccCcCCceEEEE--eecCeeEeeeceeeecCCcEEEEcCCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---S-VLTTGVGTTTAGLTVSAL--RENGEWHLEAGALVLSDGGVCCIDEFSSI  313 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~-~~~~~~~~~~~glt~~~~--~~~~~~~~~~G~l~la~~gi~~IDEidk~  313 (345)
                      -|++|+||||||||.|+.+++..+-.   . +|.+.     ..|.....  ...+.  +..-.-.+..--+++|||++..
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~-----~~L~~~l~~a~~~~~--~~~~l~~l~~~dLLIIDDlg~~  179 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT-----TDLVQKLQVARRELQ--LESAIAKLDKFDLLILDDLAYV  179 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH-----HHHHHHHHHHHhCCc--HHHHHHHHhcCCEEEEeccccc
Confidence            38999999999999999999865421   1 22211     01100000  00000  0000001234468999999886


Q ss_pred             CH--HhHHHHHHHHhC
Q psy1366         314 KE--HDRTSIHEAMEQ  327 (345)
Q Consensus       314 ~~--~~~~~l~eame~  327 (345)
                      +.  ..+..|+++++.
T Consensus       180 ~~~~~~~~~Lf~lin~  195 (269)
T PRK08181        180 TKDQAETSVLFELISA  195 (269)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            44  445678888864

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.12  E-value=0.00063  Score=71.33  Aligned_cols=50  Identities=16%  Similarity=0.178  Sum_probs=31.6

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeece-eeeCCCCChHHHHHHHHHhhC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHL-LLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~i-Ll~G~pGtGKs~l~~~i~~~~  263 (345)
                      +.+.|.|.-...|..+|......        .+.-++ +++|+||||||.+++++.+.+
T Consensus       755 D~LPhREeEIeeLasfL~paIkg--------sgpnnvLYIyG~PGTGKTATVK~VLrEL  805 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGIKQ--------SGSNQILYISGMPGTGKTATVYSVIQLL  805 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHHhc--------CCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            35667765555555554433110        011255 599999999999999997654

>PRK09183 transposase/IS protein; Provisional

Probab=97.07  E-value=0.0012  Score=60.80  Aligned_cols=84  Identities=15%  Similarity=0.259  Sum_probs=44.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC---CeE-EEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCC--
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP---RSV-LTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSI--  313 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~---~~~-~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~--  313 (345)
                      -+++|+||||+|||.|+.+++..+.   ..+ |.+.. .-...+..+  +..+.+....-. ......+++|||++..  
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~-~l~~~l~~a--~~~~~~~~~~~~-~~~~~dlLiiDdlg~~~~  178 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAA-DLLLQLSTA--QRQGRYKTTLQR-GVMAPRLLIIDEIGYLPF  178 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHH-HHHHHHHHH--HHCCcHHHHHHH-HhcCCCEEEEcccccCCC
Confidence            4899999999999999999976532   122 22110 000000000  000100000000 0223468999999974  


Q ss_pred             CHHhHHHHHHHHhC
Q psy1366         314 KEHDRTSIHEAMEQ  327 (345)
Q Consensus       314 ~~~~~~~l~eame~  327 (345)
                      +......|++++++
T Consensus       179 ~~~~~~~lf~li~~  192 (259)
T PRK09183        179 SQEEANLFFQVIAK  192 (259)
T ss_pred             ChHHHHHHHHHHHH
Confidence            44555578888843

>KOG1969|consensus

Probab=97.05  E-value=0.00095  Score=68.17  Aligned_cols=79  Identities=24%  Similarity=0.302  Sum_probs=50.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeec------CeeEeeeceeeecCCcEEEEcCCCCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALREN------GEWHLEAGALVLSDGGVCCIDEFSSIK  314 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~------~~~~~~~G~l~la~~gi~~IDEidk~~  314 (345)
                      -+||.||||.|||+||+.+|+.++-++..... |..  =++.++++-      .+-++.|+    ...-.++|||||-.+
T Consensus       328 ilLL~GppGlGKTTLAHViAkqaGYsVvEINA-SDe--Rt~~~v~~kI~~avq~~s~l~ad----srP~CLViDEIDGa~  400 (877)
T KOG1969|consen  328 ILLLCGPPGLGKTTLAHVIAKQAGYSVVEINA-SDE--RTAPMVKEKIENAVQNHSVLDAD----SRPVCLVIDEIDGAP  400 (877)
T ss_pred             eEEeecCCCCChhHHHHHHHHhcCceEEEecc-ccc--ccHHHHHHHHHHHHhhccccccC----CCcceEEEecccCCc
Confidence            58899999999999999999999876643211 111  011111110      01111111    234578899999999


Q ss_pred             HHhHHHHHHHHh
Q psy1366         315 EHDRTSIHEAME  326 (345)
Q Consensus       315 ~~~~~~l~eame  326 (345)
                      ....+.|+..++
T Consensus       401 ~~~Vdvilslv~  412 (877)
T KOG1969|consen  401 RAAVDVILSLVK  412 (877)
T ss_pred             HHHHHHHHHHHH
Confidence            887888887776

>PRK08727 hypothetical protein; Validated

Probab=96.99  E-value=0.0015  Score=59.18  Aligned_cols=72  Identities=22%  Similarity=0.302  Sum_probs=43.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC----CeEEEcCCccCcCCceEEEEeecCeeEeeecee-eecCCcEEEEcCCCCCC-
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP----RSVLTTGVGTTTAGLTVSALRENGEWHLEAGAL-VLSDGGVCCIDEFSSIK-  314 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~----~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l-~la~~gi~~IDEidk~~-  314 (345)
                      .++|+|++|+|||.|+++++..+.    +..|.+...     +.       ..+   ...+ .+.+--+++||||+.+. 
T Consensus        43 ~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~-----~~-------~~~---~~~~~~l~~~dlLiIDDi~~l~~  107 (233)
T PRK08727         43 WLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQA-----AA-------GRL---RDALEALEGRSLVALDGLESIAG  107 (233)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHH-----hh-------hhH---HHHHHHHhcCCEEEEeCcccccC
Confidence            599999999999999999876542    223332110     00       000   0011 11223589999999985 


Q ss_pred             -HHhHHHHHHHHhC
Q psy1366         315 -EHDRTSIHEAMEQ  327 (345)
Q Consensus       315 -~~~~~~l~eame~  327 (345)
                       +..+..++..++.
T Consensus       108 ~~~~~~~lf~l~n~  121 (233)
T PRK08727        108 QREDEVALFDFHNR  121 (233)
T ss_pred             ChHHHHHHHHHHHH
Confidence             4455677777754

>PRK04296 thymidine kinase; Provisional

Probab=96.96  E-value=0.0017  Score=56.96  Aligned_cols=37  Identities=16%  Similarity=0.118  Sum_probs=25.4

Q ss_pred             CcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeE
Q psy1366         302 GGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKES  338 (345)
Q Consensus       302 ~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~  338 (345)
                      --+++|||++.++.++...|.+.+.+..+++--.|..
T Consensus        79 ~dvviIDEaq~l~~~~v~~l~~~l~~~g~~vi~tgl~  115 (190)
T PRK04296         79 IDCVLIDEAQFLDKEQVVQLAEVLDDLGIPVICYGLD  115 (190)
T ss_pred             CCEEEEEccccCCHHHHHHHHHHHHHcCCeEEEEecC
Confidence            3689999999998775566777766555555444443

>PRK09087 hypothetical protein; Validated

Probab=96.93  E-value=0.00094  Score=60.24  Aligned_cols=65  Identities=18%  Similarity=0.271  Sum_probs=40.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTS  320 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~  320 (345)
                      .++|+|++|+|||.|++.+++.. ...|.+..     .++             ...+.....+.++|||++.++. ++.+
T Consensus        46 ~l~l~G~~GsGKThLl~~~~~~~-~~~~i~~~-----~~~-------------~~~~~~~~~~~l~iDDi~~~~~-~~~~  105 (226)
T PRK09087         46 VVVLAGPVGSGKTHLASIWREKS-DALLIHPN-----EIG-------------SDAANAAAEGPVLIEDIDAGGF-DETG  105 (226)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhc-CCEEecHH-----Hcc-------------hHHHHhhhcCeEEEECCCCCCC-CHHH
Confidence            59999999999999999888654 22333321     000             0011111236899999998753 3455


Q ss_pred             HHHHH
Q psy1366         321 IHEAM  325 (345)
Q Consensus       321 l~eam  325 (345)
                      |++.+
T Consensus       106 lf~l~  110 (226)
T PRK09087        106 LFHLI  110 (226)
T ss_pred             HHHHH
Confidence            55444

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.81  E-value=0.0055  Score=61.87  Aligned_cols=87  Identities=21%  Similarity=0.255  Sum_probs=50.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC-------cCCce---EE----EEeec--CeeEeeecee-------
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT-------TAGLT---VS----ALREN--GEWHLEAGAL-------  297 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~-------~~glt---~~----~~~~~--~~~~~~~G~l-------  297 (345)
                      -+||.||||+|||+.++.+++.+...+........       ..+..   ..    ..+-.  .+|.+.+...       
T Consensus        47 iLlLtGP~G~GKtttv~~La~elg~~v~Ew~np~~~~~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g  126 (519)
T PF03215_consen   47 ILLLTGPSGCGKTTTVKVLAKELGFEVQEWINPVSFRESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSG  126 (519)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCeeEEecCCCCccccccccccccccccccccccchhhhhccccccccccccccccC
Confidence            68899999999999999999998765543322211       00000   00    00000  1222221111       


Q ss_pred             --eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         298 --VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       298 --~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        ...+.-|++|||+-.+-..+...++++|++
T Consensus       127 ~~~~~~~kvILVEDlPN~~~~~~~~f~~~L~~  158 (519)
T PF03215_consen  127 SNSSSNKKVILVEDLPNVFHRDTSRFREALRQ  158 (519)
T ss_pred             CCcCCCceEEEeeccccccchhHHHHHHHHHH
Confidence              123567999999988655555778877764

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.78  E-value=0.0015  Score=61.89  Aligned_cols=106  Identities=18%  Similarity=0.163  Sum_probs=59.4

Q ss_pred             chHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC-CeEEEcCC--------ccCcCCceE
Q psy1366         211 LYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP-RSVLTTGV--------GTTTAGLTV  281 (345)
Q Consensus       211 ~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~-~~~~~~~~--------~~~~~glt~  281 (345)
                      ++.++..+.-++..|           |-.+-+||.|++|+||+.++.++++.+- ......+.        ..+-..+..
T Consensus         9 ~~~~~~~l~~~~~~~-----------rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~   77 (319)
T PRK08769          9 QQRAYDQTVAALDAG-----------RLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQL   77 (319)
T ss_pred             HHHHHHHHHHHHHcC-----------CcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEE
Confidence            455666666666665           2223499999999999999999987542 10000000        000001100


Q ss_pred             E---EEeec----CeeEee-----ecee----eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         282 S---ALREN----GEWHLE-----AGAL----VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       282 ~---~~~~~----~~~~~~-----~G~l----~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      -   -.+.+    ....++     ...+    ..+..-|++||+.|+|+....++|+..||+
T Consensus        78 i~~~p~~~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEE  139 (319)
T PRK08769         78 VSFIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEE  139 (319)
T ss_pred             EecCCCcccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhC
Confidence            0   00000    000000     0000    123457999999999999999999999997

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=96.77  E-value=0.0016  Score=61.87  Aligned_cols=105  Identities=11%  Similarity=0.158  Sum_probs=58.9

Q ss_pred             hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC----CeEEEcCC--------ccCcCCc
Q psy1366         212 YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP----RSVLTTGV--------GTTTAGL  279 (345)
Q Consensus       212 ~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~----~~~~~~~~--------~~~~~gl  279 (345)
                      ......+.-++..|           |-.+-+||.||+|+||+.+++.+++.+-    .....+|.        ..+...+
T Consensus         8 ~~~~~~l~~~~~~~-----------rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~   76 (325)
T PRK06871          8 QPTYQQITQAFQQG-----------LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDF   76 (325)
T ss_pred             HHHHHHHHHHHHcC-----------CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCE
Confidence            34444555555555           3335688999999999999999998652    11001110        0011111


Q ss_pred             eEEEEeecCeeEe---e------eceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         280 TVSALRENGEWHL---E------AGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       280 t~~~~~~~~~~~~---~------~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ..-.-.++....+   +      .-.-..+...|++||+.|+|+....++|+..||+
T Consensus        77 ~~i~p~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEE  133 (325)
T PRK06871         77 HILEPIDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEE  133 (325)
T ss_pred             EEEccccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcC
Confidence            1100000000000   0      0000123457999999999999999999999997

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=96.75  E-value=0.0057  Score=67.67  Aligned_cols=97  Identities=14%  Similarity=0.257  Sum_probs=72.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC--ccCcCCceE-EEEeecCeeEeeeceeeec--CCcEEEEcCCCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV--GTTTAGLTV-SALRENGEWHLEAGALVLS--DGGVCCIDEFSSIK  314 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~--~~~~~glt~-~~~~~~~~~~~~~G~l~la--~~gi~~IDEidk~~  314 (345)
                      .++|+-||+.+|||.+..++|+..++-+....+  .+.....-. .+.-++|...++.|.||-|  .|-.+.+||++-++
T Consensus       889 fP~LiQGpTSSGKTSMI~yla~~tghkfVRINNHEHTdlqeYiGTyvTdd~G~lsFkEGvLVeAlR~GyWIVLDELNLAp  968 (4600)
T COG5271         889 FPLLIQGPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLSFKEGVLVEALRRGYWIVLDELNLAP  968 (4600)
T ss_pred             CcEEEecCCCCCcchHHHHHHHHhCccEEEecCcccchHHHHhhceeecCCCceeeehhHHHHHHhcCcEEEeeccccCc
Confidence            699999999999999999999999875543322  222222222 3334567788999999865  57889999999999


Q ss_pred             HHhHHHHHHHHhC-CEEEEeeCC
Q psy1366         315 EHDRTSIHEAMEQ-QTISVAKDK  336 (345)
Q Consensus       315 ~~~~~~l~eame~-~~i~i~k~g  336 (345)
                      .+...+|...+++ +++-|....
T Consensus       969 TDVLEaLNRLLDDNRelfIPETq  991 (4600)
T COG5271         969 TDVLEALNRLLDDNRELFIPETQ  991 (4600)
T ss_pred             HHHHHHHHHhhccccceecCCcc
Confidence            9999999999965 556555443

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

Probab=96.74  E-value=0.00016  Score=66.41  Aligned_cols=83  Identities=24%  Similarity=0.333  Sum_probs=46.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCCceEEEEeec-CeeEeeeceee-ecCCcEEEEcCCCCC--
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAGLTVSALREN-GEWHLEAGALV-LSDGGVCCIDEFSSI--  313 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~glt~~~~~~~-~~~~~~~G~l~-la~~gi~~IDEidk~--  313 (345)
                      +++|+|+||+|||.|+-+++..+-+   +++..    +.+.+... ++.. .+-..+.-..- +.+--+++|||+...  
T Consensus       107 nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~----~~~el~~~-Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~~~~  181 (254)
T COG1484         107 NLVLLGPPGVGKTHLAIAIGNELLKAGISVLFI----TAPDLLSK-LKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEPF  181 (254)
T ss_pred             cEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEE----EHHHHHHH-HHHHHhcCchHHHHHHHhhcCCEEEEecccCccC
Confidence            9999999999999999999875532   22111    00010000 0000 00000111112 345679999999984  


Q ss_pred             CHHhHHHHHHHHhCC
Q psy1366         314 KEHDRTSIHEAMEQQ  328 (345)
Q Consensus       314 ~~~~~~~l~eame~~  328 (345)
                      ++..++.+++++.+.
T Consensus       182 ~~~~~~~~~q~I~~r  196 (254)
T COG1484         182 SQEEADLLFQLISRR  196 (254)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            444567777777654

>TIGR00602 rad24 checkpoint protein rad24

Probab=96.73  E-value=0.0014  Score=67.56  Aligned_cols=55  Identities=18%  Similarity=0.068  Sum_probs=35.9

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.-++.||+.....+.-.+....... .     .+ --++|+||||+|||++++.+++.+..
T Consensus        82 ~ldel~~~~~ki~~l~~~l~~~~~~~-~-----~~-~illL~GP~GsGKTTl~~~la~~l~~  136 (637)
T TIGR00602        82 TQHELAVHKKKIEEVETWLKAQVLEN-A-----PK-RILLITGPSGCGKSTTIKILSKELGI  136 (637)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhccccc-C-----CC-cEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            34467888665555555544331110 0     00 13899999999999999999988764

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

>KOG3347|consensus

Probab=96.72  E-value=0.0014  Score=54.66  Aligned_cols=35  Identities=26%  Similarity=0.447  Sum_probs=28.6

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      |-..|||+.|-||||||+++.++|+.+.-..+..|
T Consensus         5 r~~PNILvtGTPG~GKstl~~~lae~~~~~~i~is   39 (176)
T KOG3347|consen    5 RERPNILVTGTPGTGKSTLAERLAEKTGLEYIEIS   39 (176)
T ss_pred             hcCCCEEEeCCCCCCchhHHHHHHHHhCCceEehh
Confidence            44579999999999999999999998875544443

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.72  E-value=0.00033  Score=63.91  Aligned_cols=82  Identities=27%  Similarity=0.375  Sum_probs=45.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCCceEEEEee---cCeeEeeecee-eecCCcEEEEcCCCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAGLTVSALRE---NGEWHLEAGAL-VLSDGGVCCIDEFSSI  313 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~glt~~~~~~---~~~~~~~~G~l-~la~~gi~~IDEidk~  313 (345)
                      +++|.|+||||||.|+.+++..+..   .+...    +...+... .++   ......+ -.+ .+..--+++|||++..
T Consensus       101 ~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~i----t~~~l~~~-l~~~~~~~~~~~~-~~l~~l~~~dlLvIDDig~~  174 (244)
T PRK07952        101 SFIFSGKPGTGKNHLAAAICNELLLRGKSVLII----TVADIMSA-MKDTFSNSETSEE-QLLNDLSNVDLLVIDEIGVQ  174 (244)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE----EHHHHHHH-HHHHHhhccccHH-HHHHHhccCCEEEEeCCCCC
Confidence            8999999999999999999987632   22111    01111000 000   0000000 000 1234568999999886


Q ss_pred             CHH--hHHHHHHHHhCC
Q psy1366         314 KEH--DRTSIHEAMEQQ  328 (345)
Q Consensus       314 ~~~--~~~~l~eame~~  328 (345)
                      ...  .+..|+++++.+
T Consensus       175 ~~s~~~~~~l~~Ii~~R  191 (244)
T PRK07952        175 TESRYEKVIINQIVDRR  191 (244)
T ss_pred             CCCHHHHHHHHHHHHHH
Confidence            543  355788888754

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.64  E-value=0.0017  Score=61.95  Aligned_cols=88  Identities=17%  Similarity=0.231  Sum_probs=52.4

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhCC----CeEEEcCC--------ccCcCCceEEE------------Eeec-CeeE
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMSP----RSVLTTGV--------GTTTAGLTVSA------------LREN-GEWH  291 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~~----~~~~~~~~--------~~~~~glt~~~------------~~~~-~~~~  291 (345)
                      |..+-+||.||+|+||+++++++++.+-    ..-..+|.        ..+-..+..-.            +|+- ....
T Consensus        22 rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~  101 (334)
T PRK07993         22 RGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLY  101 (334)
T ss_pred             CcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHh
Confidence            4446788999999999999999988651    10001110        00001111000            0000 0000


Q ss_pred             eeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         292 LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       292 ~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ..|   ..+...|++||+.|+|+....++|+..||+
T Consensus       102 ~~~---~~g~~kV~iI~~ae~m~~~AaNaLLKtLEE  134 (334)
T PRK07993        102 EHA---RLGGAKVVWLPDAALLTDAAANALLKTLEE  134 (334)
T ss_pred             hcc---ccCCceEEEEcchHhhCHHHHHHHHHHhcC
Confidence            011   234567999999999999999999999997

>PRK05642 DNA replication initiation factor; Validated

Probab=96.63  E-value=0.0033  Score=56.94  Aligned_cols=22  Identities=32%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +++|+|++|+|||.|++++++.
T Consensus        47 ~l~l~G~~G~GKTHLl~a~~~~   68 (234)
T PRK05642         47 LIYLWGKDGVGRSHLLQAACLR   68 (234)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999999764

>PHA02774 E1; Provisional

Probab=96.63  E-value=0.0091  Score=60.35  Aligned_cols=77  Identities=19%  Similarity=0.304  Sum_probs=50.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCC-CHHhHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSI-KEHDRT  319 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~-~~~~~~  319 (345)
                      .++|+||||||||.++-++.+.+...+..-             +-....|-+.    .+++.-+++|||+..- ..-...
T Consensus       436 civ~~GPP~TGKS~fa~sL~~~L~G~vi~f-------------vN~~s~FwLq----pl~d~ki~vlDD~t~~~w~y~d~  498 (613)
T PHA02774        436 CLVIYGPPDTGKSMFCMSLIKFLKGKVISF-------------VNSKSHFWLQ----PLADAKIALLDDATHPCWDYIDT  498 (613)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEE-------------EECccccccc----hhccCCEEEEecCcchHHHHHHH
Confidence            899999999999999999999875322110             0001122222    3456679999999332 122344


Q ss_pred             HHHHHHhCCEEEEee
Q psy1366         320 SIHEAMEQQTISVAK  334 (345)
Q Consensus       320 ~l~eame~~~i~i~k  334 (345)
                      .|..+|+.+.|+|.+
T Consensus       499 ~Lrn~LdG~~v~lD~  513 (613)
T PHA02774        499 YLRNALDGNPVSIDC  513 (613)
T ss_pred             HHHHHcCCCcceeee
Confidence            788888888777754

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.61  E-value=0.0012  Score=62.75  Aligned_cols=29  Identities=17%  Similarity=0.157  Sum_probs=26.4

Q ss_pred             cCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         300 SDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       300 a~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      +...|++||+++.|++..+++|+..||+-
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep  140 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEP  140 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhC
Confidence            45689999999999999999999999974

>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=96.58  E-value=0.0015  Score=52.29  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=22.6

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      |++.|+||+|||++++.+++.+.-.+
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~   27 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPV   27 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeE
Confidence            78999999999999999999865443

...

>PF13173 AAA_14: AAA domain

Probab=96.57  E-value=0.0016  Score=53.19  Aligned_cols=81  Identities=17%  Similarity=0.180  Sum_probs=45.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC---CeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP---RSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHD  317 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~---~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~  317 (345)
                      -++|.|+.|+|||++++.+++...   ..+|.+-.......+..   .+.-++..+.   ......+++|||+++++. .
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~---~~~~~~~~~~---~~~~~~~i~iDEiq~~~~-~   76 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLAD---PDLLEYFLEL---IKPGKKYIFIDEIQYLPD-W   76 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhh---hhhHHHHHHh---hccCCcEEEEehhhhhcc-H
Confidence            689999999999999988886543   33444321111100000   0000000000   011467899999999985 3


Q ss_pred             HHHHHHHHhCC
Q psy1366         318 RTSIHEAMEQQ  328 (345)
Q Consensus       318 ~~~l~eame~~  328 (345)
                      ...+-...+..
T Consensus        77 ~~~lk~l~d~~   87 (128)
T PF13173_consen   77 EDALKFLVDNG   87 (128)
T ss_pred             HHHHHHHHHhc
Confidence            45565555554

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.56  E-value=0.0039  Score=54.92  Aligned_cols=87  Identities=18%  Similarity=0.238  Sum_probs=46.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC---CeEEEcCCccCc-------CCceEEEEee-cCeeEe--eeceeeecCCcEEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP---RSVLTTGVGTTT-------AGLTVSALRE-NGEWHL--EAGALVLSDGGVCCI  307 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~---~~~~~~~~~~~~-------~glt~~~~~~-~~~~~~--~~G~l~la~~gi~~I  307 (345)
                      -.++.|+||||||++++.+.+.+.   ..+........+       .|..+.-+.. -..+..  ..+.......-+++|
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            577789999999999998876542   233322221111       1222211100 000000  001111344569999


Q ss_pred             cCCCCCCHHhHHHHHHHHhC
Q psy1366         308 DEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       308 DEidk~~~~~~~~l~eame~  327 (345)
                      ||...++......|+++.+.
T Consensus       100 DEasmv~~~~~~~ll~~~~~  119 (196)
T PF13604_consen  100 DEASMVDSRQLARLLRLAKK  119 (196)
T ss_dssp             SSGGG-BHHHHHHHHHHS-T
T ss_pred             ecccccCHHHHHHHHHHHHh
Confidence            99999999998899998876

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.51  E-value=0.0034  Score=62.33  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=21.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +++|+|+||+|||.|+++++..+
T Consensus       143 pl~L~G~~G~GKTHLl~Ai~~~l  165 (445)
T PRK12422        143 PIYLFGPEGSGKTHLMQAAVHAL  165 (445)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHH
Confidence            79999999999999999999765

>PRK14532 adenylate kinase; Provisional

Probab=96.49  E-value=0.003  Score=54.97  Aligned_cols=31  Identities=32%  Similarity=0.408  Sum_probs=26.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      +|+|+|+||+|||++++.+++..+.....+|
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~is~~   32 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQLSTG   32 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEeCc
Confidence            6999999999999999999998876555443

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

Probab=96.46  E-value=0.0038  Score=65.11  Aligned_cols=113  Identities=20%  Similarity=0.300  Sum_probs=63.6

Q ss_pred             ccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC----------CeEEEcCC
Q psy1366         203 SICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP----------RSVLTTGV  272 (345)
Q Consensus       203 s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~----------~~~~~~~~  272 (345)
                      -+.| +.|.+.-..-++-.|....+            -|-+|+|+||+|||.++..+|.-.-          ..++.-..
T Consensus       168 klDP-vIGRd~EI~r~iqIL~RR~K------------NNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~  234 (786)
T COG0542         168 KLDP-VIGRDEEIRRTIQILSRRTK------------NNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDL  234 (786)
T ss_pred             CCCC-CcChHHHHHHHHHHHhccCC------------CCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecH
Confidence            4666 67775555545555543311            3889999999999999998886432          12232222


Q ss_pred             ccCcCCceEEEEeecCeeEee----eceeeecCCcEEEEcCCCCC---------CHHhHHHHHHHHhCCEEEEe
Q psy1366         273 GTTTAGLTVSALRENGEWHLE----AGALVLSDGGVCCIDEFSSI---------KEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       273 ~~~~~glt~~~~~~~~~~~~~----~G~l~la~~gi~~IDEidk~---------~~~~~~~l~eame~~~i~i~  333 (345)
                      ++-.+|-.   .|  |+|--.    -..+..+.+-|+||||++.+         .-+.-+.|--+|..|++..-
T Consensus       235 g~LvAGak---yR--GeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~I  303 (786)
T COG0542         235 GSLVAGAK---YR--GEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCI  303 (786)
T ss_pred             HHHhcccc---cc--CcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEE
Confidence            22222211   11  111100    00122344679999999853         13345677788888887653

>PRK13947 shikimate kinase; Provisional

Probab=96.43  E-value=0.0032  Score=53.72  Aligned_cols=31  Identities=26%  Similarity=0.340  Sum_probs=27.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      ||+|+|+||+|||++++.+++.++..++...
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d   33 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTD   33 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            7999999999999999999999887666544

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

Probab=96.41  E-value=0.0041  Score=56.30  Aligned_cols=46  Identities=28%  Similarity=0.340  Sum_probs=33.1

Q ss_pred             ccccchHHHHHHH---HHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         207 AIYGLYLVKLCLA---VVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       207 ~i~G~~~vk~~i~---l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +++|.|.-|..+.   .+...|-+           -.|+||+|+.|||||+++|++...+
T Consensus        28 ~L~Gie~Qk~~l~~Nt~~Fl~G~p-----------annvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   28 DLIGIERQKEALIENTEQFLQGLP-----------ANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             HhcCHHHHHHHHHHHHHHHHcCCC-----------CcceEEecCCCCCHHHHHHHHHHHH
Confidence            4567766666554   34444422           2499999999999999999998754

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.40  E-value=0.0032  Score=59.68  Aligned_cols=105  Identities=18%  Similarity=0.213  Sum_probs=58.8

Q ss_pred             hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC-e--EEEcCC--------ccCcCCce
Q psy1366         212 YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR-S--VLTTGV--------GTTTAGLT  280 (345)
Q Consensus       212 ~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~-~--~~~~~~--------~~~~~glt  280 (345)
                      .....-+.-++..|           |-.+-+||.||.|+||+.+++.+++.+-= .  ...+|.        ..+-..+.
T Consensus         9 ~~~~~~l~~~~~~~-----------rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~   77 (319)
T PRK06090          9 VPVWQNWKAGLDAG-----------RIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLH   77 (319)
T ss_pred             HHHHHHHHHHHHcC-----------CcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEE
Confidence            34444455555555           33356999999999999999999986521 0  000110        00111111


Q ss_pred             EE-EEeecCeeE---ee------eceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         281 VS-ALRENGEWH---LE------AGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       281 ~~-~~~~~~~~~---~~------~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .- -..++..-.   +.      ...-..+..-|++||+.|+|+....++|+..+|+
T Consensus        78 ~i~p~~~~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEE  134 (319)
T PRK06090         78 VIKPEKEGKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEE  134 (319)
T ss_pred             EEecCcCCCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcC
Confidence            10 000000000   00      0001223457999999999999999999999997

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=96.40  E-value=0.011  Score=53.07  Aligned_cols=81  Identities=19%  Similarity=0.078  Sum_probs=42.2

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe--ecCeeEeeeceeee---cCCcEEEEcCCCCCCHH
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR--ENGEWHLEAGALVL---SDGGVCCIDEFSSIKEH  316 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~--~~~~~~~~~G~l~l---a~~gi~~IDEidk~~~~  316 (345)
                      +++.|.||+|||++++.+....  .+.+.... +..-.+....+  +...+.++......   .....++|||+..++..
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~s~~~~~~~~~~~~~liiDE~~~~~~g   77 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKDR--LVVTVISP-TIELYTEWLPDPPSKSVRTVDSFLKALVKPKSYDTLIIDEAQLLPPG   77 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHhc--cccccccc-cceeccccccccCCccccEEeEhhhcccccCcCCEEEEeccccCChH
Confidence            4788999999999999988873  01000000 00000000000  01112222222221   23679999999999987


Q ss_pred             hHHHHHHHH
Q psy1366         317 DRTSIHEAM  325 (345)
Q Consensus       317 ~~~~l~eam  325 (345)
                      ....|+...
T Consensus        78 ~l~~l~~~~   86 (234)
T PF01443_consen   78 YLLLLLSLS   86 (234)
T ss_pred             HHHHHHhhc
Confidence            555544433

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

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.38  E-value=0.0025  Score=52.48  Aligned_cols=23  Identities=35%  Similarity=0.586  Sum_probs=21.5

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      |+++|+||+|||++++.+++..+
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC
Confidence            68999999999999999998877

...

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=96.33  E-value=0.0012  Score=63.48  Aligned_cols=92  Identities=14%  Similarity=0.186  Sum_probs=52.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC------CCeEEEcCCccCcCCc----eEEEEee-cCeeEeeecee---------eec
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS------PRSVLTTGVGTTTAGL----TVSALRE-NGEWHLEAGAL---------VLS  300 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~------~~~~~~~~~~~~~~gl----t~~~~~~-~~~~~~~~G~l---------~la  300 (345)
                      -+++.|.||||||.||-.+++.+      ...++.++......-+    ....... .......+..+         ...
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   82 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDKEKN   82 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhcccchhhhhhhhhHHHHhhcccccccCC
Confidence            57899999999999999888876      2345555543221111    0000000 00001111111         223


Q ss_pred             CCcEEEEcCCCCCCHH--------hHHHHHHHHhCCEEEE
Q psy1366         301 DGGVCCIDEFSSIKEH--------DRTSIHEAMEQQTISV  332 (345)
Q Consensus       301 ~~gi~~IDEidk~~~~--------~~~~l~eame~~~i~i  332 (345)
                      +-.++++||.+.+...        ..+.|.+.|....+.|
T Consensus        83 ~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~kv~v  122 (352)
T PF09848_consen   83 KYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKRAKVVV  122 (352)
T ss_pred             cCCEEEEehhHhhhhccccccccccHHHHHHHHhcCCEEE
Confidence            4689999999999882        2467888887755544

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>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=96.31  E-value=0.004  Score=55.85  Aligned_cols=81  Identities=23%  Similarity=0.347  Sum_probs=44.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC----C--CeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS----P--RSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIK  314 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~----~--~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~  314 (345)
                      .++|+|++|+|||.|+++++..+    |  +.+|.+...-.. .+ ....++ +.+  ..-.-.+.+--+++||+++.+.
T Consensus        36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~-~~-~~~~~~-~~~--~~~~~~~~~~DlL~iDDi~~l~  110 (219)
T PF00308_consen   36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIR-EF-ADALRD-GEI--EEFKDRLRSADLLIIDDIQFLA  110 (219)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHH-HH-HHHHHT-TSH--HHHHHHHCTSSEEEEETGGGGT
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHH-HH-HHHHHc-ccc--hhhhhhhhcCCEEEEecchhhc
Confidence            68999999999999999998653    2  233443210000 00 000000 000  0000012345799999999987


Q ss_pred             HHh--HHHHHHHHh
Q psy1366         315 EHD--RTSIHEAME  326 (345)
Q Consensus       315 ~~~--~~~l~eame  326 (345)
                      ...  |..|...++
T Consensus       111 ~~~~~q~~lf~l~n  124 (219)
T PF00308_consen  111 GKQRTQEELFHLFN  124 (219)
T ss_dssp             THHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHH
Confidence            764  667766554

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.

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=96.31  E-value=0.0034  Score=59.97  Aligned_cols=54  Identities=19%  Similarity=0.274  Sum_probs=36.9

Q ss_pred             ccCcccccchHHHHHHHHH--HhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         203 SICPAIYGLYLVKLCLAVV--LAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       203 s~~p~i~G~~~vk~~i~l~--l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..+-.++||..+++|.-+.  ++..  +.       ...-.+||.||||||||.|+-++++.++.
T Consensus        21 ~~~~GlVGQ~~AReAagiiv~mIk~--~K-------~aGr~iLiaGppGtGKTAlA~~ia~eLG~   76 (398)
T PF06068_consen   21 YIADGLVGQEKAREAAGIIVDMIKE--GK-------IAGRAILIAGPPGTGKTALAMAIAKELGE   76 (398)
T ss_dssp             SEETTEES-HHHHHHHHHHHHHHHT--T---------TT-EEEEEE-TTSSHHHHHHHHHHHCTT
T ss_pred             eccccccChHHHHHHHHHHHHHHhc--cc-------ccCcEEEEeCCCCCCchHHHHHHHHHhCC
Confidence            3456889999998876444  4422  11       11138999999999999999999998863

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.

>PRK08118 topology modulation protein; Reviewed

Probab=96.25  E-value=0.0041  Score=53.35  Aligned_cols=28  Identities=25%  Similarity=0.402  Sum_probs=24.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|+++|+||+|||+|++.+++.+.-.++
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~   30 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVH   30 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCce
Confidence            5899999999999999999998776543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=96.24  E-value=0.0075  Score=58.02  Aligned_cols=50  Identities=22%  Similarity=0.185  Sum_probs=34.4

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +.+.|.+.-...|...+......        ....+++++||||||||++++++.+.+
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~--------~~~~~i~I~G~~GtGKT~l~~~~~~~l   64 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRG--------SRPSNVFIYGKTGTGKTAVTKYVMKEL   64 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcC--------CCCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            35788877666666665421100        011389999999999999999998654

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.24  E-value=0.011  Score=52.02  Aligned_cols=87  Identities=23%  Similarity=0.203  Sum_probs=46.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC----eEEEcCCccCc--CCceEEEE-eecC--eeEee---eceeeecCCcEEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR----SVLTTGVGTTT--AGLTVSAL-RENG--EWHLE---AGALVLSDGGVCCID  308 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~~~~~~--~glt~~~~-~~~~--~~~~~---~G~l~la~~gi~~ID  308 (345)
                      -+++.||+|+|||++++++....+.    .+++.......  .+....+. ++-+  ...+.   ..++. .+..++++|
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~~~~~~~~i~q~~vg~~~~~~~~~i~~aLr-~~pd~ii~g   81 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVHESKRSLINQREVGLDTLSFENALKAALR-QDPDVILVG   81 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCccccccCccceeeecccCCCccCHHHHHHHHhc-CCcCEEEEc
Confidence            5899999999999999988776652    22322221100  00000011 1101  00000   11122 357899999


Q ss_pred             CCCCCCHHhHHHHHHHHhCCEE
Q psy1366         309 EFSSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       309 Eidk~~~~~~~~l~eame~~~i  330 (345)
                      |+.  +++....++++.+.+..
T Consensus        82 Eir--d~e~~~~~l~~a~~G~~  101 (198)
T cd01131          82 EMR--DLETIRLALTAAETGHL  101 (198)
T ss_pred             CCC--CHHHHHHHHHHHHcCCE
Confidence            995  34445566677776643

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.

>PRK03839 putative kinase; Provisional

Probab=96.24  E-value=0.0043  Score=53.56  Aligned_cols=31  Identities=19%  Similarity=0.333  Sum_probs=26.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      .|+|+|.||+|||++++.+++.+...+...+
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d   32 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLT   32 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            5899999999999999999998876554433

>PF13245 AAA_19: Part of AAA domain

Probab=96.23  E-value=0.0072  Score=44.76  Aligned_cols=23  Identities=26%  Similarity=0.492  Sum_probs=17.7

Q ss_pred             ceeeeCCCCChHH-HHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKS-EILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs-~l~~~i~~~~  263 (345)
                      -+++.|+|||||| ++++.++.+.
T Consensus        12 ~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   12 LFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH
Confidence            3555999999999 6667776665

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=96.23  E-value=0.031  Score=57.43  Aligned_cols=46  Identities=24%  Similarity=0.373  Sum_probs=32.9

Q ss_pred             hccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         202 ASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       202 ~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.++|.....+.-|.|+..++...               ..++.|.||||||+++..+...
T Consensus       138 ~~~~~~~~~~~~Qk~A~~~al~~~---------------~~vitGgpGTGKTt~v~~ll~~  183 (586)
T TIGR01447       138 ENLFPLLNEQNWQKVAVALALKSN---------------FSLITGGPGTGKTTTVARLLLA  183 (586)
T ss_pred             HHhhccccccHHHHHHHHHHhhCC---------------eEEEEcCCCCCHHHHHHHHHHH
Confidence            334443323356677888888765               7999999999999987776544

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.

>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.22  E-value=0.0068  Score=62.46  Aligned_cols=92  Identities=18%  Similarity=0.247  Sum_probs=62.9

Q ss_pred             eceeeeC----CCCChHHHHHHHHHhhCCC--------------------eEEEcCCccCcCCceEEEEeec--C-----
Q psy1366         240 SHLLLVG----DPGTGKSEILKFAKRMSPR--------------------SVLTTGVGTTTAGLTVSALREN--G-----  288 (345)
Q Consensus       240 ~~iLl~G----~pGtGKs~l~~~i~~~~~~--------------------~~~~~~~~~~~~glt~~~~~~~--~-----  288 (345)
                      .|+.+.+    .+|.+++...+.+......                    .-++...+.+...|...+.-+.  |     
T Consensus       132 ~~~~~~~~~~~~~gv~~~~~~~iv~~~~~~~~~~~~~~~~~~~~~~~~~~~p~v~a~~~~~~~LlG~Vr~~~~qG~l~~~  211 (647)
T COG1067         132 QQIILYGYNALLPGVLYAVAARIVLYEAKILKRSAVSVPKNFVELSPLDGAPVVFATGAIADQLLGSVRHDPYQGGLGTT  211 (647)
T ss_pred             hhhhhcccccccchhhHHHHHHHHHhhhhcccchhhhhhhhhhhhccccCCcEEecCCCChhhcceeEEEcCCCCccCCC
Confidence            3666766    8888888877655444211                    1122223333444555554332  1     


Q ss_pred             -eeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         289 -EWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       289 -~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                       .-.++||++-.||+||+||||++.+....+..++.+|++++-.
T Consensus       212 ~~~~i~pGaVHkAngGVLiIdei~lL~~~~~w~~LKa~~~k~~~  255 (647)
T COG1067         212 GHIRVKPGAVHKANGGVLIIDEIGLLAQPLQWKLLKALLDKEQP  255 (647)
T ss_pred             CcccccCcccccccCcEEEEEhhhhhCcHHHHHHHHHHHhcccc
Confidence             4457899999999999999999999988999999999887443

>KOG0730|consensus

Probab=96.19  E-value=0.0014  Score=66.30  Aligned_cols=99  Identities=22%  Similarity=0.309  Sum_probs=55.3

Q ss_pred             eeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc---cCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCC
Q psy1366         236 VRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG---TTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSS  312 (345)
Q Consensus       236 ~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~---~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk  312 (345)
                      ++....+|++||||+|||.+++++++...-.++.....   +...|-+-+..|..  |   +-+...+-.-+++|||+|.
T Consensus       215 ~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k~~gEte~~LR~~--f---~~a~k~~~psii~IdEld~  289 (693)
T KOG0730|consen  215 IKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISKFPGETESNLRKA--F---AEALKFQVPSIIFIDELDA  289 (693)
T ss_pred             CCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHhcccchHHHHHHH--H---HHHhccCCCeeEeHHhHhh
Confidence            34446899999999999999999999876433322211   11122121111210  0   1111122267999999998


Q ss_pred             CCH----------HhHHHHHHHHh-----CCEEEEeeCCeEE
Q psy1366         313 IKE----------HDRTSIHEAME-----QQTISVAKDKESK  339 (345)
Q Consensus       313 ~~~----------~~~~~l~eame-----~~~i~i~k~gi~~  339 (345)
                      +-+          ..-..|+..|+     .+.|.++-.+...
T Consensus       290 l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~atnrp~  331 (693)
T KOG0730|consen  290 LCPKREGADDVESRVVSQLLTLLDGLKPDAKVIVLAATNRPD  331 (693)
T ss_pred             hCCcccccchHHHHHHHHHHHHHhhCcCcCcEEEEEecCCcc
Confidence            764          22345555554     3455655544433

>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=96.17  E-value=0.0048  Score=51.46  Aligned_cols=29  Identities=17%  Similarity=0.377  Sum_probs=24.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +|+|+|+||+|||++++.+++.++...+.
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~~~   29 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVD   29 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCEEE
Confidence            58999999999999999999887665543

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.16  E-value=0.0052  Score=52.25  Aligned_cols=30  Identities=23%  Similarity=0.376  Sum_probs=26.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .+|+|+|+||+|||++++.+++.++..++.
T Consensus         5 ~~i~l~G~~GsGKstla~~La~~l~~~~~d   34 (175)
T PRK00131          5 PNIVLIGFMGAGKSTIGRLLAKRLGYDFID   34 (175)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhCCCEEE
Confidence            489999999999999999999988765543

>PHA00729 NTP-binding motif containing protein

Probab=96.14  E-value=0.0038  Score=56.06  Aligned_cols=25  Identities=20%  Similarity=0.239  Sum_probs=22.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+++++|+||||||+|+..+++.+.
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4899999999999999999998653

>PRK14530 adenylate kinase; Provisional

Probab=96.12  E-value=0.0057  Score=54.54  Aligned_cols=31  Identities=29%  Similarity=0.358  Sum_probs=26.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .+|+|+|+||+|||++++.+++.++-....+
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~~~~i~~   34 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFGVEHVTT   34 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            3799999999999999999999887544433

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

Probab=96.11  E-value=0.006  Score=52.33  Aligned_cols=25  Identities=32%  Similarity=0.566  Sum_probs=18.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+++++|++|+|||+|++.+.+.+.
T Consensus        25 ~~~ll~G~~G~GKT~ll~~~~~~~~   49 (185)
T PF13191_consen   25 RNLLLTGESGSGKTSLLRALLDRLA   49 (185)
T ss_dssp             --EEE-B-TTSSHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4899999999999999997776553

>KOG1808|consensus

Probab=96.10  E-value=0.0054  Score=69.00  Aligned_cols=97  Identities=18%  Similarity=0.308  Sum_probs=73.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc--cCcCCceE-EEEeecCeeEeeeceeeec--CCcEEEEcCCCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG--TTTAGLTV-SALRENGEWHLEAGALVLS--DGGVCCIDEFSSIK  314 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~--~~~~glt~-~~~~~~~~~~~~~G~l~la--~~gi~~IDEidk~~  314 (345)
                      .++||.||.|+|||.+++++++...+.+......  .+...+-. .+..++|....+-|+++.|  +|-.+++||++..+
T Consensus       441 ~pillqG~tssGKtsii~~la~~~g~~~vrinnhehtd~qeyig~y~~~~~g~l~freg~LV~Alr~G~~~vlD~lnla~  520 (1856)
T KOG1808|consen  441 FPILLQGPTSSGKTSIIKELARATGKNIVRINNHEHTDLQEYIGTYVADDNGDLVFREGVLVQALRNGDWIVLDELNLAP  520 (1856)
T ss_pred             CCeEEecCcCcCchhHHHHHHHHhccCceehhccccchHHHHHHhhhcCCCCCeeeehhHHHHHHHhCCEEEeccccccc
Confidence            5999999999999999999999887655433221  11111111 2334457777888998876  58889999999999


Q ss_pred             HHhHHHHHHHHhC-CEEEEeeCC
Q psy1366         315 EHDRTSIHEAMEQ-QTISVAKDK  336 (345)
Q Consensus       315 ~~~~~~l~eame~-~~i~i~k~g  336 (345)
                      .+...+|...+++ +.+.+...-
T Consensus       521 ~dvL~aLnrllddnRel~ipe~~  543 (1856)
T KOG1808|consen  521 HDVLEALNRLLDDNRELFIPETQ  543 (1856)
T ss_pred             hHHHHHHHhhhhhhccccccccc
Confidence            9999999999998 777776544

>PRK00625 shikimate kinase; Provisional

Probab=96.08  E-value=0.0059  Score=52.74  Aligned_cols=30  Identities=23%  Similarity=0.356  Sum_probs=25.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      +|+|+|.||+|||++++.+++.+...++-.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~   31 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDT   31 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEh
Confidence            799999999999999999999877655433

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.06  E-value=0.0064  Score=53.94  Aligned_cols=21  Identities=38%  Similarity=0.532  Sum_probs=15.5

Q ss_pred             eeeeCCCCChHHHHHHHHHhh
Q psy1366         242 LLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++.||||||||+++..+...
T Consensus        20 ~~i~GpPGTGKT~~l~~~i~~   40 (236)
T PF13086_consen   20 TLIQGPPGTGKTTTLASIIAQ   40 (236)
T ss_dssp             EEEE-STTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            899999999999755555443

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.06  E-value=0.0069  Score=52.29  Aligned_cols=27  Identities=22%  Similarity=0.303  Sum_probs=23.1

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      |+++|+||+|||++++.+++..+-...
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~i   28 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTHL   28 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEE
Confidence            689999999999999999998764333

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.

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=96.05  E-value=0.0067  Score=56.60  Aligned_cols=86  Identities=10%  Similarity=0.032  Sum_probs=50.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC----ccCcCCceEE------------EEeec-CeeEeeeceeeecC
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV----GTTTAGLTVS------------ALREN-GEWHLEAGALVLSD  301 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~----~~~~~glt~~------------~~~~~-~~~~~~~G~l~la~  301 (345)
                      .+-.||.||+|+||..++..+++.+--.-.....    ...-..+...            ..|+- ....+.|   ..+.
T Consensus        19 ~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p---~e~~   95 (290)
T PRK05917         19 PSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHP---YESP   95 (290)
T ss_pred             CeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCc---cCCC
Confidence            3578899999999999999998765210000000    0000111100            00000 0111111   2244


Q ss_pred             CcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         302 GGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       302 ~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .-|++||+.|+|+.+.+++|+..||+
T Consensus        96 ~kv~ii~~ad~mt~~AaNaLLK~LEE  121 (290)
T PRK05917         96 YKIYIIHEADRMTLDAISAFLKVLED  121 (290)
T ss_pred             ceEEEEechhhcCHHHHHHHHHHhhc
Confidence            67999999999999999999999997

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.02  E-value=0.0058  Score=53.03  Aligned_cols=28  Identities=32%  Similarity=0.504  Sum_probs=24.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|+++|+||.|||++++.+++.++-.-.
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~hl   29 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLPHL   29 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            5899999999999999999999765433

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=96.01  E-value=0.0072  Score=61.78  Aligned_cols=23  Identities=26%  Similarity=0.551  Sum_probs=21.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .++|+|++|+|||.|++++++.+
T Consensus       316 pL~LyG~sGsGKTHLL~AIa~~a  338 (617)
T PRK14086        316 PLFIYGESGLGKTHLLHAIGHYA  338 (617)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHH
Confidence            59999999999999999999865

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

Probab=95.99  E-value=0.0082  Score=56.90  Aligned_cols=55  Identities=24%  Similarity=0.225  Sum_probs=39.3

Q ss_pred             hccCcccccchHHHHH--HHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         202 ASICPAIYGLYLVKLC--LAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       202 ~s~~p~i~G~~~vk~~--i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..+.-.+.||..+++|  ++.-++..-.         .+---||+.||||||||.||-.+++.++.
T Consensus        35 k~~~dG~VGQ~~AReAaGvIv~mik~gk---------~aGrgiLi~GppgTGKTAlA~gIa~eLG~   91 (450)
T COG1224          35 KFIGDGLVGQEEAREAAGVIVKMIKQGK---------MAGRGILIVGPPGTGKTALAMGIARELGE   91 (450)
T ss_pred             eEcCCcccchHHHHHhhhHHHHHHHhCc---------ccccEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            4456678899888765  4444442200         11137999999999999999999998874

>PHA02624 large T antigen; Provisional

Probab=95.99  E-value=0.018  Score=58.62  Aligned_cols=25  Identities=16%  Similarity=0.191  Sum_probs=23.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+||+||||||||+++.++.+.+..
T Consensus       433 ~il~~GPpnTGKTtf~~sLl~~L~G  457 (647)
T PHA02624        433 YWLFKGPVNSGKTTLAAALLDLCGG  457 (647)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            7999999999999999999999843

>PRK07261 topology modulation protein; Provisional

Probab=95.98  E-value=0.0078  Score=51.78  Aligned_cols=28  Identities=25%  Similarity=0.420  Sum_probs=23.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|+++|+||+|||+|++.+++.++-..+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i   29 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVL   29 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeE
Confidence            5899999999999999999987654443

>PRK13949 shikimate kinase; Provisional

Probab=95.97  E-value=0.0072  Score=51.92  Aligned_cols=29  Identities=31%  Similarity=0.371  Sum_probs=25.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +|+|+|+||+|||++++.+++.+...++.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~~~id   31 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGLSFID   31 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCeec
Confidence            69999999999999999999988765443

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=95.96  E-value=0.016  Score=59.05  Aligned_cols=29  Identities=17%  Similarity=0.289  Sum_probs=25.1

Q ss_pred             ecCCcEEEEcCCCC-CCHHhHHHHHHHHhC
Q psy1366         299 LSDGGVCCIDEFSS-IKEHDRTSIHEAMEQ  327 (345)
Q Consensus       299 la~~gi~~IDEidk-~~~~~~~~l~eame~  327 (345)
                      +-...++||||... ++++.+..|++++++
T Consensus       531 L~kP~~v~LDEATsALDe~~e~~l~q~l~~  560 (604)
T COG4178         531 LHKPKWVFLDEATSALDEETEDRLYQLLKE  560 (604)
T ss_pred             HcCCCEEEEecchhccChHHHHHHHHHHHh
Confidence            34578999999976 789999999999988

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.94  E-value=0.0083  Score=54.22  Aligned_cols=32  Identities=22%  Similarity=0.465  Sum_probs=27.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      ..|+|+|+||+|||++++.+++...-....+|
T Consensus         7 mrIvl~G~PGsGK~T~a~~La~~~g~~~is~g   38 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEILSKKENLKHINMG   38 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEECC
Confidence            46999999999999999999998876555554

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=95.92  E-value=0.011  Score=62.29  Aligned_cols=86  Identities=22%  Similarity=0.261  Sum_probs=50.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC-----CeEEEcCCccCc-------CCceEEEEeecCeeEeeecee------eecCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP-----RSVLTTGVGTTT-------AGLTVSALRENGEWHLEAGAL------VLSDG  302 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~-----~~~~~~~~~~~~-------~glt~~~~~~~~~~~~~~G~l------~la~~  302 (345)
                      .+++.|.||||||++++.+.+.+.     ..+.....+..+       .|..+.-...  -....++..      ...+.
T Consensus       340 ~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e~~g~~a~Tih~--lL~~~~~~~~~~~~~~~~~~  417 (720)
T TIGR01448       340 VVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGEVTGLTASTIHR--LLGYGPDTFRHNHLEDPIDC  417 (720)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHHhcCCccccHHH--HhhccCCccchhhhhccccC
Confidence            799999999999999998877653     233332211111       1111110000  000001100      01246


Q ss_pred             cEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         303 GVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       303 gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      .+++|||...++......|++++..+
T Consensus       418 ~llIvDEaSMvd~~~~~~Ll~~~~~~  443 (720)
T TIGR01448       418 DLLIVDESSMMDTWLALSLLAALPDH  443 (720)
T ss_pred             CEEEEeccccCCHHHHHHHHHhCCCC
Confidence            79999999999999889999888654

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.

>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=95.90  E-value=0.0056  Score=49.11  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=20.5

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      |+|.|.||+|||++++.+++.+
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            6899999999999999999885

...

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=95.90  E-value=0.004  Score=61.95  Aligned_cols=23  Identities=39%  Similarity=0.661  Sum_probs=20.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +++|+|++|+|||.|++++++.+
T Consensus       143 pl~i~G~~G~GKTHLl~Ai~~~l  165 (450)
T PRK14087        143 PLFIYGESGMGKTHLLKAAKNYI  165 (450)
T ss_pred             ceEEECCCCCcHHHHHHHHHHHH
Confidence            69999999999999999998743

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=95.90  E-value=0.0092  Score=51.84  Aligned_cols=29  Identities=24%  Similarity=0.421  Sum_probs=24.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .|+++|+||+|||++++.+++..+-....
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~~~~~~i~   29 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKKYGLPHIS   29 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcCCeEEE
Confidence            48999999999999999999987654433

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=95.83  E-value=0.011  Score=56.70  Aligned_cols=28  Identities=7%  Similarity=0.172  Sum_probs=25.5

Q ss_pred             cCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         300 SDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       300 a~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      +..-|++||+.|+|+....++|+..||+
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEE  158 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEE  158 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcC
Confidence            4457999999999999999999999997

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=95.82  E-value=0.034  Score=51.27  Aligned_cols=89  Identities=16%  Similarity=0.210  Sum_probs=47.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe---EEE-cCCccC-cCCce-EEEEee--cCeeEeeeceeeecCCcEEEEcCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS---VLT-TGVGTT-TAGLT-VSALRE--NGEWHLEAGALVLSDGGVCCIDEFS  311 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~-~~~~~~-~~glt-~~~~~~--~~~~~~~~G~l~la~~gi~~IDEid  311 (345)
                      -++++.|++|+|||++++++....|..   +.+ ...... ..+.. ......  ...+.---....+.+.-+++|+|+.
T Consensus       128 ~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~~~~~~~~~~~~~~~~~~~l~~~LR~~pD~iiigEiR  207 (270)
T PF00437_consen  128 GNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPGPNQIQIQTRRDEISYEDLLKSALRQDPDVIIIGEIR  207 (270)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SCSSEEEEEEETTTBSHHHHHHHHTTS--SEEEESCE-
T ss_pred             eEEEEECCCccccchHHHHHhhhccccccceEEeccccceeecccceEEEEeecCcccHHHHHHHHhcCCCCcccccccC
Confidence            399999999999999999999988765   111 111000 01111 111111  1111000111234567899999999


Q ss_pred             CCCHHhHHHHHHHHhCCEEE
Q psy1366         312 SIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       312 k~~~~~~~~l~eame~~~i~  331 (345)
                      ..  +...+ .++++.|...
T Consensus       208 ~~--e~~~~-~~a~~tGh~~  224 (270)
T PF00437_consen  208 DP--EAAEA-IQAANTGHLG  224 (270)
T ss_dssp             SC--HHHHH-HHHHHTT-EE
T ss_pred             CH--hHHHH-HHhhccCCce
Confidence            75  33344 8888887643

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 ....

>KOG0741|consensus

Probab=95.81  E-value=0.0056  Score=60.67  Aligned_cols=24  Identities=42%  Similarity=0.617  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -|||+||||||||.+||.+-+.+.
T Consensus       258 GiLLyGPPGTGKTLiARqIGkMLN  281 (744)
T KOG0741|consen  258 GILLYGPPGTGKTLIARQIGKMLN  281 (744)
T ss_pred             eEEEECCCCCChhHHHHHHHHHhc
Confidence            499999999999999999998885

>PRK04132 replication factor C small subunit; Provisional

Probab=95.76  E-value=0.0048  Score=65.37  Aligned_cols=84  Identities=14%  Similarity=0.148  Sum_probs=50.2

Q ss_pred             eceeeeC--CCCChHHHHHHHHHhhCCC-----eEEEcCCccCcCCceEEEEeec-CeeEeeeceeeecCCcEEEEcCCC
Q psy1366         240 SHLLLVG--DPGTGKSEILKFAKRMSPR-----SVLTTGVGTTTAGLTVSALREN-GEWHLEAGALVLSDGGVCCIDEFS  311 (345)
Q Consensus       240 ~~iLl~G--~pGtGKs~l~~~i~~~~~~-----~~~~~~~~~~~~glt~~~~~~~-~~~~~~~G~l~la~~gi~~IDEid  311 (345)
                      +|-+.-|  |.+.|||++++++++.+..     .+. .-.+++..|..  .+|+. .++... ..+.-++..|++|||+|
T Consensus       565 ~~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~l-ElNASd~rgid--~IR~iIk~~a~~-~~~~~~~~KVvIIDEaD  640 (846)
T PRK04132        565 YHNFIGGNLPTVLHNTTAALALARELFGENWRHNFL-ELNASDERGIN--VIREKVKEFART-KPIGGASFKIIFLDEAD  640 (846)
T ss_pred             hhhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEE-EEeCCCcccHH--HHHHHHHHHHhc-CCcCCCCCEEEEEECcc
Confidence            3556778  8999999999999987621     121 11122222211  11110 111000 00101134699999999


Q ss_pred             CCCHHhHHHHHHHHhC
Q psy1366         312 SIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       312 k~~~~~~~~l~eame~  327 (345)
                      +|+.+.|++|+..||+
T Consensus       641 ~Lt~~AQnALLk~lEe  656 (846)
T PRK04132        641 ALTQDAQQALRRTMEM  656 (846)
T ss_pred             cCCHHHHHHHHHHhhC
Confidence            9999999999999995

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.75  E-value=0.01  Score=51.59  Aligned_cols=31  Identities=23%  Similarity=0.443  Sum_probs=26.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      .+.|+|++|+|||+|++.++...+..+...+
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~~~~~~~~~   34 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQREQTQLLVAH   34 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCCeEEEcC
Confidence            7899999999999999999998766555544

>PRK14531 adenylate kinase; Provisional

Probab=95.75  E-value=0.01  Score=51.52  Aligned_cols=28  Identities=29%  Similarity=0.347  Sum_probs=24.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|+++|+||+|||++++.+++..+-...
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~g~~~i   31 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAHGLRHL   31 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeE
Confidence            6999999999999999999988765443

>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=95.74  E-value=0.0088  Score=43.25  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=20.3

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +.+.|+||+|||++++.+++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999885

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.

>PRK06217 hypothetical protein; Validated

Probab=95.73  E-value=0.012  Score=51.15  Aligned_cols=30  Identities=17%  Similarity=0.221  Sum_probs=25.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      +|+|+|.||+|||++++.+++.++..++..
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~   32 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDT   32 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEc
Confidence            699999999999999999999987655433

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

Probab=95.72  E-value=0.0058  Score=53.02  Aligned_cols=84  Identities=23%  Similarity=0.326  Sum_probs=45.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC---Ce-EEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCC--
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP---RS-VLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSI--  313 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~---~~-~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~--  313 (345)
                      .+++|+|+||||||.|+.+++..+-   .. .|+.-. .-...+..+  +..+.+  +.-.-.+.+--+++||||...  
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~-~L~~~l~~~--~~~~~~--~~~~~~l~~~dlLilDDlG~~~~  122 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITAS-DLLDELKQS--RSDGSY--EELLKRLKRVDLLILDDLGYEPL  122 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHH-HHHHHHHCC--HCCTTH--CHHHHHHHTSSCEEEETCTSS--
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecC-ceecccccc--ccccch--hhhcCccccccEecccccceeee
Confidence            4899999999999999999986431   11 121100 000000000  001110  000012345679999999875  


Q ss_pred             CHHhHHHHHHHHhCC
Q psy1366         314 KEHDRTSIHEAMEQQ  328 (345)
Q Consensus       314 ~~~~~~~l~eame~~  328 (345)
                      ++.....|+++++.+
T Consensus       123 ~~~~~~~l~~ii~~R  137 (178)
T PF01695_consen  123 SEWEAELLFEIIDER  137 (178)
T ss_dssp             -HHHHHCTHHHHHHH
T ss_pred             cccccccchhhhhHh
Confidence            455667778887654

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.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.66  E-value=0.013  Score=50.45  Aligned_cols=31  Identities=26%  Similarity=0.343  Sum_probs=26.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      +|+|+|++|+|||++++.+++.+...++...
T Consensus         6 ~I~liG~~GaGKStl~~~La~~l~~~~vd~D   36 (172)
T PRK05057          6 NIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   36 (172)
T ss_pred             EEEEECCCCcCHHHHHHHHHHHcCCcEEECC
Confidence            7999999999999999999998876655443

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.65  E-value=0.012  Score=49.91  Aligned_cols=25  Identities=28%  Similarity=0.363  Sum_probs=22.2

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      ++|+|+||+|||++++.+++.++..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~   25 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAK   25 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCe
Confidence            5789999999999999999988643

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.

>PF06048 DUF927: Domain of unknown function (DUF927); InterPro: IPR009270 This entry is represented by Bacteriophage PT1028, Orf1

Probab=95.65  E-value=0.0091  Score=55.79  Aligned_cols=66  Identities=21%  Similarity=0.240  Sum_probs=43.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeE-EEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSV-LTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDR  318 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~-~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~  318 (345)
                      .-+-|+|++++|||++++.++.+...+- +...-.+|..||              .+.+...++..++|||+...++.+.
T Consensus       194 ~~~hl~G~Ss~GKTt~~~~a~Sv~G~p~~l~~sw~~T~n~l--------------e~~a~~~nd~~l~lDE~~~~~~~~~  259 (286)
T PF06048_consen  194 FGFHLYGQSSSGKTTALQLAASVWGNPDGLIRSWNSTDNGL--------------ERTAAAHNDLPLVLDELSQADPKDV  259 (286)
T ss_pred             eEEEEEeCCCCCHHHHHHHhhhhCcCchhhhhcchhhHHHH--------------HHHHHHcCCcceEehhccccchhHH
Confidence            3566899999999999999998876544 111111222222              1222334577899999999888653


Q ss_pred             H
Q psy1366         319 T  319 (345)
Q Consensus       319 ~  319 (345)
                      .
T Consensus       260 ~  260 (286)
T PF06048_consen  260 G  260 (286)
T ss_pred             H
Confidence            3

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.62  E-value=0.0097  Score=51.39  Aligned_cols=28  Identities=25%  Similarity=0.348  Sum_probs=23.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      -++++|+||+|||++++.+++.++-...
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~g~~~~   32 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKYGFTHL   32 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            5889999999999999999977654433

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.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.62  E-value=0.012  Score=48.97  Aligned_cols=26  Identities=23%  Similarity=0.322  Sum_probs=22.3

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      ++|.|+||+|||++++.+++.....+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~   27 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPF   27 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEE
Confidence            68999999999999999999865433

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK06762 hypothetical protein; Provisional

Probab=95.60  E-value=0.013  Score=49.86  Aligned_cols=27  Identities=26%  Similarity=0.455  Sum_probs=23.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      -++|.|.||+|||++++.+++.++.++
T Consensus         4 li~i~G~~GsGKST~A~~L~~~l~~~~   30 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQERLGRGT   30 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            578999999999999999998876443

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.59  E-value=0.02  Score=47.22  Aligned_cols=25  Identities=28%  Similarity=0.308  Sum_probs=23.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .++|.|+.|+|||+++|.+++.++.
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            7999999999999999999998864

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.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=95.58  E-value=0.013  Score=56.77  Aligned_cols=87  Identities=24%  Similarity=0.251  Sum_probs=51.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCc-----CCceEEEEe----ecCeeE-e--ee---ceeeecC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTT-----AGLTVSALR----ENGEWH-L--EA---GALVLSD  301 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~-----~glt~~~~~----~~~~~~-~--~~---G~l~la~  301 (345)
                      .++.+.|+.|||||.+++++.+.+..   .+..++..+.+     .|-|.-..-    +..... .  ..   -.-.+.+
T Consensus        23 ~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~AA~~i~~G~T~hs~f~i~~~~~~~~~~~~~~~~~~~~~l~~  102 (364)
T PF05970_consen   23 LNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIAAFNIPGGRTIHSFFGIPINNNEKSQCKISKNSRLRERLRK  102 (364)
T ss_pred             cEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHHHHhccCCcchHHhcCccccccccccccccccchhhhhhhh
Confidence            48999999999999999999887744   34433322111     122211000    000000 0  00   0112334


Q ss_pred             CcEEEEcCCCCCCHHhHHHHHHHHh
Q psy1366         302 GGVCCIDEFSSIKEHDRTSIHEAME  326 (345)
Q Consensus       302 ~gi~~IDEidk~~~~~~~~l~eame  326 (345)
                      -.+++|||+..++.....++...|.
T Consensus       103 ~~~lIiDEism~~~~~l~~i~~~lr  127 (364)
T PF05970_consen  103 ADVLIIDEISMVSADMLDAIDRRLR  127 (364)
T ss_pred             heeeecccccchhHHHHHHHHHhhh
Confidence            4689999999999988887776665

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK14526 adenylate kinase; Provisional

Probab=95.57  E-value=0.013  Score=52.25  Aligned_cols=31  Identities=32%  Similarity=0.547  Sum_probs=25.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      +++|+|+||+|||++++.+++..+.....+|
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~~~~~~~is~G   32 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSNELNYYHISTG   32 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceeecC
Confidence            6899999999999999999987665444333

>PRK14528 adenylate kinase; Provisional

Probab=95.57  E-value=0.013  Score=51.09  Aligned_cols=30  Identities=23%  Similarity=0.430  Sum_probs=25.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      ++++.|+||+|||++++.+++..+-..+..
T Consensus         3 ~i~i~G~pGsGKtt~a~~la~~~~~~~is~   32 (186)
T PRK14528          3 NIIFMGPPGAGKGTQAKILCERLSIPQIST   32 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeeeC
Confidence            689999999999999999998776544433

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=95.55  E-value=0.016  Score=59.83  Aligned_cols=101  Identities=21%  Similarity=0.192  Sum_probs=60.3

Q ss_pred             chHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC----C---CeEEEcCCccCcCC-ce--
Q psy1366         211 LYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS----P---RSVLTTGVGTTTAG-LT--  280 (345)
Q Consensus       211 ~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~----~---~~~~~~~~~~~~~g-lt--  280 (345)
                      .+.-|.|+.+++..+               -.++.|+||||||++++.+...+    +   ..++.......++. |+  
T Consensus       154 ~d~Qk~Av~~a~~~~---------------~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~  218 (615)
T PRK10875        154 VDWQKVAAAVALTRR---------------ISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTES  218 (615)
T ss_pred             CHHHHHHHHHHhcCC---------------eEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHH
Confidence            367888999888766               78999999999999887765443    1   23443332111100 00  


Q ss_pred             ---------------------E-EEEe------ecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         281 ---------------------V-SALR------ENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       281 ---------------------~-~~~~------~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                                           + +..|      +...+....+.  .-+..+++|||...++-.....|++++..+
T Consensus       219 ~~~~~~~~~~~~~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~~--~l~~dvlIvDEaSMvd~~lm~~ll~al~~~  292 (615)
T PRK10875        219 LGKALRQLPLTDEQKKRIPEEASTLHRLLGAQPGSQRLRYHAGN--PLHLDVLVVDEASMVDLPMMARLIDALPPH  292 (615)
T ss_pred             HHhhhhccccchhhhhcCCCchHHHHHHhCcCCCccchhhcccc--CCCCCeEEEChHhcccHHHHHHHHHhcccC
Confidence                                 0 0000      00001111111  112369999999999999999999998764

>PRK13764 ATPase; Provisional

Probab=95.55  E-value=0.016  Score=59.26  Aligned_cols=72  Identities=22%  Similarity=0.250  Sum_probs=40.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC-Cc--cCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG-VG--TTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSI  313 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~-~~--~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~  313 (345)
                      ++|+.|+||+|||+++++++..++.   .+.+.- ..  ......+..... .+.+..-+..+.+.+.-++++||+...
T Consensus       259 ~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~~~~i~q~~~~-~~~~~~~~~~lLR~rPD~IivGEiRd~  336 (602)
T PRK13764        259 GILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQVPPEITQYSKL-EGSMEETADILLLVRPDYTIYDEMRKT  336 (602)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccCCCcceEEeec-cccHHHHHHHHHhhCCCEEEECCCCCH
Confidence            7999999999999999999987763   221211 00  000011111001 111111123344567889999999863

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.52  E-value=0.011  Score=50.80  Aligned_cols=27  Identities=22%  Similarity=0.332  Sum_probs=24.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .|+|.|+||+|||++++.+++.++...
T Consensus         4 ~i~l~G~~gsGKst~a~~l~~~~~~~~   30 (175)
T cd00227           4 IIILNGGSSAGKSSIARALQSVLAEPW   30 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCCCc
Confidence            699999999999999999999876543

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>KOG2035|consensus

Probab=95.52  E-value=0.067  Score=49.27  Aligned_cols=26  Identities=19%  Similarity=0.319  Sum_probs=24.2

Q ss_pred             CcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         302 GGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       302 ~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      -.++.|.|.|++..+.|.+|..-||.
T Consensus       128 fKvvvi~ead~LT~dAQ~aLRRTMEk  153 (351)
T KOG2035|consen  128 FKVVVINEADELTRDAQHALRRTMEK  153 (351)
T ss_pred             eEEEEEechHhhhHHHHHHHHHHHHH
Confidence            36899999999999999999999995

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=95.50  E-value=0.011  Score=46.84  Aligned_cols=24  Identities=21%  Similarity=0.440  Sum_probs=20.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      +|+++|++|+|||+|++.+.....
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS-
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCC
Confidence            489999999999999999987654

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=95.48  E-value=0.013  Score=61.92  Aligned_cols=83  Identities=27%  Similarity=0.360  Sum_probs=50.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC---CeEEEcCCccC-------cCCceEEEEeecCee--EeeeceeeecCCcEEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP---RSVLTTGVGTT-------TAGLTVSALRENGEW--HLEAGALVLSDGGVCCID  308 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~---~~~~~~~~~~~-------~~glt~~~~~~~~~~--~~~~G~l~la~~gi~~ID  308 (345)
                      -++|.|+||||||++++.+...+.   ..+......+.       ..|..+.-+   ..|  ....+.-.+...-+++||
T Consensus       370 ~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~~g~~a~Ti---~~~~~~~~~~~~~~~~~~llIvD  446 (744)
T TIGR02768       370 IAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAESGIESRTL---ASLEYAWANGRDLLSDKDVLVID  446 (744)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhccCCceeeH---HHHHhhhccCcccCCCCcEEEEE
Confidence            578999999999999999876543   22322221111       112211100   011  012222234567899999


Q ss_pred             CCCCCCHHhHHHHHHHHh
Q psy1366         309 EFSSIKEHDRTSIHEAME  326 (345)
Q Consensus       309 Eidk~~~~~~~~l~eame  326 (345)
                      |+..++......|+...+
T Consensus       447 EasMv~~~~~~~Ll~~~~  464 (744)
T TIGR02768       447 EAGMVGSRQMARVLKEAE  464 (744)
T ss_pred             CcccCCHHHHHHHHHHHH
Confidence            999999998888888554

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.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.44  E-value=0.0098  Score=49.47  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=21.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      +++++|+||+|||+++..++..+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~   24 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIA   24 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHH
Confidence            579999999999999999987663

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.

>TIGR01351 adk adenylate kinases

Probab=95.44  E-value=0.015  Score=51.61  Aligned_cols=29  Identities=31%  Similarity=0.432  Sum_probs=24.2

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      |+++|+||+|||++++.+++..+-....+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~is~   30 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHIST   30 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeeeh
Confidence            79999999999999999998776544433

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.

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=95.43  E-value=0.01  Score=52.44  Aligned_cols=78  Identities=17%  Similarity=0.270  Sum_probs=53.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhH
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDR  318 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~  318 (345)
                      +.-++|+|+-|+|||++++.+...    .|.......          ++++     ....+...-+++|||++.++..+.
T Consensus        52 d~~lvl~G~QG~GKStf~~~L~~~----~~~d~~~~~----------~~kd-----~~~~l~~~~iveldEl~~~~k~~~  112 (198)
T PF05272_consen   52 DTVLVLVGKQGIGKSTFFRKLGPE----YFSDSINDF----------DDKD-----FLEQLQGKWIVELDELDGLSKKDV  112 (198)
T ss_pred             ceeeeEecCCcccHHHHHHHHhHH----hccCccccC----------CCcH-----HHHHHHHhHheeHHHHhhcchhhH
Confidence            457899999999999999988432    332221100          0111     112334456899999999999999


Q ss_pred             HHHHHHHhCCEEEEeeC
Q psy1366         319 TSIHEAMEQQTISVAKD  335 (345)
Q Consensus       319 ~~l~eame~~~i~i~k~  335 (345)
                      +.|-..+-..++++-.+
T Consensus       113 ~~lK~~iT~~~~~~R~p  129 (198)
T PF05272_consen  113 EALKSFITRRTDTYRPP  129 (198)
T ss_pred             HHHHHHhcccceeeecC
Confidence            99999988887776543

>PRK06921 hypothetical protein; Provisional

Probab=95.41  E-value=0.011  Score=54.76  Aligned_cols=24  Identities=33%  Similarity=0.591  Sum_probs=21.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      +++|+|+||+|||.|+.++++.+.
T Consensus       119 ~l~l~G~~G~GKThLa~aia~~l~  142 (266)
T PRK06921        119 SIALLGQPGSGKTHLLTAAANELM  142 (266)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHh
Confidence            899999999999999999988653

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=95.40  E-value=0.026  Score=49.15  Aligned_cols=26  Identities=27%  Similarity=0.563  Sum_probs=23.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+++++|++|+|||++++++..+.+.
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~i~~   51 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAFIPP   51 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcCC
Confidence            38999999999999999999988764

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.40  E-value=0.15  Score=47.13  Aligned_cols=88  Identities=16%  Similarity=0.212  Sum_probs=47.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccC--cCCceEEEEeecCeeEee--eceeeecCCcEEEEcCCCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTT--TAGLTVSALRENGEWHLE--AGALVLSDGGVCCIDEFSSI  313 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~--~~glt~~~~~~~~~~~~~--~G~l~la~~gi~~IDEidk~  313 (345)
                      .+++.|++|+|||++++++....+.   .+.+......  ..+...........+.+.  --.....+.-+++++|+...
T Consensus        82 lilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~~~~q~~v~~~~~~~~~~~l~~~lR~~PD~i~vgEiR~~  161 (264)
T cd01129          82 IILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIPGINQVQVNEKAGLTFARGLRAILRQDPDIIMVGEIRDA  161 (264)
T ss_pred             EEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCCCceEEEeCCcCCcCHHHHHHHHhccCCCEEEeccCCCH
Confidence            7999999999999999988665543   2222211110  112211111111111110  00123457789999999874


Q ss_pred             CHHhHHHHHHHHhCCEE
Q psy1366         314 KEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       314 ~~~~~~~l~eame~~~i  330 (345)
                      ..  -.++++++..|..
T Consensus       162 e~--a~~~~~aa~tGh~  176 (264)
T cd01129         162 ET--AEIAVQAALTGHL  176 (264)
T ss_pred             HH--HHHHHHHHHcCCc
Confidence            32  3456777777654

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.

>PRK02496 adk adenylate kinase; Provisional

Probab=95.40  E-value=0.014  Score=50.49  Aligned_cols=28  Identities=21%  Similarity=0.363  Sum_probs=24.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .++++|+||+|||++++.+++..+....
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~~~~i   30 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLHIPHI   30 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            5899999999999999999987765444

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.35  E-value=0.01  Score=56.50  Aligned_cols=85  Identities=21%  Similarity=0.257  Sum_probs=46.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---e-EEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCC--CC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---S-VLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSS--IK  314 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~-~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk--~~  314 (345)
                      +++|+|+||||||.|+.++++.+-.   . +|.+... -...+..+. .+.. ...+...-.+.+--+++|||+..  .+
T Consensus       185 ~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~-l~~~l~~~~-~~~~-~~~~~~~~~l~~~DLLIIDDlG~e~~t  261 (329)
T PRK06835        185 NLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADE-LIEILREIR-FNND-KELEEVYDLLINCDLLIIDDLGTEKIT  261 (329)
T ss_pred             cEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHH-HHHHHHHHH-hccc-hhHHHHHHHhccCCEEEEeccCCCCCC
Confidence            8999999999999999999886521   2 2222100 000000000 0000 00000001122346899999955  56


Q ss_pred             HHhHHHHHHHHhCC
Q psy1366         315 EHDRTSIHEAMEQQ  328 (345)
Q Consensus       315 ~~~~~~l~eame~~  328 (345)
                      +..+..|++.++.+
T Consensus       262 ~~~~~~Lf~iin~R  275 (329)
T PRK06835        262 EFSKSELFNLINKR  275 (329)
T ss_pred             HHHHHHHHHHHHHH
Confidence            66678888887653

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=95.34  E-value=0.024  Score=54.16  Aligned_cols=26  Identities=27%  Similarity=0.463  Sum_probs=24.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+||+.|++|+|||++++++....|.
T Consensus       161 ~nili~G~tgSGKTTll~aL~~~ip~  186 (332)
T PRK13900        161 KNIIISGGTSTGKTTFTNAALREIPA  186 (332)
T ss_pred             CcEEEECCCCCCHHHHHHHHHhhCCC
Confidence            49999999999999999999998885

>cd01878 HflX HflX subfamily

Probab=95.34  E-value=0.061  Score=47.11  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=20.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+++|+||+|||+|++++...
T Consensus        42 ~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          42 PTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHhcc
Confidence            69999999999999999988764

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PF05729 NACHT: NACHT domain

Probab=95.28  E-value=0.013  Score=49.08  Aligned_cols=23  Identities=35%  Similarity=0.624  Sum_probs=19.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -+++.|+||+|||++++.++...
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~   24 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQL   24 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHH
Confidence            37899999999999999988544

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=95.28  E-value=0.024  Score=48.52  Aligned_cols=25  Identities=28%  Similarity=0.529  Sum_probs=23.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .++++||+|+|||+|+|.++.+.+.
T Consensus        31 ~iaitGPSG~GKStllk~va~Lisp   55 (223)
T COG4619          31 FIAITGPSGCGKSTLLKIVASLISP   55 (223)
T ss_pred             eEEEeCCCCccHHHHHHHHHhccCC
Confidence            7999999999999999999998765

>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=95.27  E-value=0.019  Score=47.31  Aligned_cols=30  Identities=30%  Similarity=0.457  Sum_probs=24.9

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      |.+.|+||+|||++++.+++.++-+++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            689999999999999999998776555443

>PF13479 AAA_24: AAA domain

Probab=95.25  E-value=0.014  Score=52.05  Aligned_cols=29  Identities=24%  Similarity=0.555  Sum_probs=24.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV  272 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~  272 (345)
                      +.+||+|+||+|||+++..+    |+.++..--
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~----~k~l~id~E   32 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL----PKPLFIDTE   32 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC----CCeEEEEeC
Confidence            68999999999999998877    887776643

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.24  E-value=0.02  Score=50.96  Aligned_cols=30  Identities=33%  Similarity=0.536  Sum_probs=25.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .|+++|+||+|||++++.+++..+-.....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            589999999999999999998887555544

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.22  E-value=0.016  Score=49.93  Aligned_cols=24  Identities=29%  Similarity=0.601  Sum_probs=21.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -++++|+||+|||++++.++..++
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            478999999999999999998764

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.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=95.22  E-value=0.01  Score=53.14  Aligned_cols=22  Identities=36%  Similarity=0.739  Sum_probs=19.6

Q ss_pred             eeceeeeCCCCChHHHHHHHHH
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      ...+|++|+||+|||+++++++
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC
Confidence            4579999999999999999874

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.

>PLN02200 adenylate kinase family protein

Probab=95.21  E-value=0.022  Score=51.64  Aligned_cols=31  Identities=19%  Similarity=0.219  Sum_probs=25.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      ..+++.|+||+|||++++.+++.++-..+.+
T Consensus        44 ~ii~I~G~PGSGKsT~a~~La~~~g~~his~   74 (234)
T PLN02200         44 FITFVLGGPGSGKGTQCEKIVETFGFKHLSA   74 (234)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCeEEEc
Confidence            5799999999999999999998876544433

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.21  E-value=0.019  Score=53.67  Aligned_cols=30  Identities=33%  Similarity=0.471  Sum_probs=24.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .+++.|+||+|||++++.+++.++...+.+
T Consensus         4 liil~G~pGSGKSTla~~L~~~~~~~~~l~   33 (300)
T PHA02530          4 IILTVGVPGSGKSTWAREFAAKNPKAVNVN   33 (300)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHCCCCEEEe
Confidence            688899999999999999999885444443

>KOG0732|consensus

Probab=95.21  E-value=0.018  Score=61.69  Aligned_cols=58  Identities=22%  Similarity=0.225  Sum_probs=38.6

Q ss_pred             Ccccccch----HHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         205 CPAIYGLY----LVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       205 ~p~i~G~~----~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      +++|-|.+    .+|..+++-|.-+...   +...+...--+|+.|+||||||.++++++....+
T Consensus       264 fd~vggl~~~i~~LKEmVl~PLlyPE~f---~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~  325 (1080)
T KOG0732|consen  264 FDSVGGLENYINQLKEMVLLPLLYPEFF---DNFNITPPRGVLFHGPPGTGKTLMARALAAACSR  325 (1080)
T ss_pred             ccccccHHHHHHHHHHHHHhHhhhhhHh---hhcccCCCcceeecCCCCCchhHHHHhhhhhhcc
Confidence            56777765    4466666666544221   1122222235999999999999999999988765

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.20  E-value=0.019  Score=48.97  Aligned_cols=30  Identities=27%  Similarity=0.311  Sum_probs=26.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      +++|+|.||+|||++++.+++.++..++-.
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg~~~~d~   33 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALGYRFVDT   33 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEEc
Confidence            789999999999999999999887665543

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.17  E-value=0.062  Score=51.56  Aligned_cols=88  Identities=22%  Similarity=0.196  Sum_probs=48.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC----eEEEcCCccCc--CC-ceEEEEeecCe--eEeeece---eeecCCcEEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR----SVLTTGVGTTT--AG-LTVSALRENGE--WHLEAGA---LVLSDGGVCCID  308 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~~~~~~--~g-lt~~~~~~~~~--~~~~~G~---l~la~~gi~~ID  308 (345)
                      .+|+.|++|+|||++++++....+.    .+.+.......  .+ ......++.+.  ..+ ..+   ....+..++++|
T Consensus       124 ~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~~~~~i~q~evg~~~~~~-~~~l~~~lr~~pd~i~vg  202 (343)
T TIGR01420       124 LILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRNKRSLINQREVGLDTLSF-ANALRAALREDPDVILIG  202 (343)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccCccceEEccccCCCCcCH-HHHHHHhhccCCCEEEEe
Confidence            8999999999999999998876542    23333221110  00 00000111110  000 111   123578999999


Q ss_pred             CCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         309 EFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       309 Eidk~~~~~~~~l~eame~~~i~  331 (345)
                      |+.  +++.....+++.+.|...
T Consensus       203 Eir--d~~~~~~~l~aa~tGh~v  223 (343)
T TIGR01420       203 EMR--DLETVELALTAAETGHLV  223 (343)
T ss_pred             CCC--CHHHHHHHHHHHHcCCcE
Confidence            997  444445556677766543

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.

>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=95.16  E-value=0.065  Score=45.03  Aligned_cols=83  Identities=22%  Similarity=0.361  Sum_probs=50.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcC---Cc--eEEEEeecCeeEeeece--------eeecCCc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTA---GL--TVSALRENGEWHLEAGA--------LVLSDGG  303 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~---gl--t~~~~~~~~~~~~~~G~--------l~la~~g  303 (345)
                      -.+.|+|++|+|||+|++.++.+.+.   .++..+......   .+  .....-     .+-.|.        ....+..
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~~~~G~i~~~~~~~~~~~~~~~~~~i~~~~-----qlS~G~~~r~~l~~~l~~~~~  100 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVP-----QLSGGQRQRVALARALLLNPD  100 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEEcccCCHHHHHhceEEEe-----eCCHHHHHHHHHHHHHhcCCC
Confidence            48899999999999999999987753   233333211100   00  000000     011222        1224578


Q ss_pred             EEEEcCCC-CCCHHhHHHHHHHHhC
Q psy1366         304 VCCIDEFS-SIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       304 i~~IDEid-k~~~~~~~~l~eame~  327 (345)
                      ++++||.. .++...+..+.+++.+
T Consensus       101 i~ilDEp~~~lD~~~~~~l~~~l~~  125 (157)
T cd00267         101 LLLLDEPTSGLDPASRERLLELLRE  125 (157)
T ss_pred             EEEEeCCCcCCCHHHHHHHHHHHHH
Confidence            99999987 4888888888887753

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.

>PRK13946 shikimate kinase; Provisional

Probab=95.14  E-value=0.021  Score=49.62  Aligned_cols=31  Identities=29%  Similarity=0.321  Sum_probs=26.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -+|+|+|.||+|||++++.+++.++..++-+
T Consensus        11 ~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~   41 (184)
T PRK13946         11 RTVVLVGLMGAGKSTVGRRLATMLGLPFLDA   41 (184)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCeECc
Confidence            4899999999999999999999887665543

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=95.14  E-value=0.018  Score=49.45  Aligned_cols=30  Identities=23%  Similarity=0.321  Sum_probs=26.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .+|.|+|.+|+|||++.+.+|+.+...++-
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D   32 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFID   32 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCccc
Confidence            489999999999999999999999876543

>PRK08233 hypothetical protein; Provisional

Probab=95.12  E-value=0.018  Score=49.46  Aligned_cols=26  Identities=12%  Similarity=0.158  Sum_probs=22.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .-|.+.|+||+|||++++.+++.++.
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~l~~   29 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHKLKN   29 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCCC
Confidence            35788999999999999999998863

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=95.11  E-value=0.02  Score=40.59  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=20.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..+|.|+.|+|||+|+.++.-++
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            59999999999999999997665

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=95.08  E-value=0.056  Score=60.43  Aligned_cols=98  Identities=14%  Similarity=0.172  Sum_probs=74.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc--CCccCcCCceEEEEe-ecCeeEeeeceeeec--CCcEEEEcCCCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT--GVGTTTAGLTVSALR-ENGEWHLEAGALVLS--DGGVCCIDEFSSIK  314 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~--~~~~~~~glt~~~~~-~~~~~~~~~G~l~la--~~gi~~IDEidk~~  314 (345)
                      .+|+|.|+-|.|||.|..-+++..+..+...  +..+.+.-|-.+..- ..|+|...+|.|..|  .|-.+++..|||.+
T Consensus       150 ~pI~l~g~~gsgksfLisel~~~~G~~iV~Ihl~e~TDak~LiGtYts~KpG~fEw~~GvL~~avv~G~WILf~~Idkap  229 (4600)
T COG5271         150 VPIYLEGGRGSGKSFLISELCDEGGQRIVEIHLREITDAKVLIGTYTSPKPGDFEWMKGVLIEAVVSGDWILFKRIDKAP  229 (4600)
T ss_pred             cceEEecCccccHHHHHHHHHHHhCceEEEEecccccCchheeeeccCCCCCceeeccchhhhhhhcCcEEEEeecccCc
Confidence            4899999999999999999999888544222  222233223333322 247788889988765  47889999999999


Q ss_pred             HHhHHHHHHHHhCCEEEEeeCCe
Q psy1366         315 EHDRTSIHEAMEQQTISVAKDKE  337 (345)
Q Consensus       315 ~~~~~~l~eame~~~i~i~k~gi  337 (345)
                      .+....|+..+|.+++.|...|-
T Consensus       230 ~~vLs~Ll~llekR~L~ipsrGE  252 (4600)
T COG5271         230 HGVLSYLLTLLEKRRLLIPSRGE  252 (4600)
T ss_pred             hhHHHHHHHHHHhhhhccCCCCc
Confidence            99999999999999999977664

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.04  E-value=0.033  Score=50.25  Aligned_cols=46  Identities=30%  Similarity=0.358  Sum_probs=35.7

Q ss_pred             ccccchHHHHHHHH---HHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         207 AIYGLYLVKLCLAV---VLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       207 ~i~G~~~vk~~i~l---~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +|.|.+..|.++.-   +.+.|-+-           -|+||+|.-|||||+|.|++....
T Consensus        61 ~l~Gvd~qk~~L~~NT~~F~~G~pA-----------NnVLLwGaRGtGKSSLVKA~~~e~  109 (287)
T COG2607          61 DLVGVDRQKEALVRNTEQFAEGLPA-----------NNVLLWGARGTGKSSLVKALLNEY  109 (287)
T ss_pred             HHhCchHHHHHHHHHHHHHHcCCcc-----------cceEEecCCCCChHHHHHHHHHHH
Confidence            47788888888753   45555221           399999999999999999998754

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.01  E-value=0.04  Score=49.90  Aligned_cols=32  Identities=28%  Similarity=0.533  Sum_probs=26.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGV  272 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~  272 (345)
                      =+-++||+|+|||+|++.++.+...   .+...|.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~~p~~G~V~~~g~   65 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLEKPTSGEVLLDGR   65 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCc
Confidence            6899999999999999999988754   3555554

>PRK13948 shikimate kinase; Provisional

Probab=95.01  E-value=0.025  Score=49.26  Aligned_cols=31  Identities=32%  Similarity=0.219  Sum_probs=26.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .+|+|+|.+|+|||++++.+++.++..++-+
T Consensus        11 ~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~   41 (182)
T PRK13948         11 TWVALAGFMGTGKSRIGWELSRALMLHFIDT   41 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHcCCCEEEC
Confidence            4899999999999999999999887765433

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=94.97  E-value=0.031  Score=53.31  Aligned_cols=41  Identities=17%  Similarity=0.167  Sum_probs=37.2

Q ss_pred             eceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEee
Q psy1366         294 AGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAK  334 (345)
Q Consensus       294 ~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k  334 (345)
                      .|.+..|++|++=+=|+-|.+.+....||.+.+++.+.+.+
T Consensus       226 ~G~l~~aNrGi~ef~E~~K~~~~~L~~LL~~tqEg~ik~~~  266 (358)
T PF08298_consen  226 SGELNRANRGIMEFVEMLKAPIEFLHPLLTATQEGNIKVDE  266 (358)
T ss_pred             ccHHHHhhchhHHHHHHhcCcHHHHHHHhcchhcCceecCC
Confidence            68889999999988899999999999999999999998854

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=94.92  E-value=0.069  Score=47.63  Aligned_cols=21  Identities=29%  Similarity=0.376  Sum_probs=19.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      -++|+||.|.|||+++|.++.
T Consensus        31 ~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          31 IMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             EEEEECCCCCChHHHHHHHHH
Confidence            589999999999999999984

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

>PRK08939 primosomal protein DnaI; Reviewed

Probab=94.89  E-value=0.017  Score=54.51  Aligned_cols=25  Identities=36%  Similarity=0.380  Sum_probs=22.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+++|+|+||+|||.|+.+++..+-
T Consensus       157 ~gl~L~G~~G~GKThLa~Aia~~l~  181 (306)
T PRK08939        157 KGLYLYGDFGVGKSYLLAAIANELA  181 (306)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            4899999999999999999998763

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.85  E-value=0.0063  Score=53.93  Aligned_cols=31  Identities=26%  Similarity=0.574  Sum_probs=25.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      -+.++||+|+|||+|+|.+..+-+.   .+++.|
T Consensus        30 vv~iiGpSGSGKSTlLRclN~LE~~~~G~I~i~g   63 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNGLEEPDSGSITVDG   63 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCcCCCCceEEECC
Confidence            7899999999999999999876543   455555

>PLN02459 probable adenylate kinase

Probab=94.84  E-value=0.04  Score=50.66  Aligned_cols=32  Identities=22%  Similarity=0.391  Sum_probs=25.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      ++++|+|+||+||+++++.+++..+-....+|
T Consensus        30 ~~ii~~G~PGsGK~T~a~~la~~~~~~~is~g   61 (261)
T PLN02459         30 VNWVFLGCPGVGKGTYASRLSKLLGVPHIATG   61 (261)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCcEEeCc
Confidence            57999999999999999999998765444333

>TIGR03263 guanyl_kin guanylate kinase

Probab=94.83  E-value=0.021  Score=49.12  Aligned_cols=25  Identities=28%  Similarity=0.512  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -++|+|++|+|||+|++.+++..+.
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~~~   27 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEEDPN   27 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccCcc
Confidence            5889999999999999999997765

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.

>PRK14529 adenylate kinase; Provisional

Probab=94.81  E-value=0.022  Score=51.21  Aligned_cols=27  Identities=22%  Similarity=0.351  Sum_probs=23.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      +|+|+|+||+|||++++.+++.+.-..
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~~~~   28 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYDLAH   28 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCCC
Confidence            689999999999999999999876443

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=94.75  E-value=0.056  Score=59.01  Aligned_cols=84  Identities=23%  Similarity=0.361  Sum_probs=53.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC---CeEEEcCCccC-------cCCceEEEEeecCee--EeeeceeeecCCcEEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP---RSVLTTGVGTT-------TAGLTVSALRENGEW--HLEAGALVLSDGGVCCID  308 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~---~~~~~~~~~~~-------~~glt~~~~~~~~~~--~~~~G~l~la~~gi~~ID  308 (345)
                      -.++.|.+|||||++++.+.+.+.   ..+.....+..       ..|+.+.-+   ..|  ....|.-.+..+.+++||
T Consensus       399 ~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkAA~~L~e~~Gi~a~TI---as~ll~~~~~~~~l~~~~vlVID  475 (1102)
T PRK13826        399 IAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKAAEGLEKEAGIQSRTL---SSWELRWNQGRDQLDNKTVFVLD  475 (1102)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHHHHHHHHhhCCCeeeH---HHHHhhhccCccCCCCCcEEEEE
Confidence            689999999999999999987652   23332221111       123222100   111  112333345557799999


Q ss_pred             CCCCCCHHhHHHHHHHHhC
Q psy1366         309 EFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       309 Eidk~~~~~~~~l~eame~  327 (345)
                      |...++..+...|+..+++
T Consensus       476 EAsMv~~~~m~~Ll~~~~~  494 (1102)
T PRK13826        476 EAGMVASRQMALFVEAVTR  494 (1102)
T ss_pred             CcccCCHHHHHHHHHHHHh
Confidence            9999999999999998874

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=94.74  E-value=0.024  Score=48.05  Aligned_cols=21  Identities=24%  Similarity=0.578  Sum_probs=18.0

Q ss_pred             eeeeCCCCChHHHHHHHHHhh
Q psy1366         242 LLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      |.|+|.||||||+|++.+++.
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999988

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.74  E-value=0.036  Score=45.81  Aligned_cols=25  Identities=32%  Similarity=0.412  Sum_probs=22.2

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      +.|+||+|+|||+|++.+++..+..
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCCcc
Confidence            6789999999999999999987643

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.

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

Probab=94.74  E-value=0.038  Score=53.46  Aligned_cols=24  Identities=29%  Similarity=0.567  Sum_probs=22.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      |++++|+||||||..++++.+.+.
T Consensus        44 n~~iyG~~GTGKT~~~~~v~~~l~   67 (366)
T COG1474          44 NIIIYGPTGTGKTATVKFVMEELE   67 (366)
T ss_pred             cEEEECCCCCCHhHHHHHHHHHHH
Confidence            799999999999999999998664

>PLN02674 adenylate kinase

Probab=94.73  E-value=0.031  Score=50.97  Aligned_cols=28  Identities=29%  Similarity=0.402  Sum_probs=24.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .+|+|+|+||+||+++++.+++.++-..
T Consensus        32 ~~i~l~G~PGsGKgT~a~~La~~~~~~h   59 (244)
T PLN02674         32 KRLILIGPPGSGKGTQSPIIKDEYCLCH   59 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHcCCcE
Confidence            4799999999999999999999876433

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=94.70  E-value=0.044  Score=52.56  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=24.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .|||+.|++|+|||++++++....|.
T Consensus       163 ~nilI~G~tGSGKTTll~aLl~~i~~  188 (344)
T PRK13851        163 LTMLLCGPTGSGKTTMSKTLISAIPP  188 (344)
T ss_pred             CeEEEECCCCccHHHHHHHHHcccCC
Confidence            49999999999999999999998875

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

Probab=94.70  E-value=0.025  Score=51.82  Aligned_cols=24  Identities=21%  Similarity=0.494  Sum_probs=22.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .++|+|++|+|||++++.+++.++
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcC
Confidence            689999999999999999998876

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.

>PRK14527 adenylate kinase; Provisional

Probab=94.69  E-value=0.024  Score=49.43  Aligned_cols=25  Identities=20%  Similarity=0.323  Sum_probs=22.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -++++|+||+|||++++.+++..+.
T Consensus         8 ~i~i~G~pGsGKsT~a~~La~~~~~   32 (191)
T PRK14527          8 VVIFLGPPGAGKGTQAERLAQELGL   32 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            6999999999999999999876654

>PRK00300 gmk guanylate kinase; Provisional

Probab=94.60  E-value=0.028  Score=49.45  Aligned_cols=24  Identities=33%  Similarity=0.558  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+|++|+|||+|++.++...+
T Consensus         7 ~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          7 LIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCc
Confidence            689999999999999999999887

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=94.57  E-value=0.024  Score=44.98  Aligned_cols=21  Identities=24%  Similarity=0.561  Sum_probs=19.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +|+++|.||+|||+|++++..
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~   21 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTG   21 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999986

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 ....

>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=94.57  E-value=0.042  Score=53.08  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=23.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.+.|+|++|+|||.|+-.....+|.
T Consensus        63 ~GlYl~G~vG~GKT~Lmd~f~~~lp~   88 (362)
T PF03969_consen   63 KGLYLWGPVGRGKTMLMDLFYDSLPI   88 (362)
T ss_pred             ceEEEECCCCCchhHHHHHHHHhCCc
Confidence            37999999999999999999998874

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

>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=94.55  E-value=0.039  Score=48.78  Aligned_cols=26  Identities=35%  Similarity=0.491  Sum_probs=22.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+++|+||.|+|||+|++.+.+....
T Consensus        21 ~~~~l~G~rg~GKTsLl~~~~~~~~~   46 (234)
T PF01637_consen   21 QHILLYGPRGSGKTSLLKEFINELKE   46 (234)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCT-
T ss_pred             cEEEEEcCCcCCHHHHHHHHHHHhhh
Confidence            38999999999999999999988743

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

>cd01895 EngA2 EngA2 subfamily

Probab=94.54  E-value=0.21  Score=41.59  Aligned_cols=23  Identities=22%  Similarity=0.430  Sum_probs=20.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+++|+||+|||+|+.++...
T Consensus         3 ~~i~i~G~~~~GKstli~~l~~~   25 (174)
T cd01895           3 IRIAIIGRPNVGKSSLVNALLGE   25 (174)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhCc
Confidence            57999999999999999998653

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>PRK04040 adenylate kinase; Provisional

Probab=94.49  E-value=0.04  Score=48.17  Aligned_cols=24  Identities=29%  Similarity=0.469  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .|+++|.||+|||++++.+++.++
T Consensus         4 ~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          4 VVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHhc
Confidence            689999999999999999998875

>cd04177 RSR1 RSR1 subgroup

Probab=94.48  E-value=0.029  Score=47.43  Aligned_cols=23  Identities=22%  Similarity=0.330  Sum_probs=20.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++++|+|+||+|||+|++++.+-
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~   24 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQN   24 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            58999999999999999998743

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>PRK03846 adenylylsulfate kinase; Provisional

Probab=94.45  E-value=0.022  Score=50.10  Aligned_cols=86  Identities=21%  Similarity=0.293  Sum_probs=49.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC----CeEEEcCCc--cCc---CCceEEEEeecCeeEeeec--eeeecCCcEEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP----RSVLTTGVG--TTT---AGLTVSALRENGEWHLEAG--ALVLSDGGVCCID  308 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~----~~~~~~~~~--~~~---~glt~~~~~~~~~~~~~~G--~l~la~~gi~~ID  308 (345)
                      .-+.|+|.+|+|||+|++.++..+.    ..++..+..  ...   .++..   .+..++...-+  +..+++.|..+|.
T Consensus        25 ~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~~~~~~~~~~~~~~---~~~~~~~~~l~~~a~~~~~~G~~VI~  101 (198)
T PRK03846         25 VVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDNVRHGLCSDLGFSD---ADRKENIRRVGEVAKLMVDAGLVVLT  101 (198)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEeHHhhhhhcCCcCc---ccHHHHHHHHHHHHHHHhhCCCEEEE
Confidence            3789999999999999999998653    134443311  000   11110   11011110000  1123445667777


Q ss_pred             CCCCCCHHhHHHHHHHHhCC
Q psy1366         309 EFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       309 Eidk~~~~~~~~l~eame~~  328 (345)
                      .+..+..+.++.+.+.|.+.
T Consensus       102 ~~~~~~~~~R~~~r~~l~~~  121 (198)
T PRK03846        102 AFISPHRAERQMVRERLGEG  121 (198)
T ss_pred             EeCCCCHHHHHHHHHHcccC
Confidence            77777778888888888654

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=94.43  E-value=0.031  Score=47.86  Aligned_cols=22  Identities=27%  Similarity=0.697  Sum_probs=19.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .|++.|.||+|||++++.++++
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~~l   23 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLREL   23 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHHHh
Confidence            5899999999999999999943

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=94.41  E-value=0.025  Score=55.45  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=21.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +++|+|+||+|||.|++++++.+
T Consensus       138 ~l~l~G~~G~GKThL~~ai~~~l  160 (405)
T TIGR00362       138 PLFIYGGVGLGKTHLLHAIGNEI  160 (405)
T ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Confidence            68999999999999999998765

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).

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=94.40  E-value=0.044  Score=50.23  Aligned_cols=32  Identities=31%  Similarity=0.424  Sum_probs=26.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      -.+-|+||.|+|||+|+|.++.+++.   .++..|
T Consensus        29 ~i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V~l~g   63 (258)
T COG1120          29 EITGILGPNGSGKSTLLKCLAGLLKPKSGEVLLDG   63 (258)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECC
Confidence            37899999999999999999998864   355555

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=94.30  E-value=0.033  Score=47.57  Aligned_cols=23  Identities=17%  Similarity=0.212  Sum_probs=20.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+|+|+|+||+|||+|++.+...
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~   24 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEG   24 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            47999999999999999988753

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=94.30  E-value=0.06  Score=50.84  Aligned_cols=26  Identities=27%  Similarity=0.558  Sum_probs=24.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -++++.|++|+|||++++++....|.
T Consensus       145 ~~ili~G~tGsGKTTll~al~~~~~~  170 (308)
T TIGR02788       145 KNIIISGGTGSGKTTFLKSLVDEIPK  170 (308)
T ss_pred             CEEEEECCCCCCHHHHHHHHHccCCc
Confidence            49999999999999999999988874

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=94.28  E-value=0.028  Score=56.00  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=21.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +++|+|+||+|||.|++++++.+
T Consensus       150 ~l~l~G~~G~GKThL~~ai~~~~  172 (450)
T PRK00149        150 PLFIYGGVGLGKTHLLHAIGNYI  172 (450)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            69999999999999999999875

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=94.28  E-value=0.049  Score=48.03  Aligned_cols=31  Identities=23%  Similarity=0.418  Sum_probs=25.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .-+++.|.||+|||++++.++..++......
T Consensus         4 ~~i~i~G~~G~GKst~a~~l~~~~~~~~~~~   34 (197)
T PRK12339          4 TIHFIGGIPGVGKTSISGYIARHRAIDIVLS   34 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCeEEeh
Confidence            3689999999999999999998876544433

>PRK04182 cytidylate kinase; Provisional

Probab=94.26  E-value=0.047  Score=46.61  Aligned_cols=29  Identities=17%  Similarity=0.385  Sum_probs=25.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .|.|.|.||+|||++++.+++.++..++-
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~~~id   30 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGLKHVS   30 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence            58999999999999999999988765554

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=94.20  E-value=0.033  Score=46.68  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=20.6

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ++++|.||+|||++++.++..+
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999887

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=94.20  E-value=0.055  Score=58.60  Aligned_cols=84  Identities=20%  Similarity=0.259  Sum_probs=49.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC---CeEEEcCCccCc-------CCceEEEEeecCee--EeeeceeeecCCcEEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP---RSVLTTGVGTTT-------AGLTVSALRENGEW--HLEAGALVLSDGGVCCID  308 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~---~~~~~~~~~~~~-------~glt~~~~~~~~~~--~~~~G~l~la~~gi~~ID  308 (345)
                      .+++.|.||||||++++.+.+++.   ..+.....+..+       .|..+.-+   ..|  ....|...+...-+++||
T Consensus       364 v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkAA~~L~e~tGi~a~TI---~sll~~~~~~~~~l~~~~vlIVD  440 (988)
T PRK13889        364 LGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIAAENLEGGSGIASRTI---ASLEHGWGQGRDLLTSRDVLVID  440 (988)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHHHHHHhhccCcchhhH---HHHHhhhcccccccccCcEEEEE
Confidence            467999999999999998776542   233322211111       12111000   011  011233334556799999


Q ss_pred             CCCCCCHHhHHHHHHHHhC
Q psy1366         309 EFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       309 Eidk~~~~~~~~l~eame~  327 (345)
                      |...++..+...|+...+.
T Consensus       441 EASMv~~~~m~~LL~~a~~  459 (988)
T PRK13889        441 EAGMVGTRQLERVLSHAAD  459 (988)
T ss_pred             CcccCCHHHHHHHHHhhhh
Confidence            9999999988888876543

>PRK01184 hypothetical protein; Provisional

Probab=94.20  E-value=0.05  Score=46.99  Aligned_cols=29  Identities=34%  Similarity=0.455  Sum_probs=21.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -|+|+|+||+|||++++. ++..+-.+...
T Consensus         3 ~i~l~G~~GsGKsT~a~~-~~~~g~~~i~~   31 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSKI-AREMGIPVVVM   31 (184)
T ss_pred             EEEEECCCCCCHHHHHHH-HHHcCCcEEEh
Confidence            588999999999999984 45555444433

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=94.18  E-value=0.048  Score=46.25  Aligned_cols=30  Identities=20%  Similarity=0.418  Sum_probs=26.2

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      |-+-|+||+|||++++.+++.++-.++.+|
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vsaG   32 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVSAG   32 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceeecc
Confidence            567899999999999999999988777655

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=94.17  E-value=0.033  Score=55.31  Aligned_cols=23  Identities=26%  Similarity=0.453  Sum_probs=21.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +++|+|+||+|||.|++++++.+
T Consensus       132 ~l~lyG~~G~GKTHLl~ai~~~l  154 (440)
T PRK14088        132 PLFIYGGVGLGKTHLLQSIGNYV  154 (440)
T ss_pred             eEEEEcCCCCcHHHHHHHHHHHH
Confidence            79999999999999999999764

>cd04124 RabL2 RabL2 subfamily

Probab=94.14  E-value=0.037  Score=46.52  Aligned_cols=22  Identities=27%  Similarity=0.499  Sum_probs=19.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++|+++|+||+|||+|++.+..
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~   22 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLM   22 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999987654

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=94.13  E-value=0.039  Score=48.34  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=20.5

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      |.|.|++|+|||+|++.++.++
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999987

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=94.10  E-value=0.039  Score=44.93  Aligned_cols=23  Identities=35%  Similarity=0.562  Sum_probs=20.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++|+++|++|+|||+|+..+...
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~   24 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGN   24 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999988754

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=94.10  E-value=0.049  Score=48.08  Aligned_cols=33  Identities=21%  Similarity=0.307  Sum_probs=24.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC----CCeEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS----PRSVLTTGV  272 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~~  272 (345)
                      .-++++|+||+|||+++..++...    .+.+|++..
T Consensus        13 ~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e   49 (209)
T TIGR02237        13 TITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE   49 (209)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECC
Confidence            379999999999999988776433    245666654

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

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=94.09  E-value=0.063  Score=45.70  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=19.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -++|+|++|+|||+|+.++...
T Consensus        37 ~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   37 TSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            7899999999999999988754

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>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=94.07  E-value=0.039  Score=47.52  Aligned_cols=30  Identities=30%  Similarity=0.310  Sum_probs=21.1

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC----CCeEEEcC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS----PRSVLTTG  271 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~  271 (345)
                      +|+.|+||+|||.|+..++...    .+.+|.+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~   35 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL   35 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence            7899999999999887654322    23455553

A related protein is found in archaea.

>TIGR00235 udk uridine kinase

Probab=94.07  E-value=0.04  Score=48.75  Aligned_cols=25  Identities=16%  Similarity=0.194  Sum_probs=22.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-+.+.|++|+|||+|++.++..++
T Consensus         7 ~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         7 IIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4688999999999999999998876

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd03112 CobW_like The function of this protein family is unkown

Probab=94.06  E-value=0.17  Score=42.78  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=19.2

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ++++|+.|+|||++++.+.+..
T Consensus         3 ~~l~G~~GsGKTtl~~~l~~~~   24 (158)
T cd03112           3 TVLTGFLGAGKTTLLNHILTEQ   24 (158)
T ss_pred             EEEEECCCCCHHHHHHHHHhcc
Confidence            6799999999999999887653

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=94.05  E-value=0.04  Score=46.00  Aligned_cols=23  Identities=30%  Similarity=0.384  Sum_probs=19.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+++|+||+|||+|+.++...
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~   23 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEG   23 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhC
Confidence            36899999999999999988753

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=94.05  E-value=0.056  Score=45.79  Aligned_cols=30  Identities=20%  Similarity=0.449  Sum_probs=25.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -|.+.|+||+|||++++.+++.++-.++..
T Consensus         2 iI~i~G~~GSGKstia~~la~~lg~~~~~~   31 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKLSLKLISA   31 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence            478999999999999999999877655543

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.

>KOG0060|consensus

Probab=94.01  E-value=0.035  Score=55.75  Aligned_cols=28  Identities=29%  Similarity=0.583  Sum_probs=24.9

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      +..-|+|++||+|+|||+|+|.++.+.|
T Consensus       459 ~~g~~LLItG~sG~GKtSLlRvlggLWp  486 (659)
T KOG0060|consen  459 PSGQNLLITGPSGCGKTSLLRVLGGLWP  486 (659)
T ss_pred             cCCCeEEEECCCCCchhHHHHHHhcccc
Confidence            3445999999999999999999999876

>PLN02165 adenylate isopentenyltransferase

Probab=93.94  E-value=0.071  Score=50.68  Aligned_cols=28  Identities=21%  Similarity=0.413  Sum_probs=24.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .+.|+||+|+|||+|+..+++.++..+.
T Consensus        45 iivIiGPTGSGKStLA~~LA~~l~~eII   72 (334)
T PLN02165         45 VVVIMGATGSGKSRLSVDLATRFPSEII   72 (334)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHcCCcee
Confidence            7899999999999999999999876544

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=93.92  E-value=0.025  Score=46.21  Aligned_cols=26  Identities=35%  Similarity=0.543  Sum_probs=23.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -++.++|++|+|||+|++.++...+.
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~~~~   37 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGLLPP   37 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTSSHE
T ss_pred             CEEEEEccCCCccccceeeecccccc
Confidence            38999999999999999999987753

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>KOG1942|consensus

Probab=93.91  E-value=0.056  Score=50.14  Aligned_cols=54  Identities=22%  Similarity=0.274  Sum_probs=37.8

Q ss_pred             ccCcccccchHHHHHH--HHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         203 SICPAIYGLYLVKLCL--AVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       203 s~~p~i~G~~~vk~~i--~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..+-.+.||+.++.|.  +.-++..  |... |      --+||-||||||||.|+-++++.++.
T Consensus        35 ~~~~g~vGQ~~AReAagiivdlik~--Kkma-G------ravLlaGppgtGKTAlAlaisqELG~   90 (456)
T KOG1942|consen   35 EVAAGFVGQENAREAAGIIVDLIKS--KKMA-G------RAVLLAGPPGTGKTALALAISQELGP   90 (456)
T ss_pred             ecccccccchhhhhhhhHHHHHHHh--hhcc-C------cEEEEecCCCCchhHHHHHHHHHhCC
Confidence            4556778998877653  3334322  1111 1      37999999999999999999998865

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=93.88  E-value=0.047  Score=45.25  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=19.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|+||+|||+|++.+..
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~   23 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQ   23 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999988874

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>PF13654 AAA_32: AAA domain; PDB: 3K1J_B

Probab=93.87  E-value=0.017  Score=58.30  Aligned_cols=45  Identities=20%  Similarity=0.277  Sum_probs=0.0

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.++||+.+.+|+.++|--.           +..-||.++|+|||||+++++.+.+
T Consensus         8 ~~~iGQ~RA~~Al~~gl~i~-----------~~GYNIfv~G~~GtGr~t~v~~~l~   52 (509)
T PF13654_consen    8 EGIIGQERAVEALEFGLGIR-----------KPGYNIFVMGPPGTGRRTYVRRFLE   52 (509)
T ss_dssp             --------------------------------------------------------
T ss_pred             cccccccccccccccccccc-----------ccccccccccccccccccccccccc
Confidence            57899999999999888532           1114999999999999998776654

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=93.87  E-value=0.095  Score=46.02  Aligned_cols=25  Identities=20%  Similarity=0.482  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.+.||+|+|||+|+..++-+.+.
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AGf~~P   57 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAGFVTP   57 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhcCcCc
Confidence            7899999999999999999987653

>PRK06547 hypothetical protein; Provisional

Probab=93.87  E-value=0.058  Score=46.47  Aligned_cols=28  Identities=18%  Similarity=0.271  Sum_probs=23.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      ..|++.|++|+|||++++.+++..+..+
T Consensus        16 ~~i~i~G~~GsGKTt~a~~l~~~~~~~~   43 (172)
T PRK06547         16 ITVLIDGRSGSGKTTLAGALAARTGFQL   43 (172)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            4788889999999999999998765433

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=93.86  E-value=0.042  Score=52.33  Aligned_cols=31  Identities=29%  Similarity=0.618  Sum_probs=25.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      -+.|+||+|+|||++||.+|-+-..   .++..|
T Consensus        31 f~vllGPSGcGKSTlLr~IAGLe~~~~G~I~i~g   64 (338)
T COG3839          31 FVVLLGPSGCGKSTLLRMIAGLEEPTSGEILIDG   64 (338)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCceEEECC
Confidence            6899999999999999999987653   344444

>cd04136 Rap_like Rap-like subfamily

Probab=93.85  E-value=0.048  Score=45.47  Aligned_cols=22  Identities=23%  Similarity=0.376  Sum_probs=19.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..++++|+||+|||+|+..+..
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~   23 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQ   23 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4799999999999999887764

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>smart00175 RAB Rab subfamily of small GTPases

Probab=93.85  E-value=0.045  Score=45.61  Aligned_cols=22  Identities=36%  Similarity=0.629  Sum_probs=19.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .|+++|+||+|||+|++.+...
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~   23 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6899999999999999998643

Rab GTPases are implicated in vesicle trafficking.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=93.84  E-value=0.047  Score=45.84  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=20.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +|+++|++|+|||+|+..+....
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~   23 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLF   23 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhc
Confidence            58999999999999999987643

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>cd00157 Rho Rho (Ras homology) family

Probab=93.81  E-value=0.047  Score=45.91  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.++++|++|+|||+|++.+...
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~   23 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTG   23 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhC
Confidence            36899999999999999988754

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>PRK05480 uridine/cytidine kinase; Provisional

Probab=93.80  E-value=0.051  Score=48.06  Aligned_cols=25  Identities=16%  Similarity=0.206  Sum_probs=23.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..|.|.|++|+|||+|++.+++.++
T Consensus         7 ~iI~I~G~sGsGKTTl~~~l~~~l~   31 (209)
T PRK05480          7 IIIGIAGGSGSGKTTVASTIYEELG   31 (209)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999999873

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=93.80  E-value=0.044  Score=45.65  Aligned_cols=22  Identities=36%  Similarity=0.469  Sum_probs=19.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +|+++|++|+|||+|++.+..-
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~   22 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHA   22 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcC
Confidence            5899999999999999988653

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>cd04155 Arl3 Arl3 subfamily

Probab=93.80  E-value=0.043  Score=46.41  Aligned_cols=24  Identities=33%  Similarity=0.486  Sum_probs=21.5

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...++++|++|+|||+|++.+...
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            368999999999999999999864

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=93.79  E-value=0.041  Score=50.16  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=20.9

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      |+|+|.||+|||++++.+++.+.
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~   24 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLS   24 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            68999999999999999998763

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.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=93.78  E-value=0.038  Score=48.73  Aligned_cols=25  Identities=28%  Similarity=0.469  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      =|+|.|.||+|||++++-+++++..
T Consensus         3 LiIlTGyPgsGKTtfakeLak~L~~   27 (261)
T COG4088           3 LIILTGYPGSGKTTFAKELAKELRQ   27 (261)
T ss_pred             eEEEecCCCCCchHHHHHHHHHHHH
Confidence            3789999999999999999998754

>PRK05541 adenylylsulfate kinase; Provisional

Probab=93.76  E-value=0.044  Score=47.03  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=22.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..|+|.|.||+|||++++.+++.+.
T Consensus         8 ~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          8 YVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4899999999999999999988764

>cd01862 Rab7 Rab7 subfamily

Probab=93.75  E-value=0.046  Score=46.00  Aligned_cols=22  Identities=23%  Similarity=0.582  Sum_probs=19.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +|+++|+||+|||+|++.+...
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            7999999999999999888643

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>cd04113 Rab4 Rab4 subfamily

Probab=93.74  E-value=0.049  Score=45.46  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=19.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +++++|+||+|||+|++.+...
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~   23 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVEN   23 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6899999999999999998643

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=93.74  E-value=0.095  Score=49.31  Aligned_cols=24  Identities=25%  Similarity=0.446  Sum_probs=22.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ++|+.|++|+|||++++++....+
T Consensus       134 ~ilI~G~tGSGKTTll~al~~~i~  157 (299)
T TIGR02782       134 NILVVGGTGSGKTTLANALLAEIA  157 (299)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhh
Confidence            899999999999999999998864

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.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=93.73  E-value=0.33  Score=45.62  Aligned_cols=85  Identities=9%  Similarity=0.064  Sum_probs=49.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEE------------eec-CeeEeeeceeeecCCcEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSAL------------REN-GEWHLEAGALVLSDGGVCC  306 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~------------~~~-~~~~~~~G~l~la~~gi~~  306 (345)
                      +-.||+|+.|.||+++++.+++.+--.--....... ........            ++- ......|  +..++.-|++
T Consensus        19 haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~-~p~n~~~~d~~g~~i~vd~Ir~l~~~~~~~~--~~~~~~KvvI   95 (299)
T PRK07132         19 HSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQE-LPANIILFDIFDKDLSKSEFLSAINKLYFSS--FVQSQKKILI   95 (299)
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCC-CCcceEEeccCCCcCCHHHHHHHHHHhccCC--cccCCceEEE
Confidence            356699999999999999998875100000000000 00000000            000 0111111  1113678999


Q ss_pred             EcCCCCCCHHhHHHHHHHHhC
Q psy1366         307 IDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       307 IDEidk~~~~~~~~l~eame~  327 (345)
                      ||+.++|+...+++|+..||+
T Consensus        96 I~~~e~m~~~a~NaLLK~LEE  116 (299)
T PRK07132         96 IKNIEKTSNSLLNALLKTIEE  116 (299)
T ss_pred             EecccccCHHHHHHHHHHhhC
Confidence            999999999999999999997

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=93.69  E-value=0.053  Score=45.81  Aligned_cols=23  Identities=43%  Similarity=0.535  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+++|+||+|||+|+.++...
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~   26 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSED   26 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            58999999999999999988754

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=93.68  E-value=0.11  Score=50.38  Aligned_cols=89  Identities=15%  Similarity=0.116  Sum_probs=48.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC-----CeEEEcCCccCc--CC---ceEEEEeecC----eeEeeeceeeecCCcEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP-----RSVLTTGVGTTT--AG---LTVSALRENG----EWHLEAGALVLSDGGVCC  306 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~-----~~~~~~~~~~~~--~g---lt~~~~~~~~----~~~~~~G~l~la~~gi~~  306 (345)
                      .+|+.|++|+|||++++++.+..+     ..+.+.......  .+   +.....++-+    .|..---.....+.-+++
T Consensus       151 lilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~~~~~~~~~~q~evg~~~~~~~~~l~~aLR~~PD~I~  230 (372)
T TIGR02525       151 LGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILGSPDDLLPPAQSQIGRDVDSFANGIRLALRRAPKIIG  230 (372)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccCCCceeecccccccCCCccCHHHHHHHhhccCCCEEe
Confidence            799999999999999999977652     223332211000  00   0000001101    110000112345788999


Q ss_pred             EcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         307 IDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       307 IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                      ++|+...  +.-.+.++|++.|...
T Consensus       231 vGEiRd~--et~~~al~aa~TGH~v  253 (372)
T TIGR02525       231 VGEIRDL--ETFQAAVLAGQSGHFC  253 (372)
T ss_pred             eCCCCCH--HHHHHHHHHHhcCCcE
Confidence            9999854  4445667888877553

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).

>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria

Probab=93.67  E-value=0.19  Score=32.57  Aligned_cols=32  Identities=31%  Similarity=0.782  Sum_probs=24.3

Q ss_pred             EEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCC
Q psy1366          42 EYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTN   80 (345)
Q Consensus        42 ~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~   80 (345)
                      .|+|..||+.|.+-..+.   . ..+..||   .|++..
T Consensus         5 ey~C~~Cg~~fe~~~~~~---~-~~~~~CP---~Cg~~~   36 (42)
T PF09723_consen    5 EYRCEECGHEFEVLQSIS---E-DDPVPCP---ECGSTE   36 (42)
T ss_pred             EEEeCCCCCEEEEEEEcC---C-CCCCcCC---CCCCCc
Confidence            699999999988765432   2 5678897   699854

The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

>PRK13808 adenylate kinase; Provisional

Probab=93.65  E-value=0.065  Score=51.03  Aligned_cols=29  Identities=28%  Similarity=0.391  Sum_probs=24.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +|+|+|+||+|||++++.+++.+....+.
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~ygl~~is   30 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQYGIVQLS   30 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            68999999999999999999987654443

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=93.65  E-value=0.058  Score=46.61  Aligned_cols=25  Identities=28%  Similarity=0.321  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.++|++|+|||++++.++.+...
T Consensus         5 ~i~l~G~sGsGKSTl~~~la~~l~~   29 (176)
T PRK09825          5 SYILMGVSGSGKSLIGSKIAALFSA   29 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCC
Confidence            6899999999999999999998764

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=93.65  E-value=0.13  Score=48.51  Aligned_cols=30  Identities=20%  Similarity=0.282  Sum_probs=26.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .+|.|+|.||+|||++++.+++.+...++-
T Consensus       134 ~~I~l~G~~GsGKStvg~~La~~Lg~~~id  163 (309)
T PRK08154        134 RRIALIGLRGAGKSTLGRMLAARLGVPFVE  163 (309)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHcCCCEEe
Confidence            589999999999999999999988776653

>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=93.65  E-value=0.043  Score=45.86  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=19.8

Q ss_pred             eeCCCCChHHHHHHHHHhhCCC
Q psy1366         244 LVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       244 l~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ++|+||+||+++++.+++..+-
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~   22 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGL   22 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTS
T ss_pred             CcCCCCCChHHHHHHHHHhcCc
Confidence            6899999999999999998754

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 ....

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=93.63  E-value=0.052  Score=45.41  Aligned_cols=22  Identities=27%  Similarity=0.542  Sum_probs=19.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++++++|++|+|||+|+.++..
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~   22 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHS   22 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3799999999999999998864

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>cd00154 Rab Rab family

Probab=93.61  E-value=0.055  Score=44.34  Aligned_cols=23  Identities=30%  Similarity=0.521  Sum_probs=20.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +|+++|+||+|||+|+..+...-
T Consensus         2 ~i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           2 KIVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCc
Confidence            68999999999999999886543

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms

Probab=93.59  E-value=0.43  Score=41.26  Aligned_cols=23  Identities=30%  Similarity=0.336  Sum_probs=20.0

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+++|+.|.|||.++.++.-.+.
T Consensus        25 ~~i~G~NGsGKSnil~Ai~~~~~   47 (178)
T cd03239          25 NAIVGPNGSGKSNIVDAICFVLG   47 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            56999999999999999976654

SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair, and epigenetic silencing of gene expression.

>cd04157 Arl6 Arl6 subfamily

Probab=93.56  E-value=0.048  Score=45.41  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=19.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +|+++|++|+|||+|++.+...
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~   22 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPE   22 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHccc
Confidence            5899999999999999988764

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=93.55  E-value=0.14  Score=46.09  Aligned_cols=24  Identities=29%  Similarity=0.584  Sum_probs=21.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+-++||+|+|||+|+..+..+..
T Consensus        33 ~vaI~GpSGSGKSTLLniig~ld~   56 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGLDK   56 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccC
Confidence            689999999999999999876643

>KOG0736|consensus

Probab=93.55  E-value=0.22  Score=51.87  Aligned_cols=107  Identities=18%  Similarity=0.198  Sum_probs=61.9

Q ss_pred             HHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc---CcCCceEEEEee--cCeeEe
Q psy1366         218 LAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT---TTAGLTVSALRE--NGEWHL  292 (345)
Q Consensus       218 i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~---~~~glt~~~~~~--~~~~~~  292 (345)
                      .+.+.+..  +....+..+..+..+||.|+||+|||++.+++++.+...++.....+   ..++.+-+....  ...-..
T Consensus       412 ~l~~vl~p--~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~  489 (953)
T KOG0736|consen  412 ELVAVLSP--QKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRC  489 (953)
T ss_pred             HHHHHhCc--ccCcchhccccceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhc
Confidence            44444433  23334444456678999999999999999999999999887664321   111111110000  000112


Q ss_pred             eeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHh
Q psy1366         293 EAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAME  326 (345)
Q Consensus       293 ~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame  326 (345)
                      .|-.+.+.|--++-||-..-.+-..+..++..|+
T Consensus       490 ~pavifl~~~dvl~id~dgged~rl~~~i~~~ls  523 (953)
T KOG0736|consen  490 SPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLS  523 (953)
T ss_pred             CceEEEEeccceeeecCCCchhHHHHHHHHHHHh
Confidence            3445566666666677666444444566666665

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=93.55  E-value=0.13  Score=49.54  Aligned_cols=77  Identities=21%  Similarity=0.290  Sum_probs=49.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhH-H
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDR-T  319 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~-~  319 (345)
                      =++++|||.||||.++-.+.+.+...+..- .++.+            .|-+.    .|++..|.+||+...--=+.. .
T Consensus       264 Clvi~GPPdTGKS~F~~SLi~Fl~GkViSf-~Ns~S------------hFWLq----PL~d~Ki~llDDAT~~cW~Y~D~  326 (432)
T PF00519_consen  264 CLVIYGPPDTGKSMFCMSLIKFLKGKVISF-VNSKS------------HFWLQ----PLADAKIALLDDATYPCWDYIDT  326 (432)
T ss_dssp             EEEEESSCCCSHHHHHHHHHHHHTSEEE-G-GGTTS------------CGGGG----GGCT-SSEEEEEE-HHHHHHHHH
T ss_pred             EEEEECCCCCchhHHHHHHHHHhCCEEEEe-cCCCC------------ccccc----chhcCcEEEEcCCcccHHHHHHH
Confidence            689999999999999999988876555321 11111            12122    466778889998765322221 3


Q ss_pred             HHHHHHhCCEEEEee
Q psy1366         320 SIHEAMEQQTISVAK  334 (345)
Q Consensus       320 ~l~eame~~~i~i~k  334 (345)
                      .|..+|+.-.|+|..
T Consensus       327 ylRNaLDGN~vsiD~  341 (432)
T PF00519_consen  327 YLRNALDGNPVSIDC  341 (432)
T ss_dssp             HTHHHHCTSEEEEEE
T ss_pred             HHHhccCCCeeeeec
Confidence            467888888888854

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>cd01892 Miro2 Miro2 subfamily

Probab=93.54  E-value=0.058  Score=45.89  Aligned_cols=25  Identities=28%  Similarity=0.394  Sum_probs=21.4

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      |.-+.++++|++|+|||+|++.+..
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~   26 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLG   26 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhC
Confidence            3447899999999999999988864

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=93.51  E-value=0.086  Score=45.33  Aligned_cols=26  Identities=23%  Similarity=0.255  Sum_probs=23.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      .+|++|+||+|||+++..++..++..
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~~   28 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGLQ   28 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCCC
Confidence            58999999999999999999876643

>PRK10536 hypothetical protein; Provisional

Probab=93.50  E-value=0.11  Score=47.61  Aligned_cols=31  Identities=10%  Similarity=0.188  Sum_probs=25.8

Q ss_pred             CCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         301 DGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       301 ~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                      ++++++|||.+.++......++..|-+++--
T Consensus       176 ~~~~vIvDEaqn~~~~~~k~~ltR~g~~sk~  206 (262)
T PRK10536        176 ENAVVILDEAQNVTAAQMKMFLTRLGENVTV  206 (262)
T ss_pred             cCCEEEEechhcCCHHHHHHHHhhcCCCCEE
Confidence            4689999999999999888898888665433

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=93.48  E-value=0.059  Score=45.06  Aligned_cols=21  Identities=29%  Similarity=0.452  Sum_probs=18.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      -|+++|+||+|||+|++++..
T Consensus         2 ki~v~G~~~~GKTsli~~~~~   22 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQ   22 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            488999999999999998875

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.47  E-value=0.053  Score=46.46  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=21.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+|.||+|||++++.++..+.
T Consensus         6 ~i~~~G~~GsGKST~a~~la~~l~   29 (175)
T PRK00889          6 TVWFTGLSGAGKTTIARALAEKLR   29 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998763

>cd04117 Rab15 Rab15 subfamily

Probab=93.46  E-value=0.056  Score=45.49  Aligned_cols=20  Identities=45%  Similarity=0.682  Sum_probs=17.8

Q ss_pred             ceeeeCCCCChHHHHHHHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~  260 (345)
                      +++++|++|+|||+|+..+.
T Consensus         2 ki~vvG~~~~GKTsli~~~~   21 (161)
T cd04117           2 RLLLIGDSGVGKTCLLCRFT   21 (161)
T ss_pred             EEEEECcCCCCHHHHHHHHh
Confidence            68999999999999996664

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>PRK14737 gmk guanylate kinase; Provisional

Probab=93.43  E-value=0.074  Score=46.44  Aligned_cols=26  Identities=23%  Similarity=0.363  Sum_probs=22.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .-+.|+||+|+|||+|++.+.+..|.
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~~~~   30 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEEHPD   30 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcCCc
Confidence            36899999999999999999887764

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=93.42  E-value=0.09  Score=45.96  Aligned_cols=24  Identities=25%  Similarity=0.504  Sum_probs=21.4

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      |.+.|.||+|||++++.+++.++.
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~~~   25 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRILPN   25 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCC
Confidence            568899999999999999998754

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=93.41  E-value=0.27  Score=48.56  Aligned_cols=24  Identities=21%  Similarity=0.447  Sum_probs=21.2

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..+.+.++|.||+|||+|+.++..
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~  195 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLG  195 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhC
Confidence            348999999999999999998864

>TIGR00017 cmk cytidylate kinase

Probab=93.41  E-value=0.088  Score=47.16  Aligned_cols=32  Identities=25%  Similarity=0.329  Sum_probs=26.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      ..|.+.|++|+|||++++.+++.++-.++.+|
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~~~~~~~~g   34 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKLGYAYLDSG   34 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceeeCc
Confidence            36889999999999999999988776555554

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.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=93.39  E-value=0.055  Score=50.42  Aligned_cols=24  Identities=21%  Similarity=0.461  Sum_probs=21.9

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +++||++|++|+|||++++.+...
T Consensus         4 ~fnImVvG~sG~GKTTFIntL~~~   27 (281)
T PF00735_consen    4 NFNIMVVGESGLGKTTFINTLFNS   27 (281)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhc
Confidence            479999999999999999999864

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=93.39  E-value=0.058  Score=47.91  Aligned_cols=26  Identities=27%  Similarity=0.514  Sum_probs=23.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.+.|+|++|+|||+|++.++.+.+.
T Consensus        31 ~~~~l~G~nGsGKSTLl~~i~Gl~~~   56 (218)
T cd03255          31 EFVAIVGPSGSGKSTLLNILGGLDRP   56 (218)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCcCC
Confidence            37999999999999999999988753

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd04159 Arl10_like Arl10-like subfamily

Probab=93.36  E-value=0.053  Score=44.52  Aligned_cols=21  Identities=24%  Similarity=0.385  Sum_probs=19.1

Q ss_pred             eeeeCCCCChHHHHHHHHHhh
Q psy1366         242 LLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      |.|+|++|+|||+|++.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            789999999999999999764

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=93.36  E-value=0.065  Score=47.40  Aligned_cols=24  Identities=25%  Similarity=0.596  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||+|++.++.+.+
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~~   50 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLTP   50 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCCC
Confidence            789999999999999999998765

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=93.34  E-value=0.061  Score=42.56  Aligned_cols=21  Identities=33%  Similarity=0.495  Sum_probs=19.0

Q ss_pred             eceeeeCCCCChHHHHHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      --+.|+|++|+|||+|++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            368999999999999999975

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK13695 putative NTPase; Provisional

Probab=93.33  E-value=0.065  Score=45.93  Aligned_cols=23  Identities=22%  Similarity=0.468  Sum_probs=20.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +++|+|+||+|||+|++.++..+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l   24 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL   24 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999976543

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=93.32  E-value=0.25  Score=46.89  Aligned_cols=24  Identities=25%  Similarity=0.297  Sum_probs=21.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      --++|+|++|+|||+++..++..+
T Consensus       115 ~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        115 FVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHH
Confidence            478899999999999999888765

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=93.32  E-value=0.33  Score=43.64  Aligned_cols=21  Identities=19%  Similarity=0.240  Sum_probs=19.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      -++|.|++|.|||++++.++.
T Consensus        33 ~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          33 CQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999986

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

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=93.32  E-value=0.11  Score=43.26  Aligned_cols=24  Identities=17%  Similarity=0.267  Sum_probs=21.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -|+++|+.++|||+|++.+.+.+.
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l~   25 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINELK   25 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            378999999999999999987763

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=93.31  E-value=0.44  Score=41.58  Aligned_cols=21  Identities=38%  Similarity=0.476  Sum_probs=19.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +|+|+|.||+|||+++..+..
T Consensus         2 ~i~lvG~~g~GKSsl~N~ilg   22 (196)
T cd01852           2 RLVLVGKTGAGKSATGNTILG   22 (196)
T ss_pred             EEEEECCCCCCHHHHHHHhhC
Confidence            799999999999999999874

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>cd00876 Ras Ras family

Probab=93.31  E-value=0.065  Score=44.29  Aligned_cols=22  Identities=27%  Similarity=0.369  Sum_probs=19.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .|+++|++|+|||+|+..+...
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhC
Confidence            4799999999999999988643

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=93.30  E-value=0.14  Score=48.28  Aligned_cols=27  Identities=15%  Similarity=0.278  Sum_probs=23.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      -++++||+|+|||.|+..+++.++..+
T Consensus         6 ~i~i~GptgsGKt~la~~la~~~~~~i   32 (307)
T PRK00091          6 VIVIVGPTASGKTALAIELAKRLNGEI   32 (307)
T ss_pred             EEEEECCCCcCHHHHHHHHHHhCCCcE
Confidence            689999999999999999999876543

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=93.30  E-value=0.12  Score=49.11  Aligned_cols=24  Identities=17%  Similarity=0.353  Sum_probs=22.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .|+|+.|++|+|||++++++....
T Consensus       145 ~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        145 LNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            389999999999999999998876

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=93.27  E-value=0.19  Score=43.62  Aligned_cols=20  Identities=25%  Similarity=0.333  Sum_probs=18.3

Q ss_pred             eeeeCCCCChHHHHHHHHHh
Q psy1366         242 LLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++|+|+.|.|||+++|.++-
T Consensus         2 ~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            67999999999999999983

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=93.27  E-value=0.064  Score=47.46  Aligned_cols=25  Identities=24%  Similarity=0.549  Sum_probs=22.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -.+.|+|++|+|||+|++.++.+.+
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~~~   51 (213)
T cd03301          27 EFVVLLGPSGCGKTTTLRMIAGLEE   51 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3799999999999999999998875

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=93.24  E-value=0.065  Score=47.35  Aligned_cols=24  Identities=21%  Similarity=0.357  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||+|++.++.+.+
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~~   51 (210)
T cd03269          28 IFGLLGPNGAGKTTTIRMILGIIL   51 (210)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            789999999999999999998765

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01394 radB RadB

Probab=93.23  E-value=0.11  Score=46.21  Aligned_cols=31  Identities=23%  Similarity=0.261  Sum_probs=23.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC----CCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS----PRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~  271 (345)
                      -+++.|+||+|||+++..++...    .+.+|.+.
T Consensus        21 i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~   55 (218)
T cd01394          21 VTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDT   55 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence            68999999999999988877543    23456654

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=93.22  E-value=0.093  Score=47.09  Aligned_cols=22  Identities=18%  Similarity=0.279  Sum_probs=19.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -+.|+|+||+|||+|+..++..
T Consensus        21 i~~i~G~~GsGKT~l~~~l~~~   42 (235)
T cd01123          21 ITEIFGEFGSGKTQLCHQLAVT   42 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6799999999999999988743

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 .

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=93.22  E-value=0.1  Score=47.21  Aligned_cols=32  Identities=28%  Similarity=0.284  Sum_probs=22.5

Q ss_pred             eceeeeCCCCChHHHHHHHHH-hhCC---CeEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK-RMSP---RSVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~-~~~~---~~~~~~~  271 (345)
                      ..+|+.|+||+|||.|+..++ +.+.   +.+|++.
T Consensus        22 s~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~   57 (237)
T TIGR03877        22 NVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVAL   57 (237)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEe
Confidence            489999999999999876543 3222   3556553

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.

>cd01868 Rab11_like Rab11-like

Probab=93.22  E-value=0.067  Score=44.85  Aligned_cols=22  Identities=41%  Similarity=0.711  Sum_probs=20.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+++++|+||+|||+|++.+..
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~   25 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTR   25 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999864

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=93.20  E-value=0.33  Score=47.78  Aligned_cols=88  Identities=22%  Similarity=0.316  Sum_probs=49.0

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC-ccCcCCceEEEEeecCeeE--eeec-------------------
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV-GTTTAGLTVSALRENGEWH--LEAG-------------------  295 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~-~~~~~glt~~~~~~~~~~~--~~~G-------------------  295 (345)
                      ..+.+.++|.||+|||+|+.++...- +. .+... +++..-.......++..+.  -.||                   
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~-~~-~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~  248 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEE-RV-IVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRT  248 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCC-ee-ecCCCCCceECcEeEEEEECCcEEEEEECCCccccccchhhHHHHHHHHH
Confidence            34789999999999999999886431 11 11111 1111111111111111222  1244                   


Q ss_pred             --eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         296 --ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       296 --~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        ++..||.-++++|--+.+...+...+..+.+.
T Consensus       249 ~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~  282 (429)
T TIGR03594       249 LKAIERADVVLLVLDATEGITEQDLRIAGLILEA  282 (429)
T ss_pred             HHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHc
Confidence              23457788899998888887766655555554

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>PRK14738 gmk guanylate kinase; Provisional

Probab=93.18  E-value=0.08  Score=46.89  Aligned_cols=24  Identities=21%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -++|+||+|+|||+|++.+.+..+
T Consensus        15 ~ivi~GpsG~GK~tl~~~L~~~~~   38 (206)
T PRK14738         15 LVVISGPSGVGKDAVLARMRERKL   38 (206)
T ss_pred             EEEEECcCCCCHHHHHHHHHhcCC
Confidence            688899999999999999987654

>cd01860 Rab5_related Rab5-related subfamily

Probab=93.17  E-value=0.07  Score=44.51  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=20.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.++++|++|+|||+|++++...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKN   24 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            57999999999999999988754

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=93.16  E-value=0.07  Score=47.93  Aligned_cols=26  Identities=19%  Similarity=0.450  Sum_probs=23.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.+.|+|++|+|||+|++.++.+.+.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G~~~~   57 (233)
T cd03258          32 EIFGIIGRSGAGKSTLIRCINGLERP   57 (233)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            48999999999999999999998763

Other members of this system include the MetP permease and the MetQ substrate binding protein. 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.

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=93.14  E-value=0.075  Score=44.31  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=20.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++++++|+||+|||+|+..+...
T Consensus         3 ~ki~i~G~~~~GKtsl~~~~~~~   25 (164)
T cd04145           3 YKLVVVGGGGVGKSALTIQFIQS   25 (164)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhC
Confidence            58999999999999999877643

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=93.13  E-value=0.063  Score=48.04  Aligned_cols=32  Identities=22%  Similarity=0.310  Sum_probs=21.9

Q ss_pred             eceeeeCCCCChHHHHHHHHH-hh----CCCeEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK-RM----SPRSVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~-~~----~~~~~~~~~  271 (345)
                      .-+|+.|+||+|||.|+..++ +.    -.+.+|++-
T Consensus        20 s~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~   56 (226)
T PF06745_consen   20 SVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF   56 (226)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe
Confidence            489999999999999876543 22    234556553

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 ....

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=93.12  E-value=0.12  Score=46.26  Aligned_cols=33  Identities=18%  Similarity=0.262  Sum_probs=24.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC----CCeEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS----PRSVLTTGV  272 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~~  272 (345)
                      .-+++.|+||+|||+++..++...    .+.+|++..
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            378999999999999988887522    345566544

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=93.11  E-value=0.068  Score=44.54  Aligned_cols=23  Identities=22%  Similarity=0.530  Sum_probs=20.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .++|+|+.|+|||+|++++...-
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCC
Confidence            58999999999999999998643

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=93.10  E-value=0.35  Score=45.04  Aligned_cols=24  Identities=29%  Similarity=0.338  Sum_probs=20.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -.++|+|++|+|||+++..++..+
T Consensus       195 ~vi~~vGptGvGKTTt~~kLa~~~  218 (282)
T TIGR03499       195 GVIALVGPTGVGKTTTLAKLAARF  218 (282)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            378899999999999888887654

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=93.09  E-value=0.65  Score=41.93  Aligned_cols=23  Identities=35%  Similarity=0.478  Sum_probs=20.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .+.|+|+||+|||+|++++....
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~   24 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTK   24 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            47899999999999999998654

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=93.09  E-value=0.18  Score=47.54  Aligned_cols=23  Identities=22%  Similarity=0.263  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .-++++|+||+|||+|+-.++..
T Consensus        96 ~i~ei~G~~g~GKT~l~~~~~~~  118 (310)
T TIGR02236        96 AITEVFGEFGSGKTQICHQLAVN  118 (310)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999998888654

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=93.08  E-value=0.07  Score=44.47  Aligned_cols=21  Identities=24%  Similarity=0.517  Sum_probs=19.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|+++|++|+|||+|+..+..
T Consensus         2 kv~~vG~~~~GKTsl~~~~~~   22 (162)
T cd04106           2 KVIVVGNGNVGKSSMIQRFVK   22 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            689999999999999998875

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=93.06  E-value=0.066  Score=51.31  Aligned_cols=24  Identities=25%  Similarity=0.560  Sum_probs=21.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      =+-|+||+|+|||+++|.+|-+-.
T Consensus        33 f~~lLGPSGcGKTTlLR~IAGfe~   56 (352)
T COG3842          33 FVTLLGPSGCGKTTLLRMIAGFEQ   56 (352)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            466999999999999999998664

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=93.05  E-value=0.073  Score=46.78  Aligned_cols=26  Identities=23%  Similarity=0.474  Sum_probs=23.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.+.|+|++|+|||+|++.++.+.+.
T Consensus        25 e~~~i~G~nGsGKSTLl~~l~G~~~~   50 (206)
T TIGR03608        25 KMYAIIGESGSGKSTLLNIIGLLEKF   50 (206)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            37999999999999999999988753

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=93.02  E-value=0.071  Score=47.34  Aligned_cols=25  Identities=24%  Similarity=0.347  Sum_probs=22.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.++.+.+.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~~~   57 (218)
T cd03266          33 VTGLLGPNGAGKTTTLRMLAGLLEP   57 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcCC
Confidence            7999999999999999999988753

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>PRK08356 hypothetical protein; Provisional

Probab=93.01  E-value=0.12  Score=45.35  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=19.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .-++|.|+||+|||++++++.+
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~~   27 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFEE   27 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3588999999999999999975

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=93.00  E-value=0.075  Score=44.19  Aligned_cols=22  Identities=27%  Similarity=0.335  Sum_probs=19.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .|.++|+||+|||+|++.+...
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~   23 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYD   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            6899999999999999988743

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=92.98  E-value=0.15  Score=48.51  Aligned_cols=23  Identities=22%  Similarity=0.541  Sum_probs=21.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -++++.|++|+|||++++++...
T Consensus       149 ~~ilI~G~tGSGKTTll~aL~~~  171 (319)
T PRK13894        149 RNILVIGGTGSGKTTLVNAIINE  171 (319)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHh
Confidence            39999999999999999999875

>KOG0741|consensus

Probab=92.97  E-value=0.042  Score=54.70  Aligned_cols=69  Identities=22%  Similarity=0.221  Sum_probs=41.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSS  312 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk  312 (345)
                      ..+||.||||+|||.||-.+|.-+.-++.-.-.+.+..|++-++.-.  .+.| ..|   ..+.-.++.+|++++
T Consensus       539 vSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F-~DA---YkS~lsiivvDdiEr  609 (744)
T KOG0741|consen  539 VSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIF-EDA---YKSPLSIIVVDDIER  609 (744)
T ss_pred             eEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHH-HHh---hcCcceEEEEcchhh
Confidence            58999999999999999999987765543333333344554332100  0000 001   122345899999986

>cd01898 Obg Obg subfamily

Probab=92.97  E-value=0.074  Score=44.69  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +|.++|+||+|||+|++.+...
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~   23 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNA   23 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcC
Confidence            7899999999999999999753

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>cd01866 Rab2 Rab2 subfamily

Probab=92.97  E-value=0.078  Score=44.85  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++++|+||+|||+|+..+...
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~   27 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDK   27 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            58999999999999999998753

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=92.95  E-value=0.076  Score=46.94  Aligned_cols=26  Identities=23%  Similarity=0.540  Sum_probs=23.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.+.|+|++|+|||+|++.++.+.+.
T Consensus        27 ~~~~l~G~nGsGKSTLl~~l~G~~~~   52 (213)
T cd03262          27 EVVVIIGPSGSGKSTLLRCINLLEEP   52 (213)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            37999999999999999999988753

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=92.94  E-value=0.084  Score=45.42  Aligned_cols=88  Identities=18%  Similarity=0.322  Sum_probs=51.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCc--C--CceEEEEeecCee-----------Eeeece-----
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTT--A--GLTVSALRENGEW-----------HLEAGA-----  296 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~--~--glt~~~~~~~~~~-----------~~~~G~-----  296 (345)
                      -.+.++|++|+|||+|++.++.+.+.   .+...|.....  .  .-.....-+...+           .+-.|.     
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~G~~qrv~  108 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGDLKPQQGEITLDGVPVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSGGERQRLA  108 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCEEHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCHHHHHHHH
Confidence            38999999999999999999988753   23333321100  0  0001111111100           011111     


Q ss_pred             ---eeecCCcEEEEcCCC-CCCHHhHHHHHHHHhC
Q psy1366         297 ---LVLSDGGVCCIDEFS-SIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       297 ---l~la~~gi~~IDEid-k~~~~~~~~l~eame~  327 (345)
                         ....+..++++||-. .++...+..+++.|.+
T Consensus       109 laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~  143 (178)
T cd03247         109 LARILLQDAPIVLLDEPTVGLDPITERQLLSLIFE  143 (178)
T ss_pred             HHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHH
Confidence               123567899999986 4788888888888864

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PLN02199 shikimate kinase

Probab=92.94  E-value=0.17  Score=47.34  Aligned_cols=29  Identities=24%  Similarity=0.415  Sum_probs=25.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .+|+|+|.+|+|||++++.+++.+...++
T Consensus       103 ~~I~LIG~~GSGKSTVgr~LA~~Lg~~fI  131 (303)
T PLN02199        103 RSMYLVGMMGSGKTTVGKLMSKVLGYTFF  131 (303)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            39999999999999999999998776554

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=92.94  E-value=0.081  Score=46.79  Aligned_cols=25  Identities=36%  Similarity=0.593  Sum_probs=22.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -.+.|+|++|+|||+|++.++.+.+
T Consensus        28 ~~~~i~G~nGsGKSTLl~~l~G~~~   52 (214)
T cd03292          28 EFVFLVGPSGAGKSTLLKLIYKEEL   52 (214)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3789999999999999999999875

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=92.91  E-value=0.08  Score=44.47  Aligned_cols=22  Identities=45%  Similarity=0.587  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..++++|+||+|||+|+..+..
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~   24 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFAD   24 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4799999999999999988864

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=92.91  E-value=0.073  Score=43.51  Aligned_cols=22  Identities=18%  Similarity=0.484  Sum_probs=19.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .|.++|+||+|||+|+.++...
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~   23 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGE   23 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCC
Confidence            5899999999999999988643

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=92.91  E-value=0.087  Score=44.76  Aligned_cols=85  Identities=18%  Similarity=0.284  Sum_probs=50.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCCceEE-EEeecCeeE--eeece--------eeecCCcEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAGLTVS-ALRENGEWH--LEAGA--------LVLSDGGVC  305 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~glt~~-~~~~~~~~~--~~~G~--------l~la~~gi~  305 (345)
                      -.+.|+|++|+|||+|++.++.+.+.   .++..|.....  +... ..+..-.+.  +-.|.        ....+.-++
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~--~~~~~~~~~~i~~~~qLS~G~~qrl~laral~~~p~il  104 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSF--ASPRDARRAGIAMVYQLSVGERQMVEIARALARNARLL  104 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCc--CCHHHHHhcCeEEEEecCHHHHHHHHHHHHHhcCCCEE
Confidence            48999999999999999999988754   23333321110  0000 000000010  11121        122457899


Q ss_pred             EEcCCCC-CCHHhHHHHHHHHh
Q psy1366         306 CIDEFSS-IKEHDRTSIHEAME  326 (345)
Q Consensus       306 ~IDEidk-~~~~~~~~l~eame  326 (345)
                      ++||-.. ++...+..+.++|.
T Consensus       105 llDEP~~~LD~~~~~~l~~~l~  126 (163)
T cd03216         105 ILDEPTAALTPAEVERLFKVIR  126 (163)
T ss_pred             EEECCCcCCCHHHHHHHHHHHH
Confidence            9999764 78888888888774

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.

>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family

Probab=92.91  E-value=0.25  Score=33.38  Aligned_cols=34  Identities=29%  Similarity=0.657  Sum_probs=24.4

Q ss_pred             EEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCCe
Q psy1366          41 REYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNF   81 (345)
Q Consensus        41 ~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~f   81 (345)
                      -.|+|.+||+.|.+...+.+    ..+..||   .|++...
T Consensus         4 Yey~C~~Cg~~fe~~~~~~~----~~~~~CP---~Cg~~~~   37 (52)
T TIGR02605         4 YEYRCTACGHRFEVLQKMSD----DPLATCP---ECGGEKL   37 (52)
T ss_pred             EEEEeCCCCCEeEEEEecCC----CCCCCCC---CCCCCce
Confidence            36999999999887544321    4567897   6998654

This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=92.90  E-value=0.06  Score=45.71  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..+++||.|.|||.+++++.-.
T Consensus        23 ~~~i~G~NgsGKS~~l~~i~~~   44 (162)
T cd03227          23 LTIITGPNGSGKSTILDAIGLA   44 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999997643

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>PRK13975 thymidylate kinase; Provisional

Probab=92.89  E-value=0.085  Score=45.93  Aligned_cols=25  Identities=20%  Similarity=0.294  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -|.+.|++|+|||++++.+++.+..
T Consensus         4 ~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          4 FIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            6899999999999999999998763

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=92.89  E-value=0.072  Score=47.34  Aligned_cols=24  Identities=38%  Similarity=0.628  Sum_probs=20.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      --.-|+||+|+|||+++|.+-++-
T Consensus        34 ~VTAlIGPSGcGKST~LR~lNRmn   57 (253)
T COG1117          34 KVTALIGPSGCGKSTLLRCLNRMN   57 (253)
T ss_pred             ceEEEECCCCcCHHHHHHHHHhhc
Confidence            367899999999999999997754

>cd01861 Rab6 Rab6 subfamily

Probab=92.87  E-value=0.077  Score=44.17  Aligned_cols=21  Identities=29%  Similarity=0.499  Sum_probs=18.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .++++|+||+|||+|+..+..
T Consensus         2 ki~liG~~~~GKSsli~~l~~   22 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMY   22 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            589999999999999998754

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>cd04140 ARHI_like ARHI subfamily

Probab=92.87  E-value=0.084  Score=44.44  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=19.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|++|+|||+|++.+..
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~   23 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVK   23 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4799999999999999987764

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae

Probab=92.87  E-value=0.099  Score=45.14  Aligned_cols=31  Identities=26%  Similarity=0.370  Sum_probs=25.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      -|+|-|++.+|||++++.+.+.++.+.+..+
T Consensus         3 iI~LNG~sSSGKSsia~~Lq~~~~~p~~~l~   33 (174)
T PF07931_consen    3 IIILNGPSSSGKSSIARALQERLPEPWLHLS   33 (174)
T ss_dssp             EEEEEE-TTSSHHHHHHHHHHHSSS-EEEEE
T ss_pred             EEEEeCCCCCCHHHHHHHHHHhCcCCeEEEe
Confidence            4899999999999999999999998765544

Chloramphenicol (Cm) is a metabolite produced by this bacterium that can inhibit ribosomal peptidyl transferase activity and therefore protein production. By transferring a phosphate group to the C-3 hydroxyl group of Cm, CPT inactivates this potentially lethal metabolite [, ]. ; GO: 0005524 ATP binding, 0016740 transferase activity; PDB: 1QHX_A 1QHN_A 1GRR_A 1QHY_A 1QHS_A 1GRQ_A.

>TIGR00376 DNA helicase, putative

Probab=92.86  E-value=0.099  Score=54.36  Aligned_cols=36  Identities=31%  Similarity=0.381  Sum_probs=25.8

Q ss_pred             hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         212 YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       212 ~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.-+.|+..++...              -.+|+.||||||||+++-.+..
T Consensus       160 ~~Q~~Av~~~l~~~--------------~~~lI~GpPGTGKT~t~~~ii~  195 (637)
T TIGR00376       160 ESQKEAVSFALSSK--------------DLFLIHGPPGTGKTRTLVELIR  195 (637)
T ss_pred             HHHHHHHHHHhcCC--------------CeEEEEcCCCCCHHHHHHHHHH
Confidence            45566777766532              2789999999999987666543

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=92.85  E-value=0.09  Score=44.95  Aligned_cols=88  Identities=25%  Similarity=0.416  Sum_probs=51.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCc---CCc--eEEEEeecCeeE--------eeece-------
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTT---AGL--TVSALRENGEWH--------LEAGA-------  296 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~---~gl--t~~~~~~~~~~~--------~~~G~-------  296 (345)
                      -.+.|+|++|+|||+|++.++.+.+.   .++..|..-..   ..+  ..........+.        +-.|.       
T Consensus        29 ~~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~~~g~~~~~~~~~~~~~~i~~~~~~~~~~~~t~~e~lLS~G~~~rl~la  108 (171)
T cd03228          29 EKVAIVGPSGSGKSTLLKLLLRLYDPTSGEILIDGVDLRDLDLESLRKNIAYVPQDPFLFSGTIRENILSGGQRQRIAIA  108 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCEEEECCEEhhhcCHHHHHhhEEEEcCCchhccchHHHHhhCHHHHHHHHHH
Confidence            48999999999999999999998764   23333321100   000  011111110000        11111       


Q ss_pred             -eeecCCcEEEEcCCC-CCCHHhHHHHHHHHhC
Q psy1366         297 -LVLSDGGVCCIDEFS-SIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       297 -l~la~~gi~~IDEid-k~~~~~~~~l~eame~  327 (345)
                       ....+.-++++||=. .++...+..+.+.|.+
T Consensus       109 ~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~  141 (171)
T cd03228         109 RALLRDPPILILDEATSALDPETEALILEALRA  141 (171)
T ss_pred             HHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHH
Confidence             112357899999975 5888888888888864

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=92.85  E-value=0.13  Score=44.46  Aligned_cols=26  Identities=35%  Similarity=0.469  Sum_probs=21.8

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      |.|+|.||+|||++++.+++ .+-.++
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~i   27 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPVI   27 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCEE
Confidence            68999999999999999998 454444

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=92.84  E-value=0.09  Score=45.05  Aligned_cols=87  Identities=20%  Similarity=0.347  Sum_probs=50.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCC---c--eEEEEeecCeeE--------eeece--------
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAG---L--TVSALRENGEWH--------LEAGA--------  296 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~g---l--t~~~~~~~~~~~--------~~~G~--------  296 (345)
                      .+.|+|++|+|||+|++.++.+.+.   .++..|.......   +  ..........+.        +-.|.        
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~lLS~G~~qrv~la~  109 (173)
T cd03246          30 SLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNELGDHVGYLPQDDELFSGSIAENILSGGQRQRLGLAR  109 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCCCCCeEEECCEEcccCCHHHHHhheEEECCCCccccCcHHHHCcCHHHHHHHHHHH
Confidence            7899999999999999999988753   3443332111000   0  011111110000        11111        


Q ss_pred             eeecCCcEEEEcCCC-CCCHHhHHHHHHHHhC
Q psy1366         297 LVLSDGGVCCIDEFS-SIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       297 l~la~~gi~~IDEid-k~~~~~~~~l~eame~  327 (345)
                      ....+.-++++||-. .++...+..+.+.+.+
T Consensus       110 al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~  141 (173)
T cd03246         110 ALYGNPRILVLDEPNSHLDVEGERALNQAIAA  141 (173)
T ss_pred             HHhcCCCEEEEECCccccCHHHHHHHHHHHHH
Confidence            122467899999976 5788888888877753

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>smart00072 GuKc Guanylate kinase homologues

Probab=92.84  E-value=0.12  Score=44.85  Aligned_cols=25  Identities=28%  Similarity=0.450  Sum_probs=22.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .++|+||+|+||+++++.+.+..|.
T Consensus         4 ~ivl~Gpsg~GK~tl~~~L~~~~~~   28 (184)
T smart00072        4 PIVLSGPSGVGKGTLLAELIQEIPD   28 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCCc
Confidence            7999999999999999999988763

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>cd04127 Rab27A Rab27a subfamily

Probab=92.83  E-value=0.081  Score=45.07  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+++|++|+|||+|++.+..
T Consensus         5 ~ki~ivG~~~vGKTsli~~~~~   26 (180)
T cd04127           5 IKFLALGDSGVGKTSFLYQYTD   26 (180)
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999988764

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>cd04176 Rap2 Rap2 subgroup

Probab=92.82  E-value=0.084  Score=44.14  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=18.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.++++|+||+|||+|+..+..
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~   23 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVS   23 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            5799999999999999865553

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=92.81  E-value=0.067  Score=46.81  Aligned_cols=23  Identities=22%  Similarity=0.406  Sum_probs=21.2

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      |.+.|++|+|||++++.++..++
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            57899999999999999999886

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 ....

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=92.80  E-value=0.084  Score=47.73  Aligned_cols=25  Identities=28%  Similarity=0.623  Sum_probs=22.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -.+.|+|++|+|||+|++.++.+.+
T Consensus        29 e~~~l~G~nGsGKSTLl~~l~Gl~~   53 (243)
T TIGR02315        29 EFVAIIGPSGAGKSTLLRCINRLVE   53 (243)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCcC
Confidence            3799999999999999999998775

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=92.80  E-value=0.082  Score=46.81  Aligned_cols=24  Identities=33%  Similarity=0.551  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||+|++.++.+.+
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl~~   53 (214)
T TIGR02673        30 FLFLTGPSGAGKTTLLKLLYGALT   53 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            789999999999999999998865

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=92.79  E-value=0.081  Score=46.94  Aligned_cols=24  Identities=38%  Similarity=0.623  Sum_probs=22.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||+|++.++.+.+
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~~   54 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGIEK   54 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            789999999999999999998875

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=92.77  E-value=0.13  Score=46.09  Aligned_cols=21  Identities=29%  Similarity=0.456  Sum_probs=18.4

Q ss_pred             eceeeeCCCCChHHHHHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      ..+++.|+||+|||+|+..++
T Consensus        21 ~~~~i~G~~G~GKT~l~~~~~   41 (229)
T TIGR03881        21 FFVAVTGEPGTGKTIFCLHFA   41 (229)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            489999999999999988654

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.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=92.75  E-value=0.087  Score=44.62  Aligned_cols=21  Identities=48%  Similarity=0.691  Sum_probs=18.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|+++|++|+|||+|++.+..
T Consensus         2 ki~vvG~~~vGKTsli~~~~~   22 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLT   22 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            689999999999999988764

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=92.71  E-value=0.089  Score=44.56  Aligned_cols=22  Identities=18%  Similarity=0.292  Sum_probs=19.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|++|+|||+|+..+..
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~   24 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCA   24 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5899999999999999998864

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=92.70  E-value=0.093  Score=45.86  Aligned_cols=25  Identities=24%  Similarity=0.431  Sum_probs=22.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -.+.|+|++|+|||+|++.++.+.+
T Consensus        27 e~~~l~G~nGsGKSTLl~~l~G~~~   51 (195)
T PRK13541         27 AITYIKGANGCGKSSLLRMIAGIMQ   51 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3799999999999999999999865

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=92.68  E-value=0.085  Score=48.87  Aligned_cols=25  Identities=24%  Similarity=0.474  Sum_probs=23.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      |++++|+||+|||+|++.++...+.
T Consensus       113 ~~~i~g~~g~GKttl~~~l~~~~~~  137 (270)
T TIGR02858       113 NTLIISPPQCGKTTLLRDLARILST  137 (270)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCccCC
Confidence            9999999999999999999988764

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.

>cd01864 Rab19 Rab19 subfamily

Probab=92.67  E-value=0.09  Score=44.15  Aligned_cols=22  Identities=27%  Similarity=0.528  Sum_probs=19.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..++++|++|+|||+|+.++..
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~   25 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKS   25 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhh
Confidence            5899999999999999988743

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=92.66  E-value=0.087  Score=46.87  Aligned_cols=24  Identities=29%  Similarity=0.565  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||+|++.++.+.+
T Consensus        33 ~~~i~G~nGsGKSTLl~~i~G~~~   56 (221)
T TIGR02211        33 IVAIVGSSGSGKSTLLHLLGGLDN   56 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            789999999999999999998865

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=92.66  E-value=0.087  Score=47.16  Aligned_cols=24  Identities=25%  Similarity=0.562  Sum_probs=22.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||+|++.++.+.+
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~~   54 (229)
T cd03254          31 TVAIVGPTGAGKTTLINLLMRFYD   54 (229)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCcC
Confidence            699999999999999999998875

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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=92.63  E-value=0.087  Score=47.43  Aligned_cols=25  Identities=28%  Similarity=0.530  Sum_probs=22.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.++.+.+.
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~~p   52 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLLRP   52 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            7999999999999999999988753

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.

>PRK10646 ADP-binding protein; Provisional

Probab=92.59  E-value=0.2  Score=42.28  Aligned_cols=25  Identities=24%  Similarity=0.279  Sum_probs=22.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -|+|.||-|.|||+++|.+++.+.-
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~Lg~   54 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQALGH   54 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            5899999999999999999998863

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	345
3f9v_A	595	Crystal Structure Of A Near Full-Length Archaeal Mc		6e-38
2vl6_A	268	Structural Analysis Of The Sulfolobus Solfataricus		3e-10
1ltl_A	279	The Dodecamer Structure Of Mcm From Archaeal M. The		8e-06
3f8t_A	506	Crystal Structure Analysis Of A Full-Length Mcm Hom		4e-04

>pdb|3F9V|A Chain A, Crystal Structure Of A Near Full-Length Archaeal Mcm: Functional Insights For An Aaa+ Hexameric Helicase Length = 595

Iteration: 1
 Score =  154 bits (389), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 104/324 (32%), Positives = 159/324 (49%), Gaps = 23/324 (7%)
Query: 17  DIGSLLQISGTVVRITVAKMLEFRREY--VCTKCKQCFYVKADFEQFYSIANPL---SCG 71
           DIG L+ I G +V++T  K   ++  Y  +   C Q F    D E    +  P     CG
Sbjct: 110 DIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTICPKCG 169
Query: 72  SPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPG 129
            P         P    ++    D+Q+  IQER   V  G +P+ + + LEDDLVD ARPG
Sbjct: 170 KPGQF---RLIP----EKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPG 222
Query: 130 DDVIVCGAV-LRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWED 188
           D V V G + +++  PV +G R+  ++ +  + + V       ++I+ E   ++    +D
Sbjct: 223 DRVKVTGILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQKVLDEVIISEEDEKKIKDLAKD 282
Query: 189 HKYDGLAARNHILASICPAIYGXXXXXXXXXXXXXXXXXXXXXXXXXXRAESHLLLVGDP 248
                   R+ I++SI P+IYG                          R + H+L++GDP
Sbjct: 283 P-----WIRDRIISSIAPSIYGHWELKEALALALFGGVPKVLEDTRI-RGDIHILIIGDP 336
Query: 249 GTGKSEILKFAKRMSPRXXXXXXXXXXXXXXXXXXXRENG--EWHLEAGALVLSDGGVCC 306
           GT KS++L+F  R++PR                   RE G  E++LEAGALVL+DGG+  
Sbjct: 337 GTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIAV 396
Query: 307 IDEFSSIKEHDRTSIHEAMEQQTI 330
           IDE   +++ DR +IHEAMEQQT+
Sbjct: 397 IDEIDKMRDEDRVAIHEAMEQQTV 420

>pdb|2VL6|A Chain A, Structural Analysis Of The Sulfolobus Solfataricus Mcm Protein N-Terminal Domain Length = 268

Iteration: 1
 Score = 62.8 bits (151), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 48/155 (30%), Positives = 76/155 (49%), Gaps = 9/155 (5%)
Query: 17  DIGSLLQISGTVVRITVAKMLEFRREY--VCTKCKQCFYVKADFEQFYSIANPLSCGSPS 74
           DIG L+ I G +V++T  K   ++  Y  +   C Q F    D E    +  P  C  P 
Sbjct: 116 DIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTIC--PK 173
Query: 75  SCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPGDDV 132
                 F  +   ++    D+Q+  IQER   V  G +P+ + + LEDDLVD ARPGD V
Sbjct: 174 CGKPGQFRLIP--EKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPGDRV 231
Query: 133 IVCGAV-LRRWRPVVKGVRSDIELCLSANYLTVCN 166
            V G + +++  PV +G R+  ++ +  + + V  
Sbjct: 232 KVTGILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQ 266

>pdb|1LTL|A Chain A, The Dodecamer Structure Of Mcm From Archaeal M. Thermoautotrophicum Length = 279

Iteration: 1
 Score = 48.1 bits (113), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 41/125 (32%), Positives = 55/125 (44%), Gaps = 14/125 (11%)
Query: 18  IGSLLQISGTVVRITVAKMLEFRREYV--CTKCKQCFYVKADFEQFYSIANPLSCGSPSS 75
           IG  + + G V      K  E R   V    +C+ C    A  +    I  P  C   S 
Sbjct: 110 IGKFVAVDGIV-----RKTDEIRPRIVKAVFECRGCMRHHAVTQSTNMITEPSLC---SE 161
Query: 76  CDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPGDDVI 133
           C G +F  +   D+  + D Q +K+QE    +  G  P+ I V LEDDLVD   PGD V 
Sbjct: 162 CGGRSFRLLQ--DESEFLDTQTLKLQEPLENLSGGEQPRQITVVLEDDLVDTLTPGDIVR 219
Query: 134 VCGAV 138
           V G +
Sbjct: 220 VTGTL 224

>pdb|3F8T|A Chain A, Crystal Structure Analysis Of A Full-Length Mcm Homolog From Methanopyrus Kandleri Length = 506

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 18/46 (39%), Positives = 28/46 (60%)
Query: 285 RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
           +E+  W L AGA VL+DGG+  +D      E  R ++ EAM++ T+
Sbjct: 284 KEDRGWALRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTV 329

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	345
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	1e-108
3f8t_A	506	Predicted ATPase involved in replication control,	1e-81
2vl6_A	268	SSO MCM N-TER, minichromosome maintenance protein	2e-25
1ltl_A	279	DNA replication initiator (CDC21/CDC54); HET: DNA;	3e-25
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus} Length = 595

 Score =  328 bits (842), Expect = e-108
 Identities = 124/329 (37%), Positives = 189/329 (57%), Gaps = 19/329 (5%)

Query: 14  NNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCK--QCFYVKADFEQFYSIANPLSCG 71
            + DIG L+ I G +V++T  K   ++  Y        Q F    D E    +  P  C 
Sbjct: 107 RSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTIC- 165

Query: 72  SPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPG 129
            P       F  +   ++    D+Q+  IQER   V  G +P+ + + LEDDLVD ARPG
Sbjct: 166 -PKCGKPGQFRLIP--EKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPG 222

Query: 130 DDVIVCGAVLR--RWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWE 187
           D V V G +L   +  PV +G R+  ++ +  + + V       ++I+ E   ++    +
Sbjct: 223 DRVKVTG-ILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQKVLDEVIISEEDEKKIKDLAK 281

Query: 188 DHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGD 247
           D        R+ I++SI P+IYG + +K  LA+ L GGV +  ED  ++R + H+L++GD
Sbjct: 282 DPW-----IRDRIISSIAPSIYGHWELKEALALALFGGVPKVLEDT-RIRGDIHILIIGD 335

Query: 248 PGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR--ENGEWHLEAGALVLSDGGVC 305
           PGT KS++L+F  R++PR+V TTG G+T AGLT + +R    GE++LEAGALVL+DGG+ 
Sbjct: 336 PGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIA 395

Query: 306 CIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
            IDE   +++ DR +IHEAMEQQT+S+AK
Sbjct: 396 VIDEIDKMRDEDRVAIHEAMEQQTVSIAK 424

>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} Length = 506

 Score =  255 bits (654), Expect = 1e-81
 Identities = 64/324 (19%), Positives = 101/324 (31%), Gaps = 43/324 (13%)

Query: 23  QISGTVVRIT-----VAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGS-PSSC 76
               ++ R+T     V  + E   +           V+    +      P          
Sbjct: 41  SFQRSLARVTSGKPVVLDLRELDSDLASWIATHARLVEPALRELVRTVAPDVEPRVRFRG 100

Query: 77  DGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPGDDVIV 134
               F     V++    D   I I+     V      +   V    +LV +   G     
Sbjct: 101 LPHRF---RRVERIRPMDGALISIEGVVREVRGAERLEHAIVDTGSELVAVRLHGH---- 153

Query: 135 CGAVLRRWRPVVKGVRSDIELCLSANYLTVCN----DQSSSLVITPELRAEVTQFWEDHK 190
                 R  P   G+R +I   + +  L        D    +   P    E  +  +   
Sbjct: 154 ------RLGP---GLRVEILGIVRSATLDALEVHKKDPIPEVHPDPAELEEFRELADKDP 204

Query: 191 YDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGT 250
               A       +I P + G   V   LA+ L   V        K     H+LL G P  
Sbjct: 205 LTTFAR------AIAP-LPGAEEVGKMLALQLFSCV-------GKNSERLHVLLAGYPVV 250

Query: 251 GKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEF 310
               +      ++PR V      T    LT     +   W L AGA VL+DGG+  +D  
Sbjct: 251 CSEILHHVLDHLAPRGVYVDLRRTELTDLTAVLKEDR-GWALRAGAAVLADGGILAVDHL 309

Query: 311 SSIKEHDRTSIHEAMEQQTISVAK 334
               E  R ++ EAM++ T++V  
Sbjct: 310 EGAPEPHRWALMEAMDKGTVTVDG 333

>2vl6_A SSO MCM N-TER, minichromosome maintenance protein MCM; helicase, hydrolase, zinc-finger, ATP-binding, DNA-BIND ssDNA binding; 2.8A {Sulfolobus solfataricus} Length = 268

 Score =  102 bits (255), Expect = 2e-25
 Identities = 47/159 (29%), Positives = 77/159 (48%), Gaps = 11/159 (6%)

Query: 14  NNEDIGSLLQISGTVVRITV--AKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCG 71
            + DIG L+ I G +V++T    ++ +   +++   C Q F    D E    +  P  C 
Sbjct: 113 RSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTIC- 171

Query: 72  SPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPG 129
            P       F  +   ++    D+Q+  IQER   V  G +P+ + + LEDDLVD ARPG
Sbjct: 172 -PKCGKPGQFRLIP--EKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPG 228

Query: 130 DDVIVCGAVLR--RWRPVVKGVRSDIELCLSANYLTVCN 166
           D V V G +L   +  PV +G R+  ++ +  + + V  
Sbjct: 229 DRVKVTG-ILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQ 266

>1ltl_A DNA replication initiator (CDC21/CDC54); HET: DNA; 3.00A {Methanothermobacterthermautotrophicus} SCOP: b.40.4.11 Length = 279

 Score =  102 bits (255), Expect = 3e-25
 Identities = 45/178 (25%), Positives = 67/178 (37%), Gaps = 22/178 (12%)

Query: 14  NNEDIGSLLQISGTVVRITV----AKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLS 69
            ++ IG  + + G V +            F        C+ C    A  +    I  P  
Sbjct: 106 RSKFIGKFVAVDGIVRKTDEIRPRIVKAVFE-------CRGCMRHHAVTQSTNMITEPSL 158

Query: 70  CGSPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLAR 127
           C   S C G +F      D+  + D Q +K+QE    +  G  P+ I V LEDDLVD   
Sbjct: 159 C---SECGGRSF--RLLQDESEFLDTQTLKLQEPLENLSGGEQPRQITVVLEDDLVDTLT 213

Query: 128 PGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQF 185
           PGD V V G +    R V        +  +  NY      +   L I+ E   ++ + 
Sbjct: 214 PGDIVRVTGTL----RTVRDERTKRFKNFIYGNYTEFLEQEFEELQISEEDEEKIKEL 267

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G Length = 350

 Score = 41.3 bits (97), Expect = 3e-04
 Identities = 26/135 (19%), Positives = 43/135 (31%), Gaps = 37/135 (27%)

Query: 241 HLLLVGDPGTGKS---------------------------------EILKFAKRMSPRSV 267
            +L+ GD GTGKS                                  +L       P  V
Sbjct: 47  GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPV 106

Query: 268 LTTGVGTTTA----GLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHE 323
           +   +G +       L +      GE   E G L  ++ G   IDE + +++H    + +
Sbjct: 107 VDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLD 166

Query: 324 AMEQQTISVAKDKES 338
             +     V +D  S
Sbjct: 167 VAQSGENVVERDGLS 181

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.0 bits (95), Expect = 6e-04
 Identities = 39/279 (13%), Positives = 88/279 (31%), Gaps = 62/279 (22%)

Query: 84  VTSVDQDNY-KDYQEIKIQERAAGVGSVPKSIWVTLE-DDLVDLARPGDDVIVCGAVLRR 141
           + SV +D +  ++    +Q+       +PKSI    E D ++         +     L  
Sbjct: 21  ILSVFEDAFVDNFDCKDVQD-------MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73

Query: 142 WRPVVKGVRSDIELCLSANY-------LTVCNDQSSSLVITPELRAEVTQFWEDH----K 190
            +   + V+  +E  L  NY        T     S   ++T     +  + + D+    K
Sbjct: 74  KQE--EMVQKFVEEVLRINYKFLMSPIKTEQRQPS---MMTRMYIEQRDRLYNDNQVFAK 128

Query: 191 YDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGT 250
           Y+   +R      +          +  L                ++R   ++L+ G  G+
Sbjct: 129 YN--VSRLQPYLKL----------RQAL---------------LELRPAKNVLIDGVLGS 161

Query: 251 GKS----EILKFAK--RMSPRSV--LTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDG 302
           GK+    ++    K        +  L      +   +    + +   + ++      SD 
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL--EMLQKLLYQIDPNWTSRSDH 219

Query: 303 GVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKV 341
                    SI+   R  +     +  + V  + ++ K 
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	345
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	100.0
3f8t_A	506	Predicted ATPase involved in replication control,	100.0
1ltl_A	279	DNA replication initiator (CDC21/CDC54); HET: DNA;	100.0
2vl6_A	268	SSO MCM N-TER, minichromosome maintenance protein	100.0
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.55
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.54
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.47
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.36
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.22
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.21
3co5_A	143	Putative two-component system transcriptional RES	99.19
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.15
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.15
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.08
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.06
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.05
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.05
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.04
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.0
3pvs_A	447	Replication-associated recombination protein A; ma	98.93
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.91
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.9
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	98.84
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.79
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.78
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.75
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.68
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.68
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.65
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.61
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.6
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.6
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.6
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.59
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.59
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.59
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.58
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.58
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.57
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.56
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.55
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.48
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.46
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.46
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.46
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.45
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.45
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	98.43
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.41
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.41
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.39
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.38
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.36
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.33
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.31
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.31
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.3
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.3
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.29
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.28
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.26
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.25
3bos_A	242	Putative DNA replication factor; P-loop containing	98.2
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.19
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.16
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.15
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.14
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.14
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.12
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.1
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.1
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.05
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	98.04
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.02
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.97
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.94
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.9
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.88
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.86
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.74
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.74
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.73
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.71
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.68
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.59
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	97.54
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	97.46
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.34
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.31
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	97.28
2qgz_A	308	Helicase loader, putative primosome component; str	97.16
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.15
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.02
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.93
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.84
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.74
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	96.61
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	96.45
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.44
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	96.37
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	96.36
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	96.26
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.19
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.18
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.92
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.89
1via_A	175	Shikimate kinase; structural genomics, transferase	95.88
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.79
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.76
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.75
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	95.73
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.65
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.64
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.62
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.54
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.51
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	95.46
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.46
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.45
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.43
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.4
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.4
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.34
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.32
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.29
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.27
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.23
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.22
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.22
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.2
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.19
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.17
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.16
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.15
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.15
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.11
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.1
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.09
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.06
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.06
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.04
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.0
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.99
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	94.97
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	94.95
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.92
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	94.91
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.9
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.9
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	94.86
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.86
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.86
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.85
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.82
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.8
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.79
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.78
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	94.77
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	94.77
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	94.76
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.74
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.72
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	94.71
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.63
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	94.61
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.6
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.59
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	94.53
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.52
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.5
2fna_A	357	Conserved hypothetical protein; structural genomic	94.44
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.43
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	94.37
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.31
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.3
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.29
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	94.28
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.26
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	94.23
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.22
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.16
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.16
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.15
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.12
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.12
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.11
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	94.1
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.1
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	94.09
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.09
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.08
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.07
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	94.03
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.0
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	93.99
2cvh_A	220	DNA repair and recombination protein RADB; filamen	93.97
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.97
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.97
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	93.96
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.95
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.91
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	93.89
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	93.88
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.87
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.87
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.86
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	93.85
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	93.84
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.84
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	93.82
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.77
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.77
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	93.77
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	93.75
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	93.75
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.74
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.74
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	93.74
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.73
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.7
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	93.69
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	93.68
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.67
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.66
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.63
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	93.63
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.61
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.61
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.61
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.6
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	93.6
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.59
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	93.59
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.55
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	93.53
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	93.51
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	93.51
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	93.5
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.47
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	93.44
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	93.44
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.42
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.4
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.39
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.39
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.38
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	93.37
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.37
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	93.37
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.33
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.32
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	93.31
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.31
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	93.28
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.28
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.27
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.25
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	93.24
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	93.22
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.22
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	93.21
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.17
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	93.17
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.16
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	93.16
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.15
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.14
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.11
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.09
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	93.07
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.04
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.04
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.02
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	92.97
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.96
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	92.96
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.95
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	92.93
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	92.92
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	92.92
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	92.91
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	92.91
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	92.91
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	92.91
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	92.9
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.88
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	92.88
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	92.83
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	92.8
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	92.8
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	92.79
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	92.79
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	92.78
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	92.76
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	92.71
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.7
1sgw_A	214	Putative ABC transporter; structural genomics, P p	92.67
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	92.66
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	92.66
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.62
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.61
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	92.6
2fh5_B	214	SR-beta, signal recognition particle receptor beta	92.59
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	92.58
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.57
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	92.57
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.55
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	92.54
1g6h_A	257	High-affinity branched-chain amino acid transport	92.5
1b0u_A	262	Histidine permease; ABC transporter, transport pro	92.5
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	92.49
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	92.49
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	92.49
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	92.45
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	92.42
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	92.42
3llu_A	196	RAS-related GTP-binding protein C; structural geno	92.42
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	92.4
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.38
2eyu_A	261	Twitching motility protein PILT; pilus retraction	92.33
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.32
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	92.32
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	92.31
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	92.3
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	92.3
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	92.3
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	92.29
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.28
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	92.28
1ji0_A	240	ABC transporter; ATP binding protein, structural g	92.27
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	92.25
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	92.24
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.22
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	92.2
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	92.2
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.18
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	92.13
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	92.11
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	92.11
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	92.1
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	92.1
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	92.06
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	92.03
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	92.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	92.0
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	91.99
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	91.99
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	91.98
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	91.96
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	91.95
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	91.94
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	91.91
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	91.91
3io5_A	333	Recombination and repair protein; storage dimer, i	91.9
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	91.9
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	91.89
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	91.85
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	91.84
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	91.8
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	91.79
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	91.77
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	91.72
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	91.69
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	91.68
2ghi_A	260	Transport protein; multidrug resistance protein, M	91.65
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	91.63
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	91.62
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	91.61
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	91.56
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	91.54
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	91.54
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	91.54
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	91.52
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	91.52
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	91.52
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	91.49
2z43_A	324	DNA repair and recombination protein RADA; archaea	91.47
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	91.33
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	91.31
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	91.29
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	91.29
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	91.27
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	91.27
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	91.27
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	91.26
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	91.24
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	91.23
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	91.21
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	91.21
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	91.18
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	91.18
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	91.17
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	91.12
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	91.11
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	91.05
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	91.03
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	91.01
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	90.96
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	90.91
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	90.87
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	90.85
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	90.85
1p9r_A	418	General secretion pathway protein E; bacterial typ	90.81
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	90.77
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	90.71
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	90.67
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	90.66
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	90.61
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	90.6
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	90.56
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	90.54
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	90.51
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	90.39
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	90.37
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	90.34
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	90.29
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	90.22
2hf9_A	226	Probable hydrogenase nickel incorporation protein	90.1
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	90.08
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	89.8
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	89.79
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.28
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	89.73
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	89.68
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	89.66
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	89.61
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	89.55
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	89.55
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	89.52
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	89.5
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	89.48
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	89.42
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	89.33
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	89.31
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	89.3
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	89.27
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	89.26
1u94_A	356	RECA protein, recombinase A; homologous recombinat	89.25
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	89.08
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	89.07
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	89.06
2gmg_A	105	Hypothetical protein PF0610; winged-helix like pro	89.06
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	89.03
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	88.94
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	88.93
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	88.89
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	88.87
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	88.86
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	88.85
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	88.85
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	88.8
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	88.75
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	88.72
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	88.71
2og2_A	359	Putative signal recognition particle receptor; nuc	88.65
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	88.64
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	88.61
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	88.6
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	88.52
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	88.46
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	88.45
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	88.42
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	88.23
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	88.18
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	88.17
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	88.08
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	88.03
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	88.0
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	87.99
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	87.87
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	87.78
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	87.77
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	87.71
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	87.69
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	87.58
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	87.32
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	87.18
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	87.16
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	87.03
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	86.69
1xp8_A	366	RECA protein, recombinase A; recombination, radior	86.58
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	86.52
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	86.5
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	86.3
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	86.27
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	86.24
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	86.2
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	86.2
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	86.04
1yks_A	440	Genome polyprotein [contains: flavivirin protease	86.03
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	86.01
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	86.0
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	85.93
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	85.91
2r6a_A	454	DNAB helicase, replicative helicase; replication,	85.82
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	85.74
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	85.72
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	85.69
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	85.66
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	85.4

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=100.00  E-value=7.2e-62  Score=493.70  Aligned_cols=328  Identities=38%  Similarity=0.620  Sum_probs=289.8

Q ss_pred             ccccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCC--CCcEEEEeecccccccccCCcCCCCCCCCCCC-Cee
Q psy1366           6 QLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTK--CKQCFYVKADFEQFYSIANPLSCGSPSSCDGT-NFS   82 (345)
Q Consensus         6 ~~~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~--C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~-~f~   82 (345)
                      .....|.+++.++||||+|+|+|+|+|.++|++.+++|.|.+  ||+.+.++.+....+.+.+|..||   .|+++ +|.
T Consensus        99 ~~~~~r~l~~~~i~~lv~v~G~V~r~s~v~~~~~~~~~~C~~~~C~~~~~~~~~~~~~~~~~~p~~C~---~C~~~~~~~  175 (595)
T 3f9v_A           99 RVIELRKIRSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTICP---KCGKPGQFR  175 (595)
T ss_dssp             CEECGGGCCGGGTTCCEEEEEEEEEECCCEEEEEECCCEEESSSCCCBCCSSCSSCCCSSCCCCSSCT---TTCCCSEEE
T ss_pred             CCCChhhcchhhCCcEEEEEEEEEEecCEEEEEEEEEEEecCCCCCCEEEEEeccccCCcccCCCcCC---CCCCCCceE
Confidence            445567789999999999999999999999999999999999  999876543222345789999997   59986 566


Q ss_pred             eeecCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeeeec-ccCccceeEEEeee
Q psy1366          83 PVTSVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPV-VKGVRSDIELCLSA  159 (345)
Q Consensus        83 ~l~~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~~~-~~~~~~~~~~~i~a  159 (345)
                      ++  .+.+.|+|||+|+|||.+  .|.|++||+++|+|++||||.|+|||+|.|+||++..|... ..+..+.++++++|
T Consensus       176 ~~--~~~s~~~d~Q~i~iQe~~~~~~~g~~pr~~~v~l~~dlv~~~~pGd~v~v~Gi~~~~~~~~~~~~~~~~~~~~i~a  253 (595)
T 3f9v_A          176 LI--PEKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPGDRVKVTGILDIKQDSPVKRGSRAVFDIYMKV  253 (595)
T ss_dssp             CC--STTCEEEEEEEEEEECCTTTSCTTSCCCEEEEEEEGGGTTCSCSSCEEEEEEECCCCCSSTTSCTTCCCCCCCCEE
T ss_pred             Ee--ccCceeeeeEEEEEEeccccCCCCCCCceEEEEEecccccccccCCEEEEEEEEEecccccccCCCcceEEEEEEE
Confidence            66  567889999999999999  88999999999999999999999999999999999876542 23446789999999


Q ss_pred             ceeeeeccCCCCcccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeee
Q psy1366         160 NYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAE  239 (345)
Q Consensus       160 ~~i~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~  239 (345)
                      ++|+..+.......+++++++++.++++    ++. .++.+.++++|.|+|++.+|+++++++++|..+...+ ..+|++
T Consensus       254 ~~i~~~~~~~~~~~~t~~~~~~i~~~~~----~~~-~~~~l~~~l~~~I~G~e~vk~al~~~l~~g~~~~~~~-~~~r~~  327 (595)
T 3f9v_A          254 SSIEVSQKVLDEVIISEEDEKKIKDLAK----DPW-IRDRIISSIAPSIYGHWELKEALALALFGGVPKVLED-TRIRGD  327 (595)
T ss_dssp             EEEEECCCCCCCCCCTTSTHHHHHTTSS----TTT-GGGTHHHHTSSTTSCCHHHHHHHTTTTTCCCCEETTT-TEECCS
T ss_pred             EeecccccccccCCCCHHHHHHHHHHhh----CcH-HHHHHHHhhcchhcChHHHHHHHHHHHhCCCcccccC-CCcCCC
Confidence            9999888777777888888888877653    222 2478999999999999999999999999998887777 899999


Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEHD  317 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~~  317 (345)
                      +|+||+||||||||+||+++++.+++..+..+.+++.+|++++..++  .+.|..++|++.+|++|||||||||+|+++.
T Consensus       328 ~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~~A~~gil~IDEid~l~~~~  407 (595)
T 3f9v_A          328 IHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIAVIDEIDKMRDED  407 (595)
T ss_dssp             CCEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECSSGGGTSSCSEEECHHHHHSSSEECCTTTTCCCSHH
T ss_pred             cceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceeeeccccccccccCCeeEecCCCcEEeehhhhCCHhH
Confidence            99999999999999999999999999999988888889999988776  4788899999999999999999999999999


Q ss_pred             HHHHHHHHhCCEEEEeeCCeEEEeccC
Q psy1366         318 RTSIHEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       318 ~~~l~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      |++|+++||+|++++.++|...++++|
T Consensus       408 q~~Ll~~le~~~i~i~~~g~~~~~~~~  434 (595)
T 3f9v_A          408 RVAIHEAMEQQTVSIAKAGIVAKLNAR  434 (595)
T ss_dssp             HHHHHHHHHSSSEEEESSSSEEEECCC
T ss_pred             hhhhHHHHhCCEEEEecCCcEEEecCc
Confidence            999999999999999999999999876

>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=100.00  E-value=4.7e-50  Score=388.30  Aligned_cols=241  Identities=27%  Similarity=0.328  Sum_probs=210.5

Q ss_pred             ccCCcCCCCCCCCCCC--CeeeeecCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccc------cccCCCEEE
Q psy1366          64 IANPLSCGSPSSCDGT--NFSPVTSVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVD------LARPGDDVI  133 (345)
Q Consensus        64 ~~~p~~C~~~~~C~~~--~f~~l~~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~------~~~pGd~V~  133 (345)
                      ...|..||.. .-++.  .|...   +++.|.|||+|+|||.|  +|.|++||+++|+|++||||      +|+|||+|.
T Consensus        87 ~~~~~~~~~~-~~~g~~~~~~r~---~k~~~~d~Q~IkiQE~pe~~~~G~~Prsi~v~l~~dLvd~~~~~~~~~pGd~V~  162 (506)
T 3f8t_A           87 TVAPDVEPRV-RFRGLPHRFRRV---ERIRPMDGALISIEGVVREVRGAERLEHAIVDTGSELVAVRLHGHRLGPGLRVE  162 (506)
T ss_dssp             HHCTTSCCCE-EEECCCGGGSSC---SCCGGGTTCEEEEEEEEEEEEESSSEEEEEEECSSSEEEEECTTCCCCTTCEEE
T ss_pred             hhCCCCCccc-ccCCcccccchH---hhccccccEEEEEecCcccCCCCCCCceEEEEecccccCcccccccccCCCEEE
Confidence            3457778752 11111  23333   34458999999999999  89999999999999999999      999999999


Q ss_pred             EEEEEeeeeeecccCccceeEEEeeeceeeeeccCCCCcccCHHHHHHHHHHHHhhccChhhHHHHHHhccCcccccchH
Q psy1366         134 VCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYL  213 (345)
Q Consensus       134 i~Gil~~~~~~~~~~~~~~~~~~i~a~~i~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~s~~p~i~G~~~  213 (345)
                      |+|||+..              |++||+|+. ++.+....+++++.+.|.++++.   +.   ++.|++|++| |+|++.
T Consensus       163 v~GI~~~~--------------~l~a~~i~~-~~~~~~~~~t~ed~~~i~~l~~~---~~---~~~l~~sIap-I~G~e~  220 (506)
T 3f8t_A          163 ILGIVRSA--------------TLDALEVHK-KDPIPEVHPDPAELEEFRELADK---DP---LTTFARAIAP-LPGAEE  220 (506)
T ss_dssp             EEEEEETT--------------EEEEEEEEE-ECSSCCCCCCHHHHHHHHHHHHS---CH---HHHHHHHHCC-STTCHH
T ss_pred             EEEEEEEe--------------EEEEEEEEE-cCccccCCCCHHHHHHHHHHHHH---HH---HHHHHHHhcc-cCCCHH
Confidence            99999642              899999988 55556678899999999998863   33   4899999999 999999


Q ss_pred             HHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHH-HhhCCCeEEEcCCccCcCCceEEEEee-cCeeE
Q psy1366         214 VKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFA-KRMSPRSVLTTGVGTTTAGLTVSALRE-NGEWH  291 (345)
Q Consensus       214 vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i-~~~~~~~~~~~~~~~~~~glt~~~~~~-~~~~~  291 (345)
                      +|+|++++|+||..+       .|+++||||+|+||| ||+|++++ ++++||.+|++|..++..||+++ .++ +| |.
T Consensus       221 vK~aLll~L~GG~~k-------~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR~~ft~g~~ss~~gLt~s-~r~~tG-~~  290 (506)
T 3f8t_A          221 VGKMLALQLFSCVGK-------NSERLHVLLAGYPVV-CSEILHHVLDHLAPRGVYVDLRRTELTDLTAV-LKEDRG-WA  290 (506)
T ss_dssp             HHHHHHHHHTTCCSS-------GGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEEEEEGGGCCHHHHSEE-EEESSS-EE
T ss_pred             HHHHHHHHHcCCccc-------cCCceeEEEECCCCh-HHHHHHHHHHHhCCCeEEecCCCCCccCceEE-EEcCCC-cc
Confidence            999999999999665       799999999999999 99999999 99999999999988888899988 666 47 99


Q ss_pred             eeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEeccC
Q psy1366         292 LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       292 ~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      +++|++++||+|+||||||++|+++.|.+|||+||+|+|+|+  |+  +||+|
T Consensus       291 ~~~G~l~LAdgGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~--G~--~lpar  339 (506)
T 3f8t_A          291 LRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVD--GI--ALNAR  339 (506)
T ss_dssp             EEECHHHHTTTSEEEEECCTTCCHHHHHHHHHHHHHSEEEET--TE--EEECC
T ss_pred             cCCCeeEEcCCCeeehHhhhhCCHHHHHHHHHHHhCCcEEEC--CE--EcCCC
Confidence            999999999999999999999999999999999999999998  77  88887

>1ltl_A DNA replication initiator (CDC21/CDC54); HET: DNA; 3.00A {Methanothermobacterthermautotrophicus} SCOP: b.40.4.11

Probab=100.00  E-value=1.5e-37  Score=287.24  Aligned_cols=171  Identities=24%  Similarity=0.369  Sum_probs=134.1

Q ss_pred             cccccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCCeeee
Q psy1366           5 PQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNFSPV   84 (345)
Q Consensus         5 ~~~~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~f~~l   84 (345)
                      |.....|.+++.++||||+|+|+|+|+|.++|++..++|.|.+||+.+.+++.   ++.+.+|..||   .|++++|.+.
T Consensus        97 ~~~~~iR~L~~~~igkLV~v~GiV~r~S~V~p~~~~~~f~C~~C~~~~~v~~~---~~~~~~P~~Cp---~C~~~~f~l~  170 (279)
T 1ltl_A           97 SNVIPLRELRSKFIGKFVAVDGIVRKTDEIRPRIVKAVFECRGCMRHHAVTQS---TNMITEPSLCS---ECGGRSFRLL  170 (279)
T ss_dssp             SCBCCGGGCCGGGTTSEEEEEEEEEEECCCEEEEEEEEEEETTTCCEEEEECS---SSSCCCCSCCT---TTCCCCEEEC
T ss_pred             CCCCCcccCChhhCCCEEEEEEEEEEecceEEEEEEEEEEcCCCCCEEEEEec---CCcccCCCcCC---CCCCCCcEEe
Confidence            44567788999999999999999999999999999999999999998877664   35688999997   5999887766


Q ss_pred             ecCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeeeecccCccceeEEEeeecee
Q psy1366          85 TSVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYL  162 (345)
Q Consensus        85 ~~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~~~~~~~~~~~~~~i~a~~i  162 (345)
                        .+.+.|+|||+|||||+|  +|.|++||+++|+|++||||+|+|||+|+|+|||+..|    .+..+.+++|++|+||
T Consensus       171 --~~~s~f~D~Q~ikiQE~pe~vp~G~~Prsi~V~l~~dLvd~~~PGDrV~vtGI~~~~~----~~~~~~~~~~l~a~~I  244 (279)
T 1ltl_A          171 --QDESEFLDTQTLKLQEPLENLSGGEQPRQITVVLEDDLVDTLTPGDIVRVTGTLRTVR----DERTKRFKNFIYGNYT  244 (279)
T ss_dssp             --GGGCEEEEEEEEEEECCSTTCCSSCCCCEEEEEEEGGGTTCCCTTCEEEEEEEEEEEE----ETTTTEEEEEEEEEEC
T ss_pred             --ccccEEEeeEEEEEecCcccCCCCCCCeEEEEEEcccccCccCCCCEEEEEEEEEEee----CCCCceEEEEEEEEEE
Confidence              567889999999999999  89999999999999999999999999999999999876    2446789999999999


Q ss_pred             eeeccCCCCcccCHHHHHHHHHHHH
Q psy1366         163 TVCNDQSSSLVITPELRAEVTQFWE  187 (345)
Q Consensus       163 ~~~~~~~~~~~~~~e~~~~~~~~~~  187 (345)
                      +..++......+|++++++|.++.+
T Consensus       245 ~~~~~~~~~~~~t~ed~~~i~~ls~  269 (279)
T 1ltl_A          245 EFLEQEFEELQISEEDEEKIKELAG  269 (279)
T ss_dssp             CBC----------------------
T ss_pred             EEecCccccCCCCHHHHHHHHHHhc
Confidence            9888776667889999988888764

>2vl6_A SSO MCM N-TER, minichromosome maintenance protein MCM; helicase, hydrolase, zinc-finger, ATP-binding, DNA-BIND ssDNA binding; 2.8A {Sulfolobus solfataricus}

Probab=100.00  E-value=7.1e-35  Score=268.07  Aligned_cols=158  Identities=30%  Similarity=0.484  Sum_probs=135.8

Q ss_pred             cccccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEe--CCCCcEEEEeecccccccccCCcCCCCCCCCCCCC-e
Q psy1366           5 PQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVC--TKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTN-F   81 (345)
Q Consensus         5 ~~~~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C--~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~-f   81 (345)
                      |.....|.+++.++||||+|+|+|+|+|.++|++..++|.|  .+||+.+.++....+.+.+.+|..||   .|++++ |
T Consensus       104 ~~~~~iR~l~~~~igkLV~v~GiV~r~S~V~p~~~~~~f~C~~~~C~~~~~~~~~~~~~~~~~~P~~Cp---~C~~~~~~  180 (268)
T 2vl6_A          104 PRVIELRKIRSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTICP---KCGKPGQF  180 (268)
T ss_dssp             SCEECGGGCCGGGTTSEEEEEEEEEEECCCEEEEEECEEEEECTTCCCEEESSTTSCCCTTCCCCSBCT---TTCCBCEE
T ss_pred             CCCCccccCChhHCCCeEEEEEEEEEcCCcceEeEEEEEECCCCCCCCEEeeeecccCCCcccCCccCC---CCCCCCCE
Confidence            34456788999999999999999999999999999999999  99999876652112356789999997   699975 7


Q ss_pred             eeeecCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeeee-cccCccceeEEEee
Q psy1366          82 SPVTSVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRP-VVKGVRSDIELCLS  158 (345)
Q Consensus        82 ~~l~~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~~-~~~~~~~~~~~~i~  158 (345)
                      .+.  .+.+.|+|||+|||||+|  +|.|++||+++|+|++||||+|+|||+|+|+|||+..|.. ...+..+.+++||+
T Consensus       181 ~l~--~~~s~f~D~Q~ikiQE~pe~vp~G~~Prsi~v~l~~dLvd~~~PGDrV~vtGI~~~~~~~~~~~~~~~~~~~yl~  258 (268)
T 2vl6_A          181 RLI--PEKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPGDRVKVTGILDIKQDSPVKRGSRAVFDIYMK  258 (268)
T ss_dssp             EEC--GGGCEEEEEEEEEEECCGGGSCTTSCCCEEEEEEEGGGTTSSCTTCEEEEEEEEEEECSSTTCCSSCCEEEEEEE
T ss_pred             EEe--cCccEEEeeEEEEEEeCCCCCCCCCCCcEEEEEEccCccCcccCCCEEEEEEEEEEeecccccCCCceEEEEEEE
Confidence            766  567889999999999999  8999999999999999999999999999999999988754 23456688999999


Q ss_pred             eceeeeecc
Q psy1366         159 ANYLTVCND  167 (345)
Q Consensus       159 a~~i~~~~~  167 (345)
                      ||||+..++
T Consensus       259 an~I~~~~~  267 (268)
T 2vl6_A          259 VSSIEVSQK  267 (268)
T ss_dssp             EEEEEEC--
T ss_pred             EEEEEEecc
Confidence            999987654

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.55  E-value=2e-14  Score=135.18  Aligned_cols=118  Identities=14%  Similarity=0.252  Sum_probs=92.8

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc-CC-ccC
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT-GV-GTT  275 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~-~~-~~~  275 (345)
                      ..+..++.+.|+|++.++.++..++.++              .|+||+||||||||++++++++.++..++.. .. ...
T Consensus        19 ~~~~~~~~~~i~g~~~~~~~l~~~l~~~--------------~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~   84 (331)
T 2r44_A           19 KEVIDEVGKVVVGQKYMINRLLIGICTG--------------GHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLL   84 (331)
T ss_dssp             HHHHHHHTTTCCSCHHHHHHHHHHHHHT--------------CCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCC
T ss_pred             HHHHHHhccceeCcHHHHHHHHHHHHcC--------------CeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCC
Confidence            5678889999999999999999998876              3999999999999999999999988765432 21 112


Q ss_pred             cCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         276 TAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       276 ~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                      ...+......+  .+.|...+|.+   .++++||||+++++++.+++|+++|+++.+++
T Consensus        85 ~~~l~g~~~~~~~~~~~~~~~g~l---~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~  140 (331)
T 2r44_A           85 PSDLIGTMIYNQHKGNFEVKKGPV---FSNFILADEVNRSPAKVQSALLECMQEKQVTI  140 (331)
T ss_dssp             HHHHHEEEEEETTTTEEEEEECTT---CSSEEEEETGGGSCHHHHHHHHHHHHHSEEEE
T ss_pred             hhhcCCceeecCCCCceEeccCcc---cccEEEEEccccCCHHHHHHHHHHHhcCceee
Confidence            22233333222  35666677766   36899999999999999999999999998877

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.54  E-value=6.7e-15  Score=145.81  Aligned_cols=129  Identities=17%  Similarity=0.257  Sum_probs=90.0

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe---EEEcCCcc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS---VLTTGVGT  274 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~~~~~~  274 (345)
                      +.+.+++.+.|+|++.+++++.+++.++              .|+||+||||||||+|++++++.+++.   .+.....+
T Consensus        14 ~~l~~~l~~~ivGq~~~i~~l~~al~~~--------------~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~~   79 (500)
T 3nbx_X           14 SRLSSSLEKGLYERSHAIRLCLLAALSG--------------ESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFS   79 (500)
T ss_dssp             HHHHHHHHTTCSSCHHHHHHHHHHHHHT--------------CEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTTC
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHhcC--------------CeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhcC
Confidence            5678889999999999999999998877              499999999999999999999988652   22222222


Q ss_pred             CcCCc----eEEEEeecCeeE-eeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEEeccC
Q psy1366         275 TTAGL----TVSALRENGEWH-LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       275 ~~~gl----t~~~~~~~~~~~-~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar  344 (345)
                      +...+    +.......+.+. ...|.  ++..+|+|||||++++++.+++|+++|+++.+++  .|....++.|
T Consensus        80 t~~dL~G~~~~~~~~~~g~~~~~~~g~--l~~~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i--~G~~~~~~~~  150 (500)
T 3nbx_X           80 TPEEVFGPLSIQALKDEGRYERLTSGY--LPEAEIVFLDEIWKAGPAILNTLLTAINERQFRN--GAHVEKIPMR  150 (500)
T ss_dssp             CHHHHHCCBC----------CBCCTTS--GGGCSEEEEESGGGCCHHHHHHHHHHHHSSEEEC--SSSEEECCCC
T ss_pred             CHHHhcCcccHHHHhhchhHHhhhccC--CCcceeeeHHhHhhhcHHHHHHHHHHHHHHhccC--CCCcCCcchh
Confidence            22222    111111122221 22332  2346789999999999999999999999999987  5655555543

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=99.47  E-value=3e-14  Score=134.36  Aligned_cols=126  Identities=23%  Similarity=0.260  Sum_probs=90.8

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc-----------
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG-----------  273 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~-----------  273 (345)
                      +.+++|++.++.++..++..+.            ..|+||+||||||||++++++++.+++..+..+..           
T Consensus        23 f~~i~G~~~~~~~l~~~~~~~~------------~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~   90 (350)
T 1g8p_A           23 FSAIVGQEDMKLALLLTAVDPG------------IGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPD   90 (350)
T ss_dssp             GGGSCSCHHHHHHHHHHHHCGG------------GCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCT
T ss_pred             chhccChHHHHHHHHHHhhCCC------------CceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccc
Confidence            3468999999998887776431            13899999999999999999999998644333211           


Q ss_pred             ----------------------cCcCCceEEEE-e---ecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         274 ----------------------TTTAGLTVSAL-R---ENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       274 ----------------------~~~~glt~~~~-~---~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                                            .+...+..... .   ..+.+...+|.+..|++|++||||+++++.+.++.|+++||+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~~~~~~Ll~~le~  170 (350)
T 1g8p_A           91 WATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQS  170 (350)
T ss_dssp             TCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHH
T ss_pred             hhhhhccccccCCCcccccCCCcchhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCHHHHHHHHHHHhc
Confidence                                  00001111100 0   012345667888889999999999999999999999999999


Q ss_pred             CEEEEeeCCeEEEec
Q psy1366         328 QTISVAKDKESKKVK  342 (345)
Q Consensus       328 ~~i~i~k~gi~~~l~  342 (345)
                      +.+.+...|.....+
T Consensus       171 ~~~~~~~~g~~~~~~  185 (350)
T 1g8p_A          171 GENVVERDGLSIRHP  185 (350)
T ss_dssp             SEEEECCTTCCEEEE
T ss_pred             CceEEEecceEEeeC
Confidence            988888877654443

>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=99.36  E-value=2.5e-13  Score=130.00  Aligned_cols=139  Identities=15%  Similarity=0.167  Sum_probs=82.4

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCcccCC------------------CCCceeeeeceeeeCCCCChHHHHHHHH
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRGGE------------------DGSKVRAESHLLLVGDPGTGKSEILKFA  259 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~------------------~~~~~r~~~~iLl~G~pGtGKs~l~~~i  259 (345)
                      ..+.+.+...|+|++.+|+++..++.....+...                  .+...+...|+||+||||||||++++++
T Consensus        13 ~~l~~~L~~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~l   92 (376)
T 1um8_A           13 KELKAVLDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTL   92 (376)
T ss_dssp             HHHHHHHHTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHH
T ss_pred             HHHHHHHhhHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHH
Confidence            4566667778999999999999887421110000                  0000123459999999999999999999


Q ss_pred             HhhCCCeEEEcCCcc-CcCCceEEEEeec--CeeEeeeceeeecCCcEEEEcCCCCCCHH--------------hHHHHH
Q psy1366         260 KRMSPRSVLTTGVGT-TTAGLTVSALREN--GEWHLEAGALVLSDGGVCCIDEFSSIKEH--------------DRTSIH  322 (345)
Q Consensus       260 ~~~~~~~~~~~~~~~-~~~glt~~~~~~~--~~~~~~~G~l~la~~gi~~IDEidk~~~~--------------~~~~l~  322 (345)
                      ++.++..++...... ...++.....+..  ..+....|.+..+++||+||||++++...              .+++|+
T Consensus        93 a~~l~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll  172 (376)
T 1um8_A           93 AKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALL  172 (376)
T ss_dssp             HHHTTCCEEEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHH
T ss_pred             HHHhCCCEEEecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHH
Confidence            999976654432211 1122211110000  00111134455678999999999999988              899999


Q ss_pred             HHHhCCEEEEeeCC
Q psy1366         323 EAMEQQTISVAKDK  336 (345)
Q Consensus       323 eame~~~i~i~k~g  336 (345)
                      .+||++.+++...|
T Consensus       173 ~~le~~~~~~~~~~  186 (376)
T 1um8_A          173 KIVEGSLVNIPPKG  186 (376)
T ss_dssp             HHHHCCEEC-----
T ss_pred             HHhhccceeccccc
Confidence            99999887654444

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.22  E-value=1.4e-11  Score=125.22  Aligned_cols=115  Identities=21%  Similarity=0.306  Sum_probs=85.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeE----EEcCCccC-----
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSV----LTTGVGTT-----  275 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~----~~~~~~~~-----  275 (345)
                      ..+++|++.++..+.+++..|              .++||+||||||||+|++.++.++++..    ...+....     
T Consensus        40 l~~i~G~~~~l~~l~~~i~~g--------------~~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~~~~~~~~~p~  105 (604)
T 3k1j_A           40 IDQVIGQEHAVEVIKTAANQK--------------RHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMPR  105 (604)
T ss_dssp             HHHCCSCHHHHHHHHHHHHTT--------------CCEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEECCTTCTTSCE
T ss_pred             cceEECchhhHhhccccccCC--------------CEEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEeCCcccccCCc
Confidence            356899999999999999877              4999999999999999999999986531    11111110     


Q ss_pred             -------------------------------------------------------------cCCceEEEEee----c---
Q psy1366         276 -------------------------------------------------------------TAGLTVSALRE----N---  287 (345)
Q Consensus       276 -------------------------------------------------------------~~glt~~~~~~----~---  287 (345)
                                                                                   ...|+..+..+    +   
T Consensus       106 i~~~p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g~~~  185 (604)
T 3k1j_A          106 IKTVPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSGGLG  185 (604)
T ss_dssp             EEEEETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC----CC
T ss_pred             EEEEecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcCCcc
Confidence                                                                         00011111000    0   


Q ss_pred             --CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         288 --GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       288 --~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                        ....+.+|.+..|++|++||||++.|++..|+.|+++||++++.+.
T Consensus       186 ~g~~~~i~~g~~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~  233 (604)
T 3k1j_A          186 TPAHERVEPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPIT  233 (604)
T ss_dssp             CCGGGGEECCHHHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCB
T ss_pred             ccccccccCceeeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEec
Confidence              0112578999999999999999999999999999999999998875

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.21  E-value=9.5e-12  Score=103.01  Aligned_cols=76  Identities=14%  Similarity=0.269  Sum_probs=57.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEH  316 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~  316 (345)
                      .||||+||||||||.+++++++.+++   ++.+........             ....|.+..|++|++||||+|.++++
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v~~~~~~~~~-------------~~~~~~~~~a~~g~l~ldei~~l~~~   91 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQFGRNAQGEFVYRELTPDNA-------------PQLNDFIALAQGGTLVLSHPEHLTRE   91 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHSSTTTTSCCEEEECCTTTS-------------SCHHHHHHHHTTSCEEEECGGGSCHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHhCCccCCCEEEECCCCCcc-------------hhhhcHHHHcCCcEEEEcChHHCCHH
Confidence            59999999999999999999998754   222211110000             12256677789999999999999999


Q ss_pred             hHHHHHHHHhCC
Q psy1366         317 DRTSIHEAMEQQ  328 (345)
Q Consensus       317 ~~~~l~eame~~  328 (345)
                      .|..|+++|+..
T Consensus        92 ~q~~Ll~~l~~~  103 (145)
T 3n70_A           92 QQYHLVQLQSQE  103 (145)
T ss_dssp             HHHHHHHHHHSS
T ss_pred             HHHHHHHHHhhc
Confidence            999999999654

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.19  E-value=2.3e-12  Score=106.61  Aligned_cols=75  Identities=13%  Similarity=0.273  Sum_probs=57.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRT  319 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~  319 (345)
                      .||||+|+||||||.+++++++.++ +++.....    .+..       .  ...|.+..+++|++||||++.++.+.|.
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~----~~~~-------~--~~~~~~~~a~~~~l~lDei~~l~~~~q~   93 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHKNGT-PWVSPARV----EYLI-------D--MPMELLQKAEGGVLYVGDIAQYSRNIQT   93 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCCTTS-CEECCSST----THHH-------H--CHHHHHHHTTTSEEEEEECTTCCHHHHH
T ss_pred             CcEEEECCCCccHHHHHHHHHHhCC-CeEEechh----hCCh-------H--hhhhHHHhCCCCeEEEeChHHCCHHHHH
Confidence            5999999999999999999998876 33222111    1100       0  1356677788999999999999999999


Q ss_pred             HHHHHHhCC
Q psy1366         320 SIHEAMEQQ  328 (345)
Q Consensus       320 ~l~eame~~  328 (345)
                      .|+++|+++
T Consensus        94 ~Ll~~l~~~  102 (143)
T 3co5_A           94 GITFIIGKA  102 (143)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhC
Confidence            999999875

>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=99.15  E-value=9.4e-13  Score=125.43  Aligned_cols=134  Identities=19%  Similarity=0.204  Sum_probs=80.1

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCcccC---CCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc-
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRGG---EDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT-  274 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~---~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~-  274 (345)
                      .+.+.+...|+|++.+|+.+..++.....+..   ..........|+||+||||||||++++++++.+...++...... 
T Consensus         8 ~l~~~l~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l   87 (363)
T 3hws_A            8 EIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTL   87 (363)
T ss_dssp             HHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             HHHHHHHhhccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHh
Confidence            34445556689999999998887742111000   00001123359999999999999999999999977665443211 


Q ss_pred             CcCCceEEEEee--cCeeEeeeceeeecCCcEEEEcCCCCCCHH--------------hHHHHHHHHhCCEEEE
Q psy1366         275 TTAGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDEFSSIKEH--------------DRTSIHEAMEQQTISV  332 (345)
Q Consensus       275 ~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEidk~~~~--------------~~~~l~eame~~~i~i  332 (345)
                      ...++.......  ...+...++.+..+++||+||||+|++...              .|+.|+++||...+.+
T Consensus        88 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~  161 (363)
T 3hws_A           88 TEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAV  161 (363)
T ss_dssp             TTCHHHHHHHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC----
T ss_pred             cccccccccHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeec
Confidence            111111000000  000111133345567899999999999876              8999999999555444

>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=99.15  E-value=4.4e-12  Score=117.20  Aligned_cols=132  Identities=20%  Similarity=0.289  Sum_probs=82.3

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCccc-CCCCC-ceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc-CCcc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRG-GEDGS-KVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT-GVGT  274 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~-~~~~~-~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~-~~~~  274 (345)
                      +.+.+++.+.|+|++.+++++..++.....+. ...+. ..+...++||+||||||||++++++++.++..++.. ....
T Consensus         7 ~~l~~~l~~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~   86 (310)
T 1ofh_A            7 REIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKF   86 (310)
T ss_dssp             HHHHHHHHTTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             HHHHHHHhhhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhc
Confidence            45777788899999999999988876521000 00000 001235999999999999999999999887654432 2111


Q ss_pred             CcCCceEE----EEeecCeeEeeeceeeec-CCcEEEEcCCCCCCHHh------------HHHHHHHHhCCEEE
Q psy1366         275 TTAGLTVS----ALRENGEWHLEAGALVLS-DGGVCCIDEFSSIKEHD------------RTSIHEAMEQQTIS  331 (345)
Q Consensus       275 ~~~glt~~----~~~~~~~~~~~~G~l~la-~~gi~~IDEidk~~~~~------------~~~l~eame~~~i~  331 (345)
                      ...++...    ..++  -+...+|.+..+ .++|++|||+|++..+.            ++.|+++||++.+.
T Consensus        87 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~  158 (310)
T 1ofh_A           87 TEVGYVGKEVDSIIRD--LTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVS  158 (310)
T ss_dssp             SSCCSGGGSTTHHHHH--HHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEE
T ss_pred             ccCCccCccHHHHHHH--HHHHhhHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEe
Confidence            11111000    0000  000012344443 47999999999998765            89999999987654

>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=99.08  E-value=1.7e-10  Score=120.06  Aligned_cols=125  Identities=15%  Similarity=0.179  Sum_probs=83.5

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHh----CCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLA----GGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG  273 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~----~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~  273 (345)
                      ..+.+.+...++|++.++..+..++.    |....       .+...|+||+||||||||.+++++++.++..+......
T Consensus       450 ~~l~~~l~~~v~g~~~~~~~l~~~i~~~~~g~~~~-------~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s  522 (758)
T 1r6b_X          450 KNLGDRLKMLVFGQDKAIEALTEAIKMARAGLGHE-------HKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMS  522 (758)
T ss_dssp             HHHHHHHTTTSCSCHHHHHHHHHHHHHHHTTCSCT-------TSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGG
T ss_pred             HHHHHHHHhhccCHHHHHHHHHHHHHHHhcccCCC-------CCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEech
Confidence            44566788899999887766555443    22111       12224899999999999999999999987655433221


Q ss_pred             cCc-----CCceEEEEeecCeeE------eeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         274 TTT-----AGLTVSALRENGEWH------LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       274 ~~~-----~glt~~~~~~~~~~~------~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                      ...     ..+....   .+ |.      .-.+++..++++|+||||+++++++.++.|+++||++.++..
T Consensus       523 ~~~~~~~~~~l~g~~---~g-~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~  589 (758)
T 1r6b_X          523 EYMERHTVSRLIGAP---PG-YVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDN  589 (758)
T ss_dssp             GCSSSSCCSSSCCCC---SC-SHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEET
T ss_pred             hhcchhhHhhhcCCC---CC-CcCccccchHHHHHHhCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcC
Confidence            111     1111000   00 10      013445567789999999999999999999999999988753

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.06  E-value=7.8e-11  Score=110.63  Aligned_cols=110  Identities=24%  Similarity=0.316  Sum_probs=74.4

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSAL  284 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~  284 (345)
                      ..+++|++.++..+...+.......       ....|+||+||||||||++++++++.+...++........        
T Consensus        28 ~~~iiG~~~~~~~l~~~l~~~~~~~-------~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~--------   92 (338)
T 3pfi_A           28 FDGYIGQESIKKNLNVFIAAAKKRN-------ECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIE--------   92 (338)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHTT-------SCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCC--------
T ss_pred             HHHhCChHHHHHHHHHHHHHHHhcC-------CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhcc--------
Confidence            4578999988888777665421000       1124899999999999999999999887654332111100        


Q ss_pred             eecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         285 RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       285 ~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                       ..+.  +....-..+++|++||||++.++.+.+..|+.+|+++.+.+
T Consensus        93 -~~~~--~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~  137 (338)
T 3pfi_A           93 -KSGD--LAAILTNLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDI  137 (338)
T ss_dssp             -SHHH--HHHHHHTCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC--
T ss_pred             -chhH--HHHHHHhccCCCEEEEechhhcCHHHHHHHHHHHHhccchh
Confidence             0000  00111124689999999999999999999999999987654

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.05  E-value=3.1e-11  Score=111.77  Aligned_cols=130  Identities=13%  Similarity=0.089  Sum_probs=80.4

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe---EEEcCCccC
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS---VLTTGVGTT  275 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~~~~~~~  275 (345)
                      .+.+.+...++|++.+++.+..++..+.... .+  ..+...++||+||||||||++++++++.+.+.   +........
T Consensus        10 ~l~~~l~~~i~G~~~~~~~l~~~i~~~~~~~-~~--~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~   86 (311)
T 4fcw_A           10 RLEEELHKRVVGQDEAIRAVADAIRRARAGL-KD--PNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEY   86 (311)
T ss_dssp             THHHHHHTTCCSCHHHHHHHHHHHHHHHHTC-SC--TTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGC
T ss_pred             HHHHHHhhhcCCHHHHHHHHHHHHHHHhcCC-CC--CCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccc
Confidence            4555667788999988888877776541100 00  01223489999999999999999999987432   222211111


Q ss_pred             cCC-----ceEEEEeecC--eeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         276 TAG-----LTVSALRENG--EWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       276 ~~g-----lt~~~~~~~~--~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                      ...     +........+  ....-.+++..+.+|+++|||+++++++.++.|+++||++.+.
T Consensus        87 ~~~~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~  149 (311)
T 4fcw_A           87 MEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQMLDDGRLT  149 (311)
T ss_dssp             CSTTHHHHHHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEE
T ss_pred             cccccHHHhcCCCCccccccccchHHHHHHhCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEE
Confidence            000     0000000000  0001123344456799999999999999999999999999876

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.05  E-value=3.7e-10  Score=105.03  Aligned_cols=90  Identities=24%  Similarity=0.353  Sum_probs=61.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe----EEEcCCccCc----CCceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS----VLTTGVGTTT----AGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~----~~~~~~~~~~----~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .+|||+|+||||||.+++++++.+++.    +++.......    ..|... .+.  .+......|.+..|++|++||||
T Consensus        26 ~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~~lfg~-~~g~~tg~~~~~~g~~~~a~~g~L~LDE  104 (304)
T 1ojl_A           26 ATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLESELFGH-EKGAFTGADKRREGRFVEADGGTLFLDE  104 (304)
T ss_dssp             SCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHHHHTCC-CSSCCC---CCCCCHHHHHTTSEEEEES
T ss_pred             CcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHHHhcCc-cccccCchhhhhcCHHHhcCCCEEEEec
Confidence            599999999999999999999987642    2222111000    000000 000  01112346778889999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i  330 (345)
                      ++.|+.+.|..|+.+|+++.+
T Consensus       105 i~~l~~~~q~~Ll~~l~~~~~  125 (304)
T 1ojl_A          105 IGDISPLMQVRLLRAIQEREV  125 (304)
T ss_dssp             CTTCCHHHHHHHHHHHHSSBC
T ss_pred             cccCCHHHHHHHHHHHhcCEe
Confidence            999999999999999999863

>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=99.04  E-value=1.6e-10  Score=104.80  Aligned_cols=89  Identities=21%  Similarity=0.325  Sum_probs=60.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC----eEEEcCCccCc-------CCceEEEEeecCeeEeeeceeeecCCcEEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR----SVLTTGVGTTT-------AGLTVSALRENGEWHLEAGALVLSDGGVCCID  308 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~~~~~~-------~glt~~~~~~~~~~~~~~G~l~la~~gi~~ID  308 (345)
                      .++||+|+||||||.+++++++.+++    .+++.......       .|......  .+......|.+..+++|++|||
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~~~~~~l~g~~~~~~--~g~~~~~~~~l~~a~~~~l~lD  107 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGHEAGAF--TGAQKRHPGRFERADGGTLFLD  107 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHHHHHHHHHCCC-----------CCCCHHHHTTTSEEEEE
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChhHHHHHhcCCccccc--ccccccccchhhhcCCcEEEEe
Confidence            49999999999999999999998864    23332211100       01000000  0111123567777889999999


Q ss_pred             CCCCCCHHhHHHHHHHHhCCEE
Q psy1366         309 EFSSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       309 Eidk~~~~~~~~l~eame~~~i  330 (345)
                      |++.++.+.|..|+.+|+++++
T Consensus       108 Ei~~l~~~~q~~Ll~~l~~~~~  129 (265)
T 2bjv_A          108 ELATAPMMVQEKLLRVIEYGEL  129 (265)
T ss_dssp             SGGGSCHHHHHHHHHHHHHCEE
T ss_pred             chHhcCHHHHHHHHHHHHhCCe
Confidence            9999999999999999998864

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.00  E-value=6.4e-11  Score=109.65  Aligned_cols=124  Identities=22%  Similarity=0.198  Sum_probs=74.2

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCC-cc-cCCCCC-ceeeeeceeeeCCCCChHHHHHHHHHhhCCC-------e-
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGV-GR-GGEDGS-KVRAESHLLLVGDPGTGKSEILKFAKRMSPR-------S-  266 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~-~~-~~~~~~-~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~-------~-  266 (345)
                      ..+.+.+..+|+|++.+|..+.-.+.... .. ....|. ..+...|+||+||||||||++++++++.+..       . 
T Consensus        23 ~~~~~~l~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~  102 (309)
T 3syl_A           23 KEVLEELDRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHL  102 (309)
T ss_dssp             HHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCE
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcE
Confidence            45666777789999999988764432100 00 000000 0122358999999999999999999887632       1 


Q ss_pred             EEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCC---------CHHhHHHHHHHHhCC
Q psy1366         267 VLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSI---------KEHDRTSIHEAMEQQ  328 (345)
Q Consensus       267 ~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~---------~~~~~~~l~eame~~  328 (345)
                      ++++.. .....+.      +.......+.+..+.+++++|||+|.+         +...+..|+..|+++
T Consensus       103 ~~~~~~-~l~~~~~------g~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~  166 (309)
T 3syl_A          103 VSVTRD-DLVGQYI------GHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENN  166 (309)
T ss_dssp             EEECGG-GTCCSST------TCHHHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHC
T ss_pred             EEEcHH-Hhhhhcc------cccHHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcC
Confidence            222210 0000000      000000123445567899999999966         888899999999976

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.93  E-value=1.3e-10  Score=113.74  Aligned_cols=113  Identities=19%  Similarity=0.235  Sum_probs=71.3

Q ss_pred             ccCcccccchHHH---HHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCc
Q psy1366         203 SICPAIYGLYLVK---LCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGL  279 (345)
Q Consensus       203 s~~p~i~G~~~vk---~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~gl  279 (345)
                      .-..+++|++.+.   ..+..++..+..            .++||+||||||||++++.+++.+...+.......  .|.
T Consensus        23 ~~l~~ivGq~~~~~~~~~L~~~i~~~~~------------~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~--~~~   88 (447)
T 3pvs_A           23 ENLAQYIGQQHLLAAGKPLPRAIEAGHL------------HSMILWGPPGTGKTTLAEVIARYANADVERISAVT--SGV   88 (447)
T ss_dssp             CSTTTCCSCHHHHSTTSHHHHHHHHTCC------------CEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTT--CCH
T ss_pred             CCHHHhCCcHHHHhchHHHHHHHHcCCC------------cEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEecc--CCH
Confidence            3445799999888   677777776621            38999999999999999999999887654332111  110


Q ss_pred             eEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         280 TVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       280 t~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                        ...++.  +.........+.++++||||++.++...|+.|+..||++++.+-
T Consensus        89 --~~ir~~--~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~~v~lI  138 (447)
T 3pvs_A           89 --KEIREA--IERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDGTITFI  138 (447)
T ss_dssp             --HHHHHH--HHHHHHHHHTTCCEEEEEETTTCC------CCHHHHHTTSCEEE
T ss_pred             --HHHHHH--HHHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcCceEEE
Confidence              000100  00000001134679999999999999999999999999887763

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.91  E-value=4.1e-10  Score=117.27  Aligned_cols=121  Identities=12%  Similarity=0.148  Sum_probs=75.8

Q ss_pred             hccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcCC
Q psy1366         202 ASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTAG  278 (345)
Q Consensus       202 ~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~g  278 (345)
                      +.+...++|++.++..+..++....... .+  ..+..-++||+||||||||.+++++++.+.+   ++...........
T Consensus       487 ~~l~~~viGq~~a~~~l~~~i~~~~~~~-~~--~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~  563 (758)
T 3pxi_A          487 NILHSRVIGQDEAVVAVAKAVRRARAGL-KD--PKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEK  563 (758)
T ss_dssp             HHHHTTSCSCHHHHHHHHHHHHHHTTTC-SC--TTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSS
T ss_pred             HHHhCcCcChHHHHHHHHHHHHHHHccc-CC--CCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccc
Confidence            3456679999888877766665321100 00  0122237999999999999999999998632   2221111111100


Q ss_pred             ceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         279 LTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       279 lt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                      ...+    .+.+   .+++..+.++|+||||+++++++.++.|+++||+++++.
T Consensus       564 ~~~~----~~~l---~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~  610 (758)
T 3pxi_A          564 HSTS----GGQL---TEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTD  610 (758)
T ss_dssp             CCCC-------C---HHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-
T ss_pred             cccc----cchh---hHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEc
Confidence            0000    1111   233445568999999999999999999999999988654

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.90  E-value=3.4e-09  Score=98.55  Aligned_cols=108  Identities=25%  Similarity=0.367  Sum_probs=72.2

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEE-cCCccCcCCceEEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLT-TGVGTTTAGLTVSA  283 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~-~~~~~~~~glt~~~  283 (345)
                      +.+++|++.++..+..++.......       +...++||+||||||||++++++++.++..+.. .+......      
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~~~-------~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~------   77 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKARK-------EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP------   77 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHHHC-------SCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCSH------
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHccC-------CCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCCh------
Confidence            3568898877776655543210000       112489999999999999999999877655432 22111000      


Q ss_pred             EeecCeeEeeeceee--ecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         284 LRENGEWHLEAGALV--LSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       284 ~~~~~~~~~~~G~l~--la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                          +++   .+.+.  +++++++||||++.++...+..|+.+|+++.+.+
T Consensus        78 ----~~l---~~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~  121 (324)
T 1hqc_A           78 ----GDL---AAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDI  121 (324)
T ss_dssp             ----HHH---HHHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEE
T ss_pred             ----HHH---HHHHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHH
Confidence                000   11121  4678999999999999999999999999987654

>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=98.84  E-value=3.2e-09  Score=103.30  Aligned_cols=72  Identities=19%  Similarity=0.296  Sum_probs=51.1

Q ss_pred             HHHHhccCcccccchHHHHHHHHHHhCCCccc-CCCCCce-eeeeceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         198 NHILASICPAIYGLYLVKLCLAVVLAGGVGRG-GEDGSKV-RAESHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       198 ~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~-~~~~~~~-r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      ..+.+.+...|.|++.+|+++..++.....+. ...+... ....|+||+||||||||++++++++.++..++.
T Consensus         7 ~~i~~~Ld~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~   80 (444)
T 1g41_A            7 REIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIK   80 (444)
T ss_dssp             HHHHHHHHTTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEE
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCcee
Confidence            35667778889999999999998886531110 0011100 122489999999999999999999998875543

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=98.79  E-value=1.8e-09  Score=108.31  Aligned_cols=119  Identities=18%  Similarity=0.227  Sum_probs=66.7

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhC-CCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc--C
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAG-GVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT--T  275 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~-g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~--~  275 (345)
                      ...+.+..+++|++.+|+.+.-.+.- .....      .+ ..++||+||||||||+|+++++..+++.........  .
T Consensus        74 ~~~~~l~~di~G~~~vk~~i~~~~~l~~~~~~------~~-g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~  146 (543)
T 3m6a_A           74 EAGRLLDEEHHGLEKVKERILEYLAVQKLTKS------LK-GPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRD  146 (543)
T ss_dssp             TGGGTHHHHCSSCHHHHHHHHHHHHHHHHSSS------CC-SCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC---
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHhccc------CC-CCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccch
Confidence            34455677899999998877433221 00000      01 148999999999999999999999877554332211  1


Q ss_pred             cCCceEEEEeecCee-Eeeecee----ee--cCCcEEEEcCCCCCCHHh----HHHHHHHHhCC
Q psy1366         276 TAGLTVSALRENGEW-HLEAGAL----VL--SDGGVCCIDEFSSIKEHD----RTSIHEAMEQQ  328 (345)
Q Consensus       276 ~~glt~~~~~~~~~~-~~~~G~l----~l--a~~gi~~IDEidk~~~~~----~~~l~eame~~  328 (345)
                      ...+.... +   .| ...+|.+    ..  ..++|+||||+|++..+.    +++|+++|+..
T Consensus       147 ~~~~~g~~-~---~~ig~~~~~~~~~~~~a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~  206 (543)
T 3m6a_A          147 ESEIRGHR-R---TYVGAMPGRIIQGMKKAGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPE  206 (543)
T ss_dssp             ---------------------CHHHHHHTTCSSSEEEEEEESSSCC---------CCGGGTCTT
T ss_pred             hhhhhhHH-H---HHhccCchHHHHHHHHhhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhh
Confidence            11111100 0   01 0112222    12  267899999999999884    48899999753

>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=98.78  E-value=1.4e-09  Score=103.75  Aligned_cols=91  Identities=21%  Similarity=0.391  Sum_probs=65.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe--EEEcCCccCcCC-----ceEEEEee--cCeeEeeeceeeecCCcEEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS--VLTTGVGTTTAG-----LTVSALRE--NGEWHLEAGALVLSDGGVCCIDEF  310 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~--~~~~~~~~~~~g-----lt~~~~~~--~~~~~~~~G~l~la~~gi~~IDEi  310 (345)
                      .++|+.|++||||+.++++++..+++.  +......+....     |+... +.  +|.....+|.+..|++|++||||+
T Consensus       153 ~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~lfg~~-~g~~tga~~~~~g~~~~a~~gtlfldei  231 (368)
T 3dzd_A          153 APVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESELFGHE-KGAFTGALTRKKGKLELADQGTLFLDEV  231 (368)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHHHHEEC-SCSSSSCCCCEECHHHHTTTSEEEEETG
T ss_pred             hhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHHhcCcc-ccccCCcccccCChHhhcCCCeEEecCh
Confidence            589999999999999999999988764  221111111111     11110 10  121223578889999999999999


Q ss_pred             CCCCHHhHHHHHHHHhCCEEE
Q psy1366         311 SSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       311 dk~~~~~~~~l~eame~~~i~  331 (345)
                      +.|+...|..|+.+||++++.
T Consensus       232 ~~l~~~~Q~~Ll~~l~~~~~~  252 (368)
T 3dzd_A          232 GELDQRVQAKLLRVLETGSFT  252 (368)
T ss_dssp             GGSCHHHHHHHHHHHHHSEEC
T ss_pred             hhCCHHHHHHHHHHHHhCCcc
Confidence            999999999999999999865

>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=98.75  E-value=1.4e-09  Score=104.60  Aligned_cols=91  Identities=20%  Similarity=0.371  Sum_probs=64.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCccCcC-----CceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGTTTA-----GLTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~~~~-----glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .++|+.|++||||+.++++++..+++   ++......+...     .|+.. .+.  +|.....+|.+..|++|++||||
T Consensus       161 ~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~~~elfg~-~~g~~tga~~~~~g~~~~a~~gtlflde  239 (387)
T 1ny5_A          161 CPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGY-EKGAFTGAVSSKEGFFELADGGTLFLDE  239 (387)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCB-CTTSSTTCCSCBCCHHHHTTTSEEEEES
T ss_pred             CCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHHHHhcCC-CCCCCCCcccccCCceeeCCCcEEEEcC
Confidence            58999999999999999999999875   222211111100     01100 000  11122357888999999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i~  331 (345)
                      ++.|+.+.|..|+++|+++++.
T Consensus       240 i~~l~~~~q~~Ll~~l~~~~~~  261 (387)
T 1ny5_A          240 IGELSLEAQAKLLRVIESGKFY  261 (387)
T ss_dssp             GGGCCHHHHHHHHHHHHHSEEC
T ss_pred             hhhCCHHHHHHHHHHHhcCcEE
Confidence            9999999999999999998865

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.68  E-value=5e-09  Score=100.54  Aligned_cols=115  Identities=21%  Similarity=0.201  Sum_probs=66.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCc-ccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVG-RGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSA  283 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~-~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~  283 (345)
                      ..+|+|++.+++.+...+..... .....+. .....++||+||||||||.+++++++.+...++......    +....
T Consensus       114 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~----l~~~~  188 (389)
T 3vfd_A          114 FDDIAGQDLAKQALQEIVILPSLRPELFTGL-RAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAAS----LTSKY  188 (389)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGG-GCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCC----C----
T ss_pred             hHHhCCHHHHHHHHHHHHHHhccCHHHhccc-CCCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHH----hhccc
Confidence            34789999998888776632100 0000000 012359999999999999999999999887765443221    11111


Q ss_pred             EeecCeeEeeeceee---ecCCcEEEEcCCCCC-----------CHHhHHHHHHHHh
Q psy1366         284 LRENGEWHLEAGALV---LSDGGVCCIDEFSSI-----------KEHDRTSIHEAME  326 (345)
Q Consensus       284 ~~~~~~~~~~~G~l~---la~~gi~~IDEidk~-----------~~~~~~~l~eame  326 (345)
                      ..+...  .....+.   ....+|+||||+|.+           ....+..|+..|+
T Consensus       189 ~g~~~~--~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~  243 (389)
T 3vfd_A          189 VGEGEK--LVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFD  243 (389)
T ss_dssp             ---CHH--HHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHH
T ss_pred             cchHHH--HHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhh
Confidence            000000  0011111   123589999999987           3455667777776

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.68  E-value=5.1e-09  Score=110.37  Aligned_cols=121  Identities=15%  Similarity=0.128  Sum_probs=73.0

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC---e-EEEcCCccC----c
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR---S-VLTTGVGTT----T  276 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~---~-~~~~~~~~~----~  276 (345)
                      ...|+|++.+...+..++...... ..+  ..+...++||+||||||||.+++++++.+.+   . +++....-.    .
T Consensus       557 ~~~viG~~~a~~~l~~~i~~~~~g-~~~--~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~~  633 (854)
T 1qvr_A          557 HKRVVGQDEAIRAVADAIRRARAG-LKD--PNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV  633 (854)
T ss_dssp             HHHSCSCHHHHHHHHHHHHHHGGG-CSC--SSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGG
T ss_pred             hcccCCcHHHHHHHHHHHHHHhcc-cCC--CCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhHH
Confidence            346899987777666555432100 000  0122248999999999999999999998733   2 233221100    0


Q ss_pred             CCceEE---EE--eecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEE
Q psy1366         277 AGLTVS---AL--RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       277 ~glt~~---~~--~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~  331 (345)
                      ..+..+   ..  ...+.+   .+++..+.++|+||||+++++++.++.|+++|+++.++
T Consensus       634 s~l~g~~~~~~G~~~~g~l---~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~  690 (854)
T 1qvr_A          634 SRLIGAPPGYVGYEEGGQL---TEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLT  690 (854)
T ss_dssp             GGC--------------CH---HHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEEC
T ss_pred             HHHcCCCCCCcCccccchH---HHHHHhCCCeEEEEecccccCHHHHHHHHHHhccCceE
Confidence            111110   00  000111   22333456799999999999999999999999999865

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.65  E-value=7.6e-09  Score=93.10  Aligned_cols=64  Identities=19%  Similarity=0.135  Sum_probs=39.8

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      +.+|+|++.+|+.+.-.+........-.....+...++||+||||||||++++++++.+...++
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~   68 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFL   68 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEE
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            3468899888877754332110000000001123358999999999999999999998766544

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=98.61  E-value=2.3e-09  Score=100.34  Aligned_cols=113  Identities=19%  Similarity=0.189  Sum_probs=64.9

Q ss_pred             cccccchHHHHHHHHHHhCCCc--ccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc---cCcCCce
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVG--RGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG---TTTAGLT  280 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~--~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~---~~~~glt  280 (345)
                      .+|.|++.+|+.+..++.....  .....  ..+...++||+||||||||++++++++.++..++.....   +...|-+
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~--~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~   95 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKG--NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGES   95 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCT--TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTTTGGGH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhc--CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhcccchH
Confidence            4689999998888776631100  00001  113345899999999999999999999887665433211   0001100


Q ss_pred             EEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCH-----------HhHHHHHHHHh
Q psy1366         281 VSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKE-----------HDRTSIHEAME  326 (345)
Q Consensus       281 ~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~-----------~~~~~l~eame  326 (345)
                      ....+   ..   -........+|+||||+|.+..           ..+..|+..|+
T Consensus        96 ~~~~~---~~---f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~  146 (322)
T 3eie_A           96 EKLVK---QL---FAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMN  146 (322)
T ss_dssp             HHHHH---HH---HHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHG
T ss_pred             HHHHH---HH---HHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhc
Confidence            00000   00   0000112458999999998854           23567777775

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.60  E-value=1.1e-08  Score=95.84  Aligned_cols=60  Identities=25%  Similarity=0.213  Sum_probs=39.8

Q ss_pred             cccccchHHHHHHHHHHhCCC--cccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC-CCeE
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGV--GRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS-PRSV  267 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~--~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~-~~~~  267 (345)
                      .+|.|++.+|+.+.-++.-..  +.... +. .+...++||+||||||||+|++++++.+ ...+
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~-~~-~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~   74 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFT-GK-RTPWRGILLFGPPGTGKSYLAKAVATEANNSTF   74 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSC-TT-CCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEE
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHh-CC-CCCCceEEEECCCCccHHHHHHHHHHHcCCCcE
Confidence            468899888887765543110  00001 11 1223489999999999999999999988 4433

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.60  E-value=8.9e-09  Score=94.71  Aligned_cols=118  Identities=17%  Similarity=0.136  Sum_probs=65.7

Q ss_pred             CcccccchHHHHHHHHHHhCCCc-ccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVG-RGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSA  283 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~-~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~  283 (345)
                      ..+|.|++.+|+.+..++..... .....+. .....++||+||||||||++++++++.+...++.............  
T Consensus        20 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~-~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~~~~--   96 (297)
T 3b9p_A           20 WTDIAGQDVAKQALQEMVILPSVRPELFTGL-RAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVG--   96 (297)
T ss_dssp             GGGSCCCHHHHHHHHHHTHHHHHCGGGSCGG-GCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSSSCS--
T ss_pred             HHHhCChHHHHHHHHHHHHhhhhCHHHHhcC-CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhcccc--
Confidence            35789999999888766533110 0000000 0123589999999999999999999998765543221111100000  


Q ss_pred             EeecCe-eEeeeceeeecCCcEEEEcCCCCCC-----------HHhHHHHHHHHhC
Q psy1366         284 LRENGE-WHLEAGALVLSDGGVCCIDEFSSIK-----------EHDRTSIHEAMEQ  327 (345)
Q Consensus       284 ~~~~~~-~~~~~G~l~la~~gi~~IDEidk~~-----------~~~~~~l~eame~  327 (345)
                        +... ....-........++++|||+|.+.           ...+..|+..|+.
T Consensus        97 --~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~  150 (297)
T 3b9p_A           97 --DGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDG  150 (297)
T ss_dssp             --CHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHH
T ss_pred             --hHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhc
Confidence              0000 0000001112356899999998873           3445567777764

>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=98.60  E-value=6.6e-09  Score=97.57  Aligned_cols=109  Identities=17%  Similarity=0.191  Sum_probs=69.9

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC-------eEEEcCCccCc
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR-------SVLTTGVGTTT  276 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~-------~~~~~~~~~~~  276 (345)
                      -..+++|++.++..+..++..|..            .|+||+||||+|||++++.+++.+..       .+....  +..
T Consensus        35 ~~~~i~g~~~~~~~l~~~l~~~~~------------~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~--~~~  100 (353)
T 1sxj_D           35 NLDEVTAQDHAVTVLKKTLKSANL------------PHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA--SDE  100 (353)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTTC------------CCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS--SSC
T ss_pred             CHHHhhCCHHHHHHHHHHHhcCCC------------CEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcc--ccc
Confidence            345789999999988888876621            27999999999999999999987531       122211  111


Q ss_pred             CCceEEEEeec-CeeEee---------eceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         277 AGLTVSALREN-GEWHLE---------AGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       277 ~glt~~~~~~~-~~~~~~---------~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      .+..  ..++. ..+...         .+....++.++++|||++.++...+++|+++||+.
T Consensus       101 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~  160 (353)
T 1sxj_D          101 RGIS--IVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETY  160 (353)
T ss_dssp             CCHH--HHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHT
T ss_pred             cchH--HHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhc
Confidence            1100  00000 000000         00111245679999999999999999999999864

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.59  E-value=2.1e-08  Score=98.03  Aligned_cols=118  Identities=21%  Similarity=0.142  Sum_probs=63.2

Q ss_pred             CcccccchHHHHHHHHHHhCCCcc-cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC-CCeEEEcCCccCcCCceEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS-PRSVLTTGVGTTTAGLTVS  282 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~-~~~~~~~~~~~~~~glt~~  282 (345)
                      ..+|.|++.+|..+..++...... ....+ ..+...++||+||||||||+|+++++..+ ...++.....    .+...
T Consensus       133 ~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~----~l~~~  207 (444)
T 2zan_A          133 WSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSS----DLVSK  207 (444)
T ss_dssp             GGGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC---------
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHH----HHHhh
Confidence            357899999998887665311000 00000 11223589999999999999999999988 4444322111    11111


Q ss_pred             EEeecCe-eEeeeceeeecCCcEEEEcCCCCCCH-----------HhHHHHHHHHhC
Q psy1366         283 ALRENGE-WHLEAGALVLSDGGVCCIDEFSSIKE-----------HDRTSIHEAMEQ  327 (345)
Q Consensus       283 ~~~~~~~-~~~~~G~l~la~~gi~~IDEidk~~~-----------~~~~~l~eame~  327 (345)
                      ...+... ....-........+|+||||+|.+..           ..++.|+..|+.
T Consensus       208 ~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~  264 (444)
T 2zan_A          208 WLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQG  264 (444)
T ss_dssp             ----CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTC
T ss_pred             hcchHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhC
Confidence            0000000 00000001123468999999999832           345566666653

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.59  E-value=5.6e-09  Score=99.11  Aligned_cols=114  Identities=19%  Similarity=0.200  Sum_probs=65.9

Q ss_pred             CcccccchHHHHHHHHHHhCCC--cccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGV--GRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVS  282 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~--~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~  282 (345)
                      ..+|.|++.+|+.+..++....  +.....  ..+...++||+||||||||++++++++.+...++..........+.. 
T Consensus        50 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~--~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~g-  126 (355)
T 2qp9_X           50 WEDVAGLEGAKEALKEAVILPVKFPHLFKG--NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMG-  126 (355)
T ss_dssp             GGGSCCGGGHHHHHHHHTHHHHHCGGGGCS--SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC---
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHhc--CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhcc-
Confidence            4579999999888876653210  000011  11333589999999999999999999988766543321110000000 


Q ss_pred             EEeecCeeEeeeceeee---cCCcEEEEcCCCCCCHH-----------hHHHHHHHHh
Q psy1366         283 ALRENGEWHLEAGALVL---SDGGVCCIDEFSSIKEH-----------DRTSIHEAME  326 (345)
Q Consensus       283 ~~~~~~~~~~~~G~l~l---a~~gi~~IDEidk~~~~-----------~~~~l~eame  326 (345)
                         +...  .....+..   ...+|+||||+|.+...           .++.|+..|+
T Consensus       127 ---~~~~--~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~  179 (355)
T 2qp9_X          127 ---ESEK--LVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMN  179 (355)
T ss_dssp             ----CHH--HHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHH
T ss_pred             ---hHHH--HHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhh
Confidence               0000  00011111   25789999999998743           3567777775

>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=98.59  E-value=7.4e-09  Score=95.98  Aligned_cols=117  Identities=18%  Similarity=0.210  Sum_probs=73.7

Q ss_pred             ChhhHHHHHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC------
Q psy1366         192 DGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR------  265 (345)
Q Consensus       192 ~~~~~~~~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~------  265 (345)
                      .||.  +.....-+.+++|++.++..+.-.+..|..            .|+||+||||+|||++++.+++.+..      
T Consensus        13 ~~~~--~k~~p~~~~~~~g~~~~~~~l~~~l~~~~~------------~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~   78 (327)
T 1iqp_A           13 KPWV--EKYRPQRLDDIVGQEHIVKRLKHYVKTGSM------------PHLLFAGPPGVGKTTAALALARELFGENWRHN   78 (327)
T ss_dssp             SCHH--HHTCCCSTTTCCSCHHHHHHHHHHHHHTCC------------CEEEEESCTTSSHHHHHHHHHHHHHGGGHHHH
T ss_pred             Cchh--hccCCCCHHHhhCCHHHHHHHHHHHHcCCC------------CeEEEECcCCCCHHHHHHHHHHHhcCCcccCc
Confidence            4553  333333456799999999888877766511            37999999999999999999987421      


Q ss_pred             eEEEcCCccCcCCceEEEEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         266 SVLTTGVGTTTAGLTVSALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       266 ~~~~~~~~~~~~glt~~~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .+...+.  ...+..  ..++. .++ ...+.+..++.++++|||++.++.+.+++|+.+||+
T Consensus        79 ~~~~~~~--~~~~~~--~~~~~~~~~-~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~  136 (327)
T 1iqp_A           79 FLELNAS--DERGIN--VIREKVKEF-ARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEM  136 (327)
T ss_dssp             EEEEETT--CHHHHH--TTHHHHHHH-HHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHH
T ss_pred             eEEeecc--ccCchH--HHHHHHHHH-HhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHh
Confidence            1111111  000000  00000 000 011222225678999999999999999999999986

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.58  E-value=1.5e-08  Score=96.01  Aligned_cols=51  Identities=22%  Similarity=0.287  Sum_probs=37.5

Q ss_pred             CcccccchHHHHHHH---HHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         205 CPAIYGLYLVKLCLA---VVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~---l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      +.+++|++.++.++.   -.+..|..          ...++||+||||||||++++++++.+..
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~----------~~~~vLl~GppGtGKT~la~~la~~l~~   96 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKI----------AGRAVLIAGQPGTGKTAIAMGMAQALGP   96 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCC----------TTCEEEEEESTTSSHHHHHHHHHHHHCS
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCC----------CCCEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            457899998887743   23333311          1138999999999999999999988764

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.58  E-value=1.9e-08  Score=93.78  Aligned_cols=106  Identities=18%  Similarity=0.151  Sum_probs=69.3

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEE
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSA  283 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~  283 (345)
                      -..++.|++.++..+.-++..|..           ...+|+.||||||||++++++++.+...++.....  ..+.  ..
T Consensus        24 ~~~~ivg~~~~~~~l~~~l~~~~~-----------~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~--~~~~--~~   88 (324)
T 3u61_B           24 TIDECILPAFDKETFKSITSKGKI-----------PHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGS--DCKI--DF   88 (324)
T ss_dssp             STTTSCCCHHHHHHHHHHHHTTCC-----------CSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETT--TCCH--HH
T ss_pred             CHHHHhCcHHHHHHHHHHHHcCCC-----------CeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEccc--ccCH--HH
Confidence            345789999999888888876521           12467777899999999999999886544322111  1110  00


Q ss_pred             Eeec-CeeEeeecee-eecCCcEEEEcCCCCCC-HHhHHHHHHHHhC
Q psy1366         284 LREN-GEWHLEAGAL-VLSDGGVCCIDEFSSIK-EHDRTSIHEAMEQ  327 (345)
Q Consensus       284 ~~~~-~~~~~~~G~l-~la~~gi~~IDEidk~~-~~~~~~l~eame~  327 (345)
                      .++. .++   +... ...+.++++|||+|.+. .+.+++|+..||+
T Consensus        89 i~~~~~~~---~~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~  132 (324)
T 3u61_B           89 VRGPLTNF---ASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEA  132 (324)
T ss_dssp             HHTHHHHH---HHBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHH---HhhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHh
Confidence            0100 000   0000 11257899999999999 9999999999986

>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=98.57  E-value=8.5e-09  Score=97.01  Aligned_cols=109  Identities=17%  Similarity=0.284  Sum_probs=69.8

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCe----EEEcCCccCcCCc
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRS----VLTTGVGTTTAGL  279 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~----~~~~~~~~~~~gl  279 (345)
                      -..+++|++.++..+..++..|..            .|+||+||||+|||++++.+++.+...    .+.....+...|.
T Consensus        23 ~~~~~~g~~~~~~~L~~~i~~g~~------------~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~   90 (340)
T 1sxj_C           23 TLDEVYGQNEVITTVRKFVDEGKL------------PHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGI   90 (340)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTCC------------CCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSH
T ss_pred             cHHHhcCcHHHHHHHHHHHhcCCC------------ceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccH
Confidence            345688999999998888876621            379999999999999999999875321    0111111111111


Q ss_pred             eEEEEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         280 TVSALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       280 t~~~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .  ..++. +.+. ..+....++..+++|||+|.|+.+.+++|+..||+
T Consensus        91 ~--~ir~~i~~~~-~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~  136 (340)
T 1sxj_C           91 D--VVRNQIKDFA-STRQIFSKGFKLIILDEADAMTNAAQNALRRVIER  136 (340)
T ss_dssp             H--HHHTHHHHHH-HBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHH
T ss_pred             H--HHHHHHHHHH-hhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhc
Confidence            0  00100 0110 00111223468999999999999999999999986

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.56  E-value=8.9e-09  Score=94.07  Aligned_cols=64  Identities=20%  Similarity=0.188  Sum_probs=39.6

Q ss_pred             cccccchHHHHHHHHHHhCCCcc-cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .+|.|++.+++.+...+...... ..-.....+...++||+||||||||++++++++.+...++.
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~   81 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIR   81 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEE
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEE
Confidence            45778877777765554221000 00000000122489999999999999999999998776543

>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=98.55  E-value=2e-08  Score=87.06  Aligned_cols=107  Identities=20%  Similarity=0.208  Sum_probs=66.8

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC------eEEEcCCccCcC
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR------SVLTTGVGTTTA  277 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~------~~~~~~~~~~~~  277 (345)
                      ...+++|++.++..+...+..+..            .|+||+|+||+|||++++.+++.+..      .+.....  ...
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~~~------------~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~--~~~   80 (226)
T 2chg_A           15 TLDEVVGQDEVIQRLKGYVERKNI------------PHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNAS--DER   80 (226)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTCC------------CCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETT--CTT
T ss_pred             CHHHHcCcHHHHHHHHHHHhCCCC------------CeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccc--ccc
Confidence            345688999888888877765411            27999999999999999999876421      1111111  000


Q ss_pred             CceEEEEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         278 GLTVSALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       278 glt~~~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      +...  .++. ..+ ........+..++++|||++.++...+..|+..|++
T Consensus        81 ~~~~--~~~~~~~~-~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~  128 (226)
T 2chg_A           81 GIDV--VRHKIKEF-ARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEM  128 (226)
T ss_dssp             CHHH--HHHHHHHH-HTSCCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHH
T ss_pred             ChHH--HHHHHHHH-hcccCCCccCceEEEEeChhhcCHHHHHHHHHHHHh
Confidence            0000  0000 000 000011124578999999999999999999999986

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.48  E-value=1e-08  Score=97.32  Aligned_cols=115  Identities=22%  Similarity=0.223  Sum_probs=65.1

Q ss_pred             CcccccchHHHHHHHHHHhCCCcc-cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSA  283 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~  283 (345)
                      ..+|+|++.+|+.+..++...... ....+ ..+...++||+||||||||++++++++.+...++..........+    
T Consensus        83 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~----  157 (357)
T 3d8b_A           83 WEDIAGVEFAKATIKEIVVWPMLRPDIFTG-LRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKW----  157 (357)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCG-GGSCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSS----
T ss_pred             HHHhCChHHHHHHHHHHHHHHhhChHhHhh-ccCCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccc----
Confidence            346899999988887665421000 00000 012235899999999999999999999987655432211100000    


Q ss_pred             EeecCeeE-eeecee---eecCCcEEEEcCCCCCCH-----------HhHHHHHHHHhC
Q psy1366         284 LRENGEWH-LEAGAL---VLSDGGVCCIDEFSSIKE-----------HDRTSIHEAMEQ  327 (345)
Q Consensus       284 ~~~~~~~~-~~~G~l---~la~~gi~~IDEidk~~~-----------~~~~~l~eame~  327 (345)
                         .++.. .....+   .....+|+||||+|.+..           ..++.|+..|+.
T Consensus       158 ---~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~  213 (357)
T 3d8b_A          158 ---VGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDG  213 (357)
T ss_dssp             ---TTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC
T ss_pred             ---cchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhc
Confidence               00000 000011   123468999999987732           345677777764

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.46  E-value=2.3e-07  Score=78.37  Aligned_cols=53  Identities=19%  Similarity=0.194  Sum_probs=40.6

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .+...-..+++|++.....+.-.+..+.            ..++||+|+||+|||++++.+++.+
T Consensus        15 ~~~~~~~~~~~g~~~~~~~l~~~l~~~~------------~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           15 RAEQGKLDPVIGRDEEIRRTIQVLQRRT------------KNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             HHHTTCSCCCCSCHHHHHHHHHHHTSSS------------SCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhhccccccccchHHHHHHHHHHhcCC------------CCceEEECCCCCCHHHHHHHHHHHH
Confidence            3444455678999887777777766531            1389999999999999999999875

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=98.46  E-value=1.2e-08  Score=92.53  Aligned_cols=105  Identities=16%  Similarity=0.090  Sum_probs=53.2

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR  285 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~  285 (345)
                      .+|+|++.+++.+...+..-.....-.....+...++||+||||||||++++++++.+...++..........+.    .
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~----~   86 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFV----G   86 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCS----S
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhc----c
Confidence            457787766666654432100000000000011237999999999999999999998765543322111110000    0


Q ss_pred             ecCeeEeeeceeeec---CCcEEEEcCCCCCCHH
Q psy1366         286 ENGEWHLEAGALVLS---DGGVCCIDEFSSIKEH  316 (345)
Q Consensus       286 ~~~~~~~~~G~l~la---~~gi~~IDEidk~~~~  316 (345)
                      .+ .. ...+.+..+   ..++++|||+|.+...
T Consensus        87 ~~-~~-~~~~~~~~a~~~~~~vl~iDEid~l~~~  118 (268)
T 2r62_A           87 LG-AS-RVRDLFETAKKQAPSIIFIDEIDAIGKS  118 (268)
T ss_dssp             SC-SS-SSSTTHHHHHHSCSCEEEESCGGGTTC-
T ss_pred             hH-HH-HHHHHHHHHHhcCCeEEEEeChhhhccc
Confidence            00 00 001112222   2489999999998654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.46  E-value=8.9e-09  Score=87.09  Aligned_cols=52  Identities=21%  Similarity=0.218  Sum_probs=39.5

Q ss_pred             HHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         200 ILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       200 l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +...-..+++|++.....+.-.+..+.            ..++||+|+||+|||++++.+++.+
T Consensus        16 ~~~~~~~~~~g~~~~~~~l~~~l~~~~------------~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           16 ARAGKLDPVIGRDTEIRRAIQILSRRT------------KNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             HHTTCSCCCCSCHHHHHHHHHHHTSSS------------SCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HhccccchhhcchHHHHHHHHHHhCCC------------CCceEEECCCCCCHHHHHHHHHHHH
Confidence            334445678999877777777665431            1389999999999999999999875

>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=98.45  E-value=1.8e-07  Score=87.90  Aligned_cols=103  Identities=27%  Similarity=0.366  Sum_probs=67.9

Q ss_pred             ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE-EcCCccCcCCceEEEEe
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL-TTGVGTTTAGLTVSALR  285 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~-~~~~~~~~~glt~~~~~  285 (345)
                      .++|++.++..+.+++..|....       ...-|++|+||||+|||+|++.++..+...+. ++|.....         
T Consensus        26 ~~~g~~~~~~~l~~~i~~~~~~~-------~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~---------   89 (334)
T 1in4_A           26 EFIGQENVKKKLSLALEAAKMRG-------EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVK---------   89 (334)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHHHT-------CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCS---------
T ss_pred             HccCcHHHHHHHHHHHHHHHhcC-------CCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcC---------
Confidence            57889888888888775431100       01138999999999999999999998754432 22211000         


Q ss_pred             ecCeeEeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhCCE
Q psy1366         286 ENGEWHLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQT  329 (345)
Q Consensus       286 ~~~~~~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~~~  329 (345)
                       +++.   ...+ .+....|++|||++.+.+..++.|+.+|+...
T Consensus        90 -~~~l---~~~~~~~~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~  130 (334)
T 1in4_A           90 -QGDM---AAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQ  130 (334)
T ss_dssp             -HHHH---HHHHHHCCTTCEEEEETGGGCCHHHHHHHHHHHHTSC
T ss_pred             -HHHH---HHHHHHccCCCEEEEcchhhcCHHHHHHHHHHHHhcc
Confidence             0000   0000 12356899999999999888899999998754

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.45  E-value=2.3e-08  Score=95.86  Aligned_cols=31  Identities=23%  Similarity=0.428  Sum_probs=27.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -.+||+||||||||.|++++|..+...++..
T Consensus       183 rGvLL~GPPGTGKTllAkAiA~e~~~~f~~v  213 (405)
T 4b4t_J          183 KGVILYGPPGTGKTLLARAVAHHTDCKFIRV  213 (405)
T ss_dssp             CCEEEESCSSSSHHHHHHHHHHHHTCEEEEE
T ss_pred             CceEEeCCCCCCHHHHHHHHHHhhCCCceEE
Confidence            3799999999999999999999988876544

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=98.43  E-value=2.7e-08  Score=91.89  Aligned_cols=84  Identities=13%  Similarity=0.103  Sum_probs=48.6

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeec-------CCcEEEEcCC
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLS-------DGGVCCIDEF  310 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la-------~~gi~~IDEi  310 (345)
                      ....+||+||||||||+|++++++.+...++....+.....+.    .+.... + ...+..|       ..+|++|||+
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~----g~~~~~-i-~~~f~~a~~~~~~~~~~vl~iDEi  108 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNA----GEPAKL-I-RQRYREAAEIIRKGNMCCLFINDL  108 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC-------HHHHH-H-HHHHHHHHHHHTTSSCCCEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccC----chhHHH-H-HHHHHHHHHHHhcCCCeEEEEech
Confidence            3358999999999999999999998876554332111100000    000000 0 0112222       5789999999


Q ss_pred             CCCCH-------------HhHHHHHHHHhC
Q psy1366         311 SSIKE-------------HDRTSIHEAMEQ  327 (345)
Q Consensus       311 dk~~~-------------~~~~~l~eame~  327 (345)
                      |++..             ..+..|++.|+.
T Consensus       109 D~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~  138 (293)
T 3t15_A          109 DAGAGRMGGTTQYTVNNQMVNATLMNIADN  138 (293)
T ss_dssp             C--------------CHHHHHHHHHHHHHC
T ss_pred             hhhcCCCCCCccccchHHHHHHHHHHHhcc
Confidence            98765             234889999874

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.41  E-value=2.9e-08  Score=91.91  Aligned_cols=115  Identities=19%  Similarity=0.092  Sum_probs=61.4

Q ss_pred             ccccchHHHHHHHHHHhCCCcc-cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR  285 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~  285 (345)
                      +|.|++.+|+.+.-.+...... .......++...++||+||||||||+++++++..+...++..........+.    .
T Consensus        16 di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~~----g   91 (301)
T 3cf0_A           16 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF----G   91 (301)
T ss_dssp             GSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHHH----T
T ss_pred             HhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhhc----C
Confidence            5778877777665544310000 0000000112248999999999999999999999876554322110000000    0


Q ss_pred             ecCeeEeeeceeeec---CCcEEEEcCCCCCCHH--------------hHHHHHHHHhC
Q psy1366         286 ENGEWHLEAGALVLS---DGGVCCIDEFSSIKEH--------------DRTSIHEAMEQ  327 (345)
Q Consensus       286 ~~~~~~~~~G~l~la---~~gi~~IDEidk~~~~--------------~~~~l~eame~  327 (345)
                      +...  ...+.+..|   ..+++||||+|.+...              .+..|+..|+.
T Consensus        92 ~~~~--~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~  148 (301)
T 3cf0_A           92 ESEA--NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDG  148 (301)
T ss_dssp             TCTT--HHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHS
T ss_pred             chHH--HHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhc
Confidence            0000  001112222   3589999999976543              35778888863

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.41  E-value=4.3e-08  Score=95.18  Aligned_cols=31  Identities=29%  Similarity=0.416  Sum_probs=27.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -.+||+||||||||.|++++|..+...++..
T Consensus       216 rGvLL~GPPGtGKTllAkAiA~e~~~~~~~v  246 (437)
T 4b4t_L          216 KGVLLYGPPGTGKTLLAKAVAATIGANFIFS  246 (437)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCEEEEE
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHhCCCEEEE
Confidence            4799999999999999999999988776544

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=98.39  E-value=2.9e-07  Score=90.13  Aligned_cols=52  Identities=21%  Similarity=0.266  Sum_probs=38.3

Q ss_pred             ccCcccccchHHHHHHHHHH---hCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         203 SICPAIYGLYLVKLCLAVVL---AGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       203 s~~p~i~G~~~vk~~i~l~l---~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ....++.|++.+|..+...+   ..|.          ....++||+||||||||.+++++++.++
T Consensus        34 ~~~~~iiG~~~~~~~l~~~~~~~~~~~----------~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           34 QAASGLVGQENAREACGVIVELIKSKK----------MAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             SEETTEESCHHHHHHHHHHHHHHHTTC----------CTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hchhhccCHHHHHHHHHHHHHHHHhCC----------CCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            35578999999888654332   2221          1113899999999999999999999876

>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=98.38  E-value=3.8e-08  Score=90.82  Aligned_cols=107  Identities=19%  Similarity=0.209  Sum_probs=67.3

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC--C----eEEEcCCccCcC
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP--R----SVLTTGVGTTTA  277 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~--~----~~~~~~~~~~~~  277 (345)
                      -..+++|++.++..+.-.+..+.            ..|+||+||||+|||++++.+++.+.  .    .+......  ..
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~~------------~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~--~~   80 (319)
T 2chq_A           15 TLDEVVGQDEVIQRLKGYVERKN------------IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD--ER   80 (319)
T ss_dssp             SGGGSCSCHHHHHHHHTTTTTTC------------CCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTS--TT
T ss_pred             CHHHHhCCHHHHHHHHHHHhCCC------------CCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCcc--cc
Confidence            34568899998887776665441            13799999999999999999998641  1    12222111  11


Q ss_pred             CceEEEEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         278 GLTVSALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       278 glt~~~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      |..  ..++. ..+. ....+..++.++++|||+|.++.+.+++|+..||+
T Consensus        81 ~~~--~~~~~~~~~~-~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~  128 (319)
T 2chq_A           81 GID--VVRHKIKEFA-RTAPIGGAPFKIIFLDEADALTADAQAALRRTMEM  128 (319)
T ss_dssp             CTT--TSSHHHHHHH-HSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSS
T ss_pred             ChH--HHHHHHHHHH-hcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHh
Confidence            100  00000 0000 00111124578999999999999999999999987

>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=98.36  E-value=2.1e-07  Score=81.50  Aligned_cols=112  Identities=18%  Similarity=0.124  Sum_probs=67.0

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc----------
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG----------  273 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~----------  273 (345)
                      ...+++|++.++..+..++..+.           ....++|+|+||+|||++++.+++.+..........          
T Consensus        21 ~~~~~~g~~~~~~~l~~~l~~~~-----------~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (250)
T 1njg_A           21 TFADVVGQEHVLTALANGLSLGR-----------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREI   89 (250)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHTC-----------CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHH
T ss_pred             cHHHHhCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHH
Confidence            44578999988888887776551           113699999999999999999987653211100000          


Q ss_pred             --cCcCCceEEEEeecCeeE--ee--ecee----eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         274 --TTTAGLTVSALRENGEWH--LE--AGAL----VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       274 --~~~~glt~~~~~~~~~~~--~~--~G~l----~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        .....+.. .........  +.  ...+    ......+++|||++.+++..++.|+..|++
T Consensus        90 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~  152 (250)
T 1njg_A           90 EQGRFVDLIE-IDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEE  152 (250)
T ss_dssp             HTTCCSSEEE-EETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHS
T ss_pred             hccCCcceEE-ecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhc
Confidence              00001100 000000000  00  0000    112357999999999999999999999986

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.33  E-value=6.4e-08  Score=93.27  Aligned_cols=31  Identities=29%  Similarity=0.488  Sum_probs=27.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -.|||+||||||||.|++++|..+...++..
T Consensus       217 rGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v  247 (437)
T 4b4t_I          217 KGVILYGAPGTGKTLLAKAVANQTSATFLRI  247 (437)
T ss_dssp             SEEEEESSTTTTHHHHHHHHHHHHTCEEEEE
T ss_pred             CCCceECCCCchHHHHHHHHHHHhCCCEEEE
Confidence            4799999999999999999999988776544

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.31  E-value=1e-07  Score=85.85  Aligned_cols=62  Identities=23%  Similarity=0.224  Sum_probs=38.8

Q ss_pred             CcccccchHHHHHHHHHHh--CCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         205 CPAIYGLYLVKLCLAVVLA--GGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~--~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..+|.|++.+|+.+...+.  .........+  .+...++||+||||||||+++++++..++.+++
T Consensus        11 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~--~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~   74 (257)
T 1lv7_A           11 FADVAGCDEAKEEVAELVEYLREPSRFQKLG--GKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFF   74 (257)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-------CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEE
T ss_pred             HHHhcCcHHHHHHHHHHHHHHhCHHHHHHcC--CCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEE
Confidence            3468888888876654321  1101000001  122347999999999999999999998775443

>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=98.31  E-value=7.8e-08  Score=88.84  Aligned_cols=108  Identities=17%  Similarity=0.217  Sum_probs=67.6

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC------eEEEcCCccCcC
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR------SVLTTGVGTTTA  277 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~------~~~~~~~~~~~~  277 (345)
                      ...+++|++.++..+.-.+..+..            .|+||+||||+|||++++.+++.+..      .++....  ...
T Consensus        19 ~~~~~~g~~~~~~~l~~~l~~~~~------------~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~--~~~   84 (323)
T 1sxj_B           19 VLSDIVGNKETIDRLQQIAKDGNM------------PHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNAS--DDR   84 (323)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCCC------------CCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTT--SCC
T ss_pred             CHHHHHCCHHHHHHHHHHHHcCCC------------CeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCc--ccc
Confidence            345688999998888888776511            36999999999999999999887421      1222211  111


Q ss_pred             CceEEEEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         278 GLTVSALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       278 glt~~~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      +.  ...++- ..+......+......+++|||++.++...+++|+..||+
T Consensus        85 ~~--~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~  133 (323)
T 1sxj_B           85 GI--DVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMEL  133 (323)
T ss_dssp             SH--HHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHH
T ss_pred             Ch--HHHHHHHHHHHhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhc
Confidence            10  000000 0000000001012367999999999999999999999986

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.30  E-value=6.7e-08  Score=93.74  Aligned_cols=31  Identities=26%  Similarity=0.423  Sum_probs=27.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -.+||+||||||||.+++++|..+...++..
T Consensus       216 rGvLLyGPPGTGKTllAkAiA~e~~~~f~~v  246 (434)
T 4b4t_M          216 KGALMYGPPGTGKTLLARACAAQTNATFLKL  246 (434)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCEEEEE
T ss_pred             CeeEEECcCCCCHHHHHHHHHHHhCCCEEEE
Confidence            4799999999999999999999988876554

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.30  E-value=9.2e-08  Score=93.01  Aligned_cols=31  Identities=26%  Similarity=0.434  Sum_probs=27.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -.|||+||||||||.|++++|..+...++..
T Consensus       244 rGILLyGPPGTGKTlLAkAiA~e~~~~fi~v  274 (467)
T 4b4t_H          244 KGILLYGPPGTGKTLCARAVANRTDATFIRV  274 (467)
T ss_dssp             SEEEECSCTTSSHHHHHHHHHHHHTCEEEEE
T ss_pred             CceEeeCCCCCcHHHHHHHHHhccCCCeEEE
Confidence            3799999999999999999999988876544

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.29  E-value=9.3e-08  Score=92.65  Aligned_cols=63  Identities=21%  Similarity=0.260  Sum_probs=40.4

Q ss_pred             cccccchHHHHHHHHHHhCCCc---ccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVG---RGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~---~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -+|.|.+.+|..|.-.+.-...   ....-|  ++..-.+||+||||||||.+++++|..+...++..
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g--~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v  237 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIG--IDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRV  237 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHC--CCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEE
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCC--CCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEE
Confidence            4678887777666444331100   000001  11223699999999999999999999998877654

>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=98.28  E-value=5.6e-07  Score=84.92  Aligned_cols=112  Identities=19%  Similarity=0.150  Sum_probs=67.1

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCc----------
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVG----------  273 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~----------  273 (345)
                      -..+++|++.+...+..++..|.           ....+||+||||+|||++++.+++.+..........          
T Consensus        14 ~~~~~vg~~~~~~~L~~~l~~~~-----------~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~   82 (373)
T 1jr3_A           14 TFADVVGQEHVLTALANGLSLGR-----------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREI   82 (373)
T ss_dssp             STTTSCSCHHHHHHHHHHHHHTC-----------CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHH
T ss_pred             chhhccCcHHHHHHHHHHHHhCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHH
Confidence            34568999988888888776551           112579999999999999999998664211000000          


Q ss_pred             --cCcCCceEEEEeec----CeeE--ee-ecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         274 --TTTAGLTVSALREN----GEWH--LE-AGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       274 --~~~~glt~~~~~~~----~~~~--~~-~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                        .....+.. ....+    ..+.  ++ .... ..+...+++|||++.++...+++|+..||+
T Consensus        83 ~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~  145 (373)
T 1jr3_A           83 EQGRFVDLIE-IDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEE  145 (373)
T ss_dssp             HTSCCSSCEE-EETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHS
T ss_pred             hccCCCceEE-ecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhc
Confidence              00001100 00000    0000  00 0000 123457999999999999999999999986

>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=98.26  E-value=1.6e-07  Score=92.87  Aligned_cols=116  Identities=16%  Similarity=0.108  Sum_probs=63.5

Q ss_pred             cccccchHHHHHHHHHHhCCCcc-cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEE
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSAL  284 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~  284 (345)
                      .+|.|++.++..+.-.+...... ........+...++||+||||||||.+++++++.+...++..........+.    
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~----  279 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA----  279 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCT----
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhc----
Confidence            45888877776665443210000 0000000122248999999999999999999999876654322110000000    


Q ss_pred             eecCeeEeeeceeeecC---CcEEEEcCCCCCCH-----------HhHHHHHHHHhC
Q psy1366         285 RENGEWHLEAGALVLSD---GGVCCIDEFSSIKE-----------HDRTSIHEAMEQ  327 (345)
Q Consensus       285 ~~~~~~~~~~G~l~la~---~gi~~IDEidk~~~-----------~~~~~l~eame~  327 (345)
                        +.......+.+..|.   .+++||||+|.+..           ..+..|+..|+.
T Consensus       280 --g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~  334 (489)
T 3hu3_A          280 --GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDG  334 (489)
T ss_dssp             --THHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHH
T ss_pred             --chhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhc
Confidence              000000122233333   35999999976543           567889999983

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.25  E-value=9.6e-07  Score=87.83  Aligned_cols=121  Identities=17%  Similarity=0.188  Sum_probs=67.6

Q ss_pred             cccccchHHHHHHHHHHhCCC-------cccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGV-------GRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAG  278 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~-------~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~g  278 (345)
                      .++.|++.++..+.-.+....       .+...++.  ....++||+||||||||++++++++.++..++..........
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~--~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~~~~~  116 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGS--GVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSK  116 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTST--TSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCH
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCC--CCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCCcchH
Confidence            468899888877776665411       11000110  112489999999999999999999998765543221111000


Q ss_pred             -ceEEEEee------cCeeEeee--ceeeecCCcEEEEcCCCCCCHHhH---HHHHHHHhCC
Q psy1366         279 -LTVSALRE------NGEWHLEA--GALVLSDGGVCCIDEFSSIKEHDR---TSIHEAMEQQ  328 (345)
Q Consensus       279 -lt~~~~~~------~~~~~~~~--G~l~la~~gi~~IDEidk~~~~~~---~~l~eame~~  328 (345)
                       +.....++      -..+.-.+  .......++|++|||+|.+...++   ..|...|+..
T Consensus       117 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~  178 (516)
T 1sxj_A          117 TLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT  178 (516)
T ss_dssp             HHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc
Confidence             00000000      00000000  001124568999999999987666   7888888764

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.20  E-value=1.5e-06  Score=76.41  Aligned_cols=72  Identities=17%  Similarity=0.215  Sum_probs=46.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC----eEEEcCCccCcCCceEEEEeecCeeEeeecee-eecCCcEEEEcCCCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR----SVLTTGVGTTTAGLTVSALRENGEWHLEAGAL-VLSDGGVCCIDEFSSIK  314 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l-~la~~gi~~IDEidk~~  314 (345)
                      .++||+||||+|||++++.+++.+..    ..+.......            ..+   ...+ .+...++++|||++.+.
T Consensus        53 ~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~------------~~~---~~~~~~~~~~~vliiDe~~~~~  117 (242)
T 3bos_A           53 QAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHA------------SIS---TALLEGLEQFDLICIDDVDAVA  117 (242)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGG------------GSC---GGGGTTGGGSSEEEEETGGGGT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHH------------HHH---HHHHHhccCCCEEEEecccccc
Confidence            38999999999999999999876542    1222211000            000   0000 12457899999999998


Q ss_pred             HHh--HHHHHHHHh
Q psy1366         315 EHD--RTSIHEAME  326 (345)
Q Consensus       315 ~~~--~~~l~eame  326 (345)
                      ...  +..|+++|+
T Consensus       118 ~~~~~~~~l~~~l~  131 (242)
T 3bos_A          118 GHPLWEEAIFDLYN  131 (242)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            765  777887754

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.19  E-value=6.1e-07  Score=88.19  Aligned_cols=101  Identities=17%  Similarity=0.249  Sum_probs=56.8

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC----------eEEEcCCccC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR----------SVLTTGVGTT  275 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~----------~~~~~~~~~~  275 (345)
                      ..|+|++.....+.-.+....            ..|+||+||||||||.+++.+++.+.+          .++....+  
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~------------~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~--  245 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRT------------KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG--  245 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS------------SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----
T ss_pred             CCccCcHHHHHHHHHHHhccC------------CCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC--
Confidence            358999888877777776431            138999999999999999999987522          22211111  


Q ss_pred             cCCceEEEEeecCeeEeee-ce---eeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         276 TAGLTVSALRENGEWHLEA-GA---LVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       276 ~~glt~~~~~~~~~~~~~~-G~---l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                            +  +..|+|.... +.   +..+.++|+|||    ...+.++.|+.+|+.+.+.+
T Consensus       246 ------~--~~~g~~e~~~~~~~~~~~~~~~~iLfiD----~~~~a~~~L~~~L~~g~v~v  294 (468)
T 3pxg_A          246 ------T--KYRGEFEDRLKKVMDEIRQAGNIILFID----AAIDASNILKPSLARGELQC  294 (468)
T ss_dssp             ---------------CTTHHHHHHHHHTCCCCEEEEC----C--------CCCTTSSSCEE
T ss_pred             ------c--cccchHHHHHHHHHHHHHhcCCeEEEEe----CchhHHHHHHHhhcCCCEEE
Confidence                  0  0011111000 01   112347899999    55567788999999886654

>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=98.16  E-value=2.5e-07  Score=91.01  Aligned_cols=110  Identities=17%  Similarity=0.190  Sum_probs=59.9

Q ss_pred             cccccchHHHHHHHHHHh--CCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccC---cCCce
Q psy1366         206 PAIYGLYLVKLCLAVVLA--GGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTT---TAGLT  280 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~--~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~---~~glt  280 (345)
                      .+|.|++.+|..+.-...  ........-|.  +-..++||+||||||||+|+++++..++.+++.......   ..|..
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~--~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~g~~   93 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGA--RMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVG   93 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTC--CCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCTTHH
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCC--CCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHhccc
Confidence            467788777665543321  11111001111  122369999999999999999999887765543211110   01100


Q ss_pred             EEEEeecCeeEeeeceeeec---CCcEEEEcCCCCCCH--------------HhHHHHHHHHh
Q psy1366         281 VSALRENGEWHLEAGALVLS---DGGVCCIDEFSSIKE--------------HDRTSIHEAME  326 (345)
Q Consensus       281 ~~~~~~~~~~~~~~G~l~la---~~gi~~IDEidk~~~--------------~~~~~l~eame  326 (345)
                      ..         ...+.+..|   ...|+||||+|.+..              ..++.|+..|+
T Consensus        94 ~~---------~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld  147 (476)
T 2ce7_A           94 AA---------RVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMD  147 (476)
T ss_dssp             HH---------HHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHH
T ss_pred             HH---------HHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHh
Confidence            00         001112222   356999999998754              24567777775

>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=98.15  E-value=3e-06  Score=79.53  Aligned_cols=48  Identities=23%  Similarity=0.112  Sum_probs=36.8

Q ss_pred             CcccccchHHHHHHHHHH-hCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHh-hCC
Q psy1366         205 CPAIYGLYLVKLCLAVVL-AGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKR-MSP  264 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l-~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~-~~~  264 (345)
                      +.+++|++.+...+.-++ ..+           +. .|+||+||||+|||++++.+++ +.+
T Consensus        13 ~~~~vg~~~~~~~l~~~~~~~~-----------~~-~~~ll~Gp~G~GKTtl~~~la~~l~~   62 (354)
T 1sxj_E           13 LNALSHNEELTNFLKSLSDQPR-----------DL-PHLLLYGPNGTGKKTRCMALLESIFG   62 (354)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTT-----------CC-CCEEEECSTTSSHHHHHHTHHHHHSC
T ss_pred             HHHhcCCHHHHHHHHHHHhhCC-----------CC-CeEEEECCCCCCHHHHHHHHHHHHcC
Confidence            346789998888777666 333           11 3699999999999999999998 543

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.14  E-value=2.8e-06  Score=70.35  Aligned_cols=67  Identities=12%  Similarity=0.242  Sum_probs=47.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC----eEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR----SVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEH  316 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~  316 (345)
                      .++|+|++|+|||+|++.++.....    .+|..+..                +...  + .+.+..+++|||++.+...
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~----------------~~~~--~-~~~~~~lLilDE~~~~~~~   98 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAAS----------------MPLT--D-AAFEAEYLAVDQVEKLGNE   98 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTT----------------SCCC--G-GGGGCSEEEEESTTCCCSH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHH----------------hhHH--H-HHhCCCEEEEeCccccChH
Confidence            7999999999999999999987632    22222211                0000  1 1345689999999999887


Q ss_pred             hHHHHHHHHh
Q psy1366         317 DRTSIHEAME  326 (345)
Q Consensus       317 ~~~~l~eame  326 (345)
                      .+..|.+.|+
T Consensus        99 ~~~~l~~li~  108 (149)
T 2kjq_A           99 EQALLFSIFN  108 (149)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7888888764

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.14  E-value=1.4e-07  Score=85.67  Aligned_cols=82  Identities=13%  Similarity=0.178  Sum_probs=47.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeecee---eecCCcEEEEcCCCCC---
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGAL---VLSDGGVCCIDEFSSI---  313 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l---~la~~gi~~IDEidk~---  313 (345)
                      .++||+||||||||++++++++.....++.........|..... . .+.  + ...+   ..+..++++|||+|.+   
T Consensus        65 ~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~-~-~~~--~-~~~~~~~~~~~~~vl~iDEid~l~~~  139 (272)
T 1d2n_A           65 VSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETA-K-CQA--M-KKIFDDAYKSQLSCVVVDDIERLLDY  139 (272)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHH-H-HHH--H-HHHHHHHHTSSEEEEEECCHHHHTTC
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHH-H-HHH--H-HHHHHHHHhcCCcEEEEEChhhhhcc
Confidence            59999999999999999999998765543221111111110000 0 000  0 0001   1234789999999986   


Q ss_pred             -------CHHhHHHHHHHHh
Q psy1366         314 -------KEHDRTSIHEAME  326 (345)
Q Consensus       314 -------~~~~~~~l~eame  326 (345)
                             ....+..|.+.|+
T Consensus       140 ~~~~~~~~~~~l~~L~~~~~  159 (272)
T 1d2n_A          140 VPIGPRFSNLVLQALLVLLK  159 (272)
T ss_dssp             BTTTTBCCHHHHHHHHHHTT
T ss_pred             CCCChhHHHHHHHHHHHHhc
Confidence                   4445566666665

>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=98.12  E-value=3e-06  Score=88.07  Aligned_cols=47  Identities=23%  Similarity=0.180  Sum_probs=36.4

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ...++|++.....+.-.+...            ...|+||+||||||||++++.+++.+
T Consensus       185 ~d~~iGr~~~i~~l~~~l~~~------------~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          185 IDPLIGREKELERAIQVLCRR------------RKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSS------------SSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCccCCHHHHHHHHHHHhcc------------CCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            345889987777766666543            11489999999999999999999865

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.10  E-value=1e-06  Score=92.91  Aligned_cols=111  Identities=17%  Similarity=0.279  Sum_probs=56.4

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC----------CCeEEEcCCcc
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS----------PRSVLTTGVGT  274 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~----------~~~~~~~~~~~  274 (345)
                      ...++|++.....+.-.+..+.            ..|+||+||||||||++++.+++.+          ...++....+ 
T Consensus       169 ld~viGr~~~i~~l~~~l~~~~------------~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~-  235 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLRRT------------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMG-  235 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSS------------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--
T ss_pred             CcccCCcHHHHHHHHHHHhcCC------------CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehH-
Confidence            3458899877777777665441            1389999999999999999999875          2222221111 


Q ss_pred             CcCCceEEEEeecCeeEee-eceeee---c-CCcEEEEcCCCCCC--------HHhHHHHHHHHhCCEEEE
Q psy1366         275 TTAGLTVSALRENGEWHLE-AGALVL---S-DGGVCCIDEFSSIK--------EHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       275 ~~~glt~~~~~~~~~~~~~-~G~l~l---a-~~gi~~IDEidk~~--------~~~~~~l~eame~~~i~i  332 (345)
                         .+.+.. +..+++.-. ...+..   . ...|+||||++.+.        .+..+.|..+|+.+.+.+
T Consensus       236 ---~l~~g~-~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~~i~~  302 (854)
T 1qvr_A          236 ---SLLAGA-KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRL  302 (854)
T ss_dssp             --------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCE
T ss_pred             ---HhhccC-ccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhCCCeEE
Confidence               111000 000111000 000111   1 24599999999987        445667888998876543

>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=98.10  E-value=2.6e-06  Score=79.01  Aligned_cols=100  Identities=11%  Similarity=0.115  Sum_probs=59.9

Q ss_pred             cchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC-------CCeEEEcCCccCcCCceEE
Q psy1366         210 GLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS-------PRSVLTTGVGTTTAGLTVS  282 (345)
Q Consensus       210 G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~-------~~~~~~~~~~~~~~glt~~  282 (345)
                      ||+++...+.-++-.|           + ..++||+||||+|||++++.+++..       |.-......+ ...+.  .
T Consensus         1 g~~~~~~~L~~~i~~~-----------~-~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~-~~~~i--d   65 (305)
T 2gno_A            1 GAKDQLETLKRIIEKS-----------E-GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG-ENIGI--D   65 (305)
T ss_dssp             ---CHHHHHHHHHHTC-----------S-SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS-SCBCH--H
T ss_pred             ChHHHHHHHHHHHHCC-----------C-CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCc-CCCCH--H
Confidence            5666666676676655           2 2599999999999999999998741       1111111110 00000  0


Q ss_pred             EEeecCeeEeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         283 ALRENGEWHLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       283 ~~~~~~~~~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .+|+--++   +... ..++..|++|||+|.|+...+++|+..||+
T Consensus        66 ~ir~li~~---~~~~p~~~~~kvviIdead~lt~~a~naLLk~LEe  108 (305)
T 2gno_A           66 DIRTIKDF---LNYSPELYTRKYVIVHDCERMTQQAANAFLKALEE  108 (305)
T ss_dssp             HHHHHHHH---HTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHS
T ss_pred             HHHHHHHH---HhhccccCCceEEEeccHHHhCHHHHHHHHHHHhC
Confidence            00110000   0000 124567999999999999999999999998

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.05  E-value=7.4e-07  Score=92.69  Aligned_cols=101  Identities=17%  Similarity=0.254  Sum_probs=58.1

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC----------CeEEEcCCccC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP----------RSVLTTGVGTT  275 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~----------~~~~~~~~~~~  275 (345)
                      ..++|++...+.+...+.....            .|+||+||||||||++++.+++.+.          ..++....   
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~------------~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~---  244 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTK------------NNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM---  244 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSS------------CEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----
T ss_pred             CCccCchHHHHHHHHHHhCCCC------------CCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc---
Confidence            4589998888888877765311            3899999999999999999998852          22221111   


Q ss_pred             cCCceEEEEeecCeeEee----eceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         276 TAGLTVSALRENGEWHLE----AGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       276 ~~glt~~~~~~~~~~~~~----~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                        |   +  +-.|++...    -+.+..+.++|+|||    ...+.++.|+.+|+.+.+.+
T Consensus       245 --g---~--~~~G~~e~~l~~~~~~~~~~~~~iLfiD----~~~~~~~~L~~~l~~~~v~~  294 (758)
T 3pxi_A          245 --G---T--KYRGEFEDRLKKVMDEIRQAGNIILFID----AAIDASNILKPSLARGELQC  294 (758)
T ss_dssp             ---------------CTTHHHHHHHHHTCCCCEEEEC----C--------CCCTTSSSCEE
T ss_pred             --c---c--cccchHHHHHHHHHHHHHhcCCEEEEEc----CchhHHHHHHHHHhcCCEEE
Confidence              0   0  001111100    011122457899999    55567888999999887765

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=98.04  E-value=1.5e-06  Score=85.85  Aligned_cols=27  Identities=30%  Similarity=0.507  Sum_probs=24.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      ++||+||||||||+|+++++..++.++
T Consensus        66 GvLL~GppGtGKTtLaraIa~~~~~~~   92 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGEARVPF   92 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHTTCCE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            599999999999999999999887544

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.02  E-value=1.9e-06  Score=80.78  Aligned_cols=106  Identities=14%  Similarity=0.138  Sum_probs=60.5

Q ss_pred             chHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc------------CcCC
Q psy1366         211 LYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT------------TTAG  278 (345)
Q Consensus       211 ~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~------------~~~g  278 (345)
                      ++.+...+.-++..|           |....+||+||||+|||++++.+++.+.......+...            +...
T Consensus         7 ~~~~~~~l~~~i~~~-----------~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d   75 (334)
T 1a5t_A            7 LRPDFEKLVASYQAG-----------RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD   75 (334)
T ss_dssp             GHHHHHHHHHHHHTT-----------CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT
T ss_pred             hHHHHHHHHHHHHcC-----------CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC
Confidence            456666666666655           11124999999999999999999986532110000000            0001


Q ss_pred             ceEEEEee--cCeeEe--------eecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         279 LTVSALRE--NGEWHL--------EAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       279 lt~~~~~~--~~~~~~--------~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      +.. +..+  +.....        ..... ..+...|++|||+|+|+.+.+++|+..||+-
T Consensus        76 ~~~-~~~~~~~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep  135 (334)
T 1a5t_A           76 YYT-LAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEP  135 (334)
T ss_dssp             EEE-ECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSC
T ss_pred             EEE-EeccccCCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCC
Confidence            100 0000  000000        00000 1234689999999999999999999999973

>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=97.97  E-value=1.3e-05  Score=74.48  Aligned_cols=79  Identities=13%  Similarity=0.277  Sum_probs=45.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC---CC-eEEEcCCccCcCCceEEEEeecCeeEeeecee--eecCCcEEEEcCCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS---PR-SVLTTGVGTTTAGLTVSALRENGEWHLEAGAL--VLSDGGVCCIDEFSSI  313 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~---~~-~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l--~la~~gi~~IDEidk~  313 (345)
                      .+++|+||||||||+|++++++.+   .. .++.+.... ...+... ... +.    ...+  ...+.++++|||++.+
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~-~~~~~~~-~~~-~~----~~~~~~~~~~~~vL~iDEi~~l  110 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDF-AQAMVEH-LKK-GT----INEFRNMYKSVDLLLLDDVQFL  110 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHH-HHHHHHH-HHH-TC----HHHHHHHHHTCSEEEEECGGGG
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHH-HHHHHHH-HHc-Cc----HHHHHHHhcCCCEEEEcCcccc
Confidence            389999999999999999999876   22 223321100 0000000 000 00    0000  1234789999999998


Q ss_pred             CH--HhHHHHHHHH
Q psy1366         314 KE--HDRTSIHEAM  325 (345)
Q Consensus       314 ~~--~~~~~l~eam  325 (345)
                      ..  ..|..++..+
T Consensus       111 ~~~~~~~~~l~~~l  124 (324)
T 1l8q_A          111 SGKERTQIEFFHIF  124 (324)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHH
Confidence            85  5566666665

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.94  E-value=6.6e-07  Score=92.94  Aligned_cols=111  Identities=21%  Similarity=0.144  Sum_probs=66.1

Q ss_pred             ccccchHHHHHHHHHHhCCCcc-cCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc---CcCCceEE
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGR-GGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT---TTAGLTVS  282 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~-~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~---~~~glt~~  282 (345)
                      +|.|.+.+|+.+.-++.-.... ........+....+||+||||||||.++++++..+...++......   ...|-+..
T Consensus       478 diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese~  557 (806)
T 3cf2_A          478 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEA  557 (806)
T ss_dssp             TCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCHH
T ss_pred             HhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccchHHH
Confidence            4678899999887665432211 0001112344458999999999999999999999988776543211   11121111


Q ss_pred             EEeecCeeEeeeceeee---cCCcEEEEcCCCCCCHH--------------hHHHHHHHHh
Q psy1366         283 ALRENGEWHLEAGALVL---SDGGVCCIDEFSSIKEH--------------DRTSIHEAME  326 (345)
Q Consensus       283 ~~~~~~~~~~~~G~l~l---a~~gi~~IDEidk~~~~--------------~~~~l~eame  326 (345)
                      .++         -.+..   +...|+||||||.+-..              ..+.|+..|+
T Consensus       558 ~vr---------~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~md  609 (806)
T 3cf2_A          558 NVR---------EIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMD  609 (806)
T ss_dssp             HHH---------HHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHH
T ss_pred             HHH---------HHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHh
Confidence            111         01111   23689999999986321              2456777776

>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=97.90  E-value=3.9e-06  Score=79.40  Aligned_cols=114  Identities=13%  Similarity=0.055  Sum_probs=62.8

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeee--ceeeeCCCCChHHHHHHHHHhhCCC-----eEEEcCCccCc-C
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAES--HLLLVGDPGTGKSEILKFAKRMSPR-----SVLTTGVGTTT-A  277 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~--~iLl~G~pGtGKs~l~~~i~~~~~~-----~~~~~~~~~~~-~  277 (345)
                      +.++|++.....+...+......        +...  +++|+|+||+|||++++.+++.+..     .++........ .
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~--------~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~   88 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRN--------PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFT   88 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHS--------TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcC--------CCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHH
Confidence            56889877666665555431000        0012  7999999999999999999987643     23333211110 0


Q ss_pred             CceEEEEeecCeeEeeec----e-------eeecC--CcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         278 GLTVSALRENGEWHLEAG----A-------LVLSD--GGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       278 glt~~~~~~~~~~~~~~G----~-------l~la~--~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .+.......-+...-..|    .       ...+.  .-+++|||++.++.+.+..|..++++
T Consensus        89 ~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~  151 (389)
T 1fnn_A           89 AIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQE  151 (389)
T ss_dssp             HHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHh
Confidence            000000000000000000    0       00112  33999999999999999999999964

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.88  E-value=5.3e-06  Score=77.29  Aligned_cols=24  Identities=4%  Similarity=0.005  Sum_probs=22.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .+++|+|+||||||.+++++++.+
T Consensus        46 ~~lli~GpPGTGKT~~v~~v~~~L   69 (318)
T 3te6_A           46 KLFYITNADDSTKFQLVNDVMDEL   69 (318)
T ss_dssp             CEEEEECCCSHHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            389999999999999999999876

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.86  E-value=6.7e-07  Score=92.87  Aligned_cols=62  Identities=21%  Similarity=0.159  Sum_probs=40.0

Q ss_pred             cccccchHHH----HHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         206 PAIYGLYLVK----LCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       206 p~i~G~~~vk----~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .+|-|.+.+|    ..+.+.|... ...  ....++..-+|||+||||||||+|++++++.+...++..
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p-~~f--~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v  269 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHP-ALF--KAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLI  269 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCC-GGG--TSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEE
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCH-HHH--hhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEE
Confidence            4677876554    4444434321 111  111223345899999999999999999999988766543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.73  E-value=1.9e-05  Score=74.43  Aligned_cols=50  Identities=28%  Similarity=0.224  Sum_probs=36.8

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..++|++.....+...+......        ....+++|+||||||||++++.+++.+
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~--------~~~~~vll~G~~G~GKT~l~~~~~~~~   68 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRG--------EKPSNALLYGLTGTGKTAVARLVLRRL   68 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSS--------CCCCCEEECBCTTSSHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcC--------CCCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            56889988877777665321100        111489999999999999999999876

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.71  E-value=8.1e-07  Score=75.42  Aligned_cols=82  Identities=17%  Similarity=0.206  Sum_probs=46.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC-----CeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCC--C
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP-----RSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFS--S  312 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~-----~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEid--k  312 (345)
                      -+++|+||||+|||+|++.++..+.     ..++.+.... ...+...  ...+..  ..-.-.+.+..+++|||++  .
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~-~~~~~~~--~~~~~~--~~~~~~~~~~~llilDE~~~~~  113 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDL-IFRLKHL--MDEGKD--TKFLKTVLNSPVLVLDDLGSER  113 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHH-HHHHHHH--HHHTCC--SHHHHHHHTCSEEEEETCSSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHH-HHHHHHH--hcCchH--HHHHHHhcCCCEEEEeCCCCCc
Confidence            3899999999999999999998763     1112111000 0000000  000000  0000112356899999998  5


Q ss_pred             CCHHhHHHHHHHHh
Q psy1366         313 IKEHDRTSIHEAME  326 (345)
Q Consensus       313 ~~~~~~~~l~eame  326 (345)
                      +++..+..|++.++
T Consensus       114 ~~~~~~~~l~~ll~  127 (180)
T 3ec2_A          114 LSDWQRELISYIIT  127 (180)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            77777788877774

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.68  E-value=2.6e-05  Score=67.89  Aligned_cols=75  Identities=24%  Similarity=0.291  Sum_probs=46.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHh-HH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHD-RT  319 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~-~~  319 (345)
                      ++|++||||||||+++.++++.+...+.... .+           ....| +.    .+.+.-+++|||+|...-.. ..
T Consensus        60 ~ili~GPPGtGKTt~a~ala~~l~g~i~~fa-ns-----------~s~f~-l~----~l~~~kIiiLDEad~~~~~~~d~  122 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIHFIQGAVISFV-NS-----------TSHFW-LE----PLTDTKVAMLDDATTTCWTYFDT  122 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHHHTCEECCCC-CS-----------SSCGG-GG----GGTTCSSEEEEEECHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeeeEE-ec-----------cchhh-hc----ccCCCCEEEEECCCchhHHHHHH
Confidence            7999999999999999999987643221100 00           00111 11    23345699999998432111 23


Q ss_pred             HHHHHHhCCEEEE
Q psy1366         320 SIHEAMEQQTISV  332 (345)
Q Consensus       320 ~l~eame~~~i~i  332 (345)
                      .+..+|+...+++
T Consensus       123 ~lrn~ldG~~~~i  135 (212)
T 1tue_A          123 YMRNALDGNPISI  135 (212)
T ss_dssp             HCHHHHHTCCEEE
T ss_pred             HHHHHhCCCcccH
Confidence            5667777777666

>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=97.59  E-value=3.1e-05  Score=75.41  Aligned_cols=80  Identities=16%  Similarity=0.226  Sum_probs=46.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC-----Ce-EEEcCCccCcCCceEEEEeecCeeEeeeceee--ec-CCcEEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP-----RS-VLTTGVGTTTAGLTVSALRENGEWHLEAGALV--LS-DGGVCCIDEF  310 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~-----~~-~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~--la-~~gi~~IDEi  310 (345)
                      .+++|+||||+|||+|++++++.+.     .. ++++..... ..+... .+ .+.    ...+.  .. +..+++|||+
T Consensus       131 ~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~-~~~~~~-~~-~~~----~~~~~~~~~~~~~vL~IDEi  203 (440)
T 2z4s_A          131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFL-NDLVDS-MK-EGK----LNEFREKYRKKVDILLIDDV  203 (440)
T ss_dssp             CCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHH-HHHHHH-HH-TTC----HHHHHHHHTTTCSEEEEECG
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHH-HHHHHH-HH-ccc----HHHHHHHhcCCCCEEEEeCc
Confidence            3899999999999999999998662     11 232211000 000000 00 000    00111  12 5789999999


Q ss_pred             CCCCH--HhHHHHHHHHh
Q psy1366         311 SSIKE--HDRTSIHEAME  326 (345)
Q Consensus       311 dk~~~--~~~~~l~eame  326 (345)
                      +.+..  ..|..|+..|+
T Consensus       204 ~~l~~~~~~q~~l~~~l~  221 (440)
T 2z4s_A          204 QFLIGKTGVQTELFHTFN  221 (440)
T ss_dssp             GGGSSCHHHHHHHHHHHH
T ss_pred             ccccCChHHHHHHHHHHH
Confidence            99876  56778877764

>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=97.54  E-value=0.00012  Score=84.54  Aligned_cols=100  Identities=21%  Similarity=0.238  Sum_probs=67.0

Q ss_pred             HHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEee
Q psy1366         214 VKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLE  293 (345)
Q Consensus       214 vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~  293 (345)
                      .-..+..|+..+              ...++.||||||||.+++.+|+.+++.+++.....   ++.....   +.  +-
T Consensus       634 ~~~tl~~Al~~~--------------~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e---~ld~~~l---g~--~~  691 (2695)
T 4akg_A          634 GFATLTDSLHQK--------------YGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDD---SFDYQVL---SR--LL  691 (2695)
T ss_dssp             HHHHHHHHHHTT--------------CEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTS---SCCHHHH---HH--HH
T ss_pred             HHHHHHHHHHhC--------------CCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCC---CCChhHh---hH--HH
Confidence            345566666655              57899999999999999999999998765542211   1111000   00  00


Q ss_pred             eceeeecCCcEEEEcCCCCCCHHhHHHH-------HHHHhCCEEEEeeCCe
Q psy1366         294 AGALVLSDGGVCCIDEFSSIKEHDRTSI-------HEAMEQQTISVAKDKE  337 (345)
Q Consensus       294 ~G~l~la~~gi~~IDEidk~~~~~~~~l-------~eame~~~i~i~k~gi  337 (345)
                      .|+  ...|.++|+|||++++++...++       +++|.++..++.-.|-
T Consensus       692 ~g~--~~~Gaw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~  740 (2695)
T 4akg_A          692 VGI--TQIGAWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEE  740 (2695)
T ss_dssp             HHH--HHHTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSS
T ss_pred             HHH--HhcCCEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCc
Confidence            121  13478999999999999999888       7888777655555553

>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=97.46  E-value=0.0002  Score=82.86  Aligned_cols=96  Identities=25%  Similarity=0.212  Sum_probs=50.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC-eEE-EcCCccCcCCceEEEEeec-CeeEeeeceee----ecCCcEEEEcCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR-SVL-TTGVGTTTAGLTVSALREN-GEWHLEAGALV----LSDGGVCCIDEFSS  312 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~-~~~-~~~~~~~~~glt~~~~~~~-~~~~~~~G~l~----la~~gi~~IDEidk  312 (345)
                      .|+||+||||||||.+++.+....+. .+. +.....+.+.......... ..-....|.+.    .....|+||||+|.
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~VlFiDEinm 1347 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEINL 1347 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEEEEETTTC
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCCCCceEEEEeccccc
Confidence            59999999999999999555544433 221 1111111111000000000 00000112211    12346999999887


Q ss_pred             CCHH------hHHHHHHHHhCCEEEEeeC
Q psy1366         313 IKEH------DRTSIHEAMEQQTISVAKD  335 (345)
Q Consensus       313 ~~~~------~~~~l~eame~~~i~i~k~  335 (345)
                      ...+      ....|.+.||++.+...+.
T Consensus      1348 p~~d~yg~q~~lelLRq~le~gg~yd~~~ 1376 (2695)
T 4akg_A         1348 PKLDKYGSQNVVLFLRQLMEKQGFWKTPE 1376 (2695)
T ss_dssp             SCCCSSSCCHHHHHHHHHHHTSSEECTTT
T ss_pred             ccccccCchhHHHHHHHHHhcCCEEEcCC
Confidence            5443      5688899999876655443

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.34  E-value=0.00011  Score=66.80  Aligned_cols=27  Identities=33%  Similarity=0.452  Sum_probs=24.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .+||+||||+|||+|+++++...+...
T Consensus        46 GvlL~Gp~GtGKTtLakala~~~~~~~   72 (274)
T 2x8a_A           46 GVLLAGPPGCGKTLLAKAVANESGLNF   72 (274)
T ss_dssp             EEEEESSTTSCHHHHHHHHHHHTTCEE
T ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCCE
Confidence            499999999999999999999887543

>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=97.31  E-value=0.00054  Score=61.94  Aligned_cols=74  Identities=18%  Similarity=0.117  Sum_probs=45.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTS  320 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~  320 (345)
                      +++|+||||||||.+++++++.++..-.++  .+.            ..+.+.    .+.+.-+++.||.... .+.+..
T Consensus       106 ~~~l~GppgtGKt~~a~ala~~~~l~G~vn--~~~------------~~f~l~----~~~~k~i~l~Ee~~~~-~d~~~~  166 (267)
T 1u0j_A          106 TIWLFGPATTGKTNIAEAIAHTVPFYGCVN--WTN------------ENFPFN----DCVDKMVIWWEEGKMT-AKVVES  166 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCEEECC--TTC------------SSCTTG----GGSSCSEEEECSCCEE-TTTHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhhcccceee--ccc------------cccccc----cccccEEEEeccccch-hHHHHH
Confidence            799999999999999999999765321111  110            111111    1123445566665544 455678


Q ss_pred             HHHHHhCCEEEEe
Q psy1366         321 IHEAMEQQTISVA  333 (345)
Q Consensus       321 l~eame~~~i~i~  333 (345)
                      +-.+|+-..+.|.
T Consensus       167 lr~i~~G~~~~id  179 (267)
T 1u0j_A          167 AKAILGGSKVRVD  179 (267)
T ss_dssp             HHHHHTTCCEEC-
T ss_pred             HHHHhCCCcEEEe
Confidence            8888886666653

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=97.28  E-value=0.00023  Score=83.14  Aligned_cols=95  Identities=22%  Similarity=0.187  Sum_probs=53.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE--cCCc-cCcCCceEEEEeecCeeEeee--ceeeecC----CcEEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT--TGVG-TTTAGLTVSALRENGEWHLEA--GALVLSD----GGVCCIDEF  310 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~--~~~~-~~~~glt~~~~~~~~~~~~~~--G~l~la~----~gi~~IDEi  310 (345)
                      .|+||+||||||||.+++......+.....  .-.. +++..+.... ....++....  |.+..+-    ..|+||||+
T Consensus      1305 ~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~~Tta~~l~~~~-e~~~e~~~~~~~G~~~~p~~~Gk~~VlFiDDi 1383 (3245)
T 3vkg_A         1305 RPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTF-DHHCEYKRTPSGETVLRPTQLGKWLVVFCDEI 1383 (3245)
T ss_dssp             CCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCTTCCHHHHHHHH-HHHEEEEECTTSCEEEEESSTTCEEEEEETTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeCCCCHHHHHHHH-hhcceEEeccCCCcccCCCcCCceEEEEeccc
Confidence            499999999999998876655544432211  1111 1111110000 0000111111  5554442    259999999


Q ss_pred             CCCCHH------hHHHHHHHHhCCEEEEeeC
Q psy1366         311 SSIKEH------DRTSIHEAMEQQTISVAKD  335 (345)
Q Consensus       311 dk~~~~------~~~~l~eame~~~i~i~k~  335 (345)
                      +....+      ....|++.||++.+...+.
T Consensus      1384 Nmp~~D~yGtQ~~ielLrqlld~~g~yd~~~ 1414 (3245)
T 3vkg_A         1384 NLPSTDKYGTQRVITFIRQMVEKGGFWRTSD 1414 (3245)
T ss_dssp             TCCCCCTTSCCHHHHHHHHHHHHSEEEETTT
T ss_pred             CCCCccccccccHHHHHHHHHHcCCeEECCC
Confidence            987654      5688999999887766443

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.16  E-value=2.7e-05  Score=72.16  Aligned_cols=25  Identities=36%  Similarity=0.397  Sum_probs=22.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+++|+||||||||.|+++++..+.
T Consensus       153 ~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          153 KGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH
Confidence            4899999999999999999997654

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.15  E-value=0.00016  Score=64.53  Aligned_cols=26  Identities=31%  Similarity=0.525  Sum_probs=23.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      +++|+||||+|||+|+++++..+...
T Consensus        51 g~ll~G~~G~GKTtl~~~i~~~~~~~   76 (254)
T 1ixz_A           51 GVLLVGPPGVGKTHLARAVAGEARVP   76 (254)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            49999999999999999999987643

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.02  E-value=0.00025  Score=64.24  Aligned_cols=26  Identities=31%  Similarity=0.525  Sum_probs=23.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      +++|+||||+|||+|+++++..++..
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~~~~~  100 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGEARVP  100 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             eEEEECCCcChHHHHHHHHHHHcCCC
Confidence            49999999999999999999988643

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.93  E-value=0.00052  Score=58.55  Aligned_cols=28  Identities=11%  Similarity=0.086  Sum_probs=22.6

Q ss_pred             CcEEEEcCCCCCCHHhHHHHHHHHhCCE
Q psy1366         302 GGVCCIDEFSSIKEHDRTSIHEAMEQQT  329 (345)
Q Consensus       302 ~gi~~IDEidk~~~~~~~~l~eame~~~  329 (345)
                      ..+++|||+..++++....|...++++.
T Consensus        77 ~dvviIDE~Q~~~~~~~~~l~~l~~~~~  104 (184)
T 2orw_A           77 TRGVFIDEVQFFNPSLFEVVKDLLDRGI  104 (184)
T ss_dssp             EEEEEECCGGGSCTTHHHHHHHHHHTTC
T ss_pred             CCEEEEECcccCCHHHHHHHHHHHHCCC
Confidence            4699999999998777777777877743

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.84  E-value=0.0014  Score=76.73  Aligned_cols=90  Identities=24%  Similarity=0.315  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEe
Q psy1366         213 LVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHL  292 (345)
Q Consensus       213 ~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~  292 (345)
                      ..-..+..||..+              ....+.||+|||||.+++.+++.+++.+++-...   .+++...+   +.  +
T Consensus       592 rcy~tl~~Al~~~--------------~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~---~~~d~~~~---g~--i  649 (3245)
T 3vkg_A          592 RCYLTLTQALESR--------------MGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCD---EGFDLQAM---SR--I  649 (3245)
T ss_dssp             HHHHHHHHHHHTT--------------CEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECS---SCCCHHHH---HH--H
T ss_pred             HHHHHHHHHHHhc--------------CCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCC---CCCCHHHH---HH--H
Confidence            3455566666544              3567999999999999999999999987654221   12211100   10  1


Q ss_pred             eeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHh
Q psy1366         293 EAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAME  326 (345)
Q Consensus       293 ~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame  326 (345)
                      -.|+.  ..|..+|+|||++++.+...++.+.|.
T Consensus       650 ~~G~~--~~GaW~cfDEfNrl~~~vLSvv~~qi~  681 (3245)
T 3vkg_A          650 FVGLC--QCGAWGCFDEFNRLEERILSAVSQQIQ  681 (3245)
T ss_dssp             HHHHH--HHTCEEEEETTTSSCHHHHHHHHHHHH
T ss_pred             HhhHh--hcCcEEEehhhhcCCHHHHHHHHHHHH
Confidence            13322  347889999999999999999888665

>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=96.74  E-value=0.0037  Score=60.84  Aligned_cols=86  Identities=16%  Similarity=0.157  Sum_probs=50.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC---C-eEEEcCCccCc-------CCceEEE--------Eee-c--CeeEeeeceee
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP---R-SVLTTGVGTTT-------AGLTVSA--------LRE-N--GEWHLEAGALV  298 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~---~-~~~~~~~~~~~-------~glt~~~--------~~~-~--~~~~~~~G~l~  298 (345)
                      ++++.|+||||||+++..+.+.+.   . .+........+       .+..+.-        ... .  ..|.. ...-.
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~T~~Aa~~l~~~~~~~~~T~h~~~~~~~~~~~~~~~~~~-~~~~~  125 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTGETGIILAAPTHAAKKILSKLSGKEASTIHSILKINPVTYEENVLFEQ-KEVPD  125 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEESSHHHHHHHHHHHSSCEEEHHHHHTEEEEECSSCEEEEE-CSCCC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEecCcHHHHHHHHhhhccchhhHHHHhccCcccccccchhcc-ccccc
Confidence            899999999999999998876552   1 23222111110       0111110        000 0  11110 11112


Q ss_pred             ecCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         299 LSDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       299 la~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      +....+++|||+..++...+..|...++.
T Consensus       126 ~~~~~~iiiDE~~~~~~~~~~~l~~~~~~  154 (459)
T 3upu_A          126 LAKCRVLICDEVSMYDRKLFKILLSTIPP  154 (459)
T ss_dssp             CSSCSEEEESCGGGCCHHHHHHHHHHSCT
T ss_pred             ccCCCEEEEECchhCCHHHHHHHHHhccC
Confidence            33568999999999999999999988863

>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=96.61  E-value=0.0015  Score=61.32  Aligned_cols=50  Identities=20%  Similarity=0.044  Sum_probs=34.3

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .+++|++.....+...+......        ....+++|+||||||||++++.+++.+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~--------~~~~~vll~G~~G~GKT~la~~l~~~~   69 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKN--------EVKFSNLFLGLTGTGKTFVSKYIFNEI   69 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTT--------CCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcC--------CCCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            56889877666555443321000        011389999999999999999999864

>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=96.45  E-value=0.0039  Score=63.00  Aligned_cols=37  Identities=27%  Similarity=0.351  Sum_probs=28.6

Q ss_pred             chHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         211 LYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       211 ~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.-+.|+..++-++               .+++.|+||||||+++.++...
T Consensus       151 ~~~Q~~Ai~~~l~~~---------------~~vi~G~pGTGKTt~l~~ll~~  187 (608)
T 1w36_D          151 INWQKVAAAVALTRR---------------ISVISGGPGTGKTTTVAKLLAA  187 (608)
T ss_dssp             CCHHHHHHHHHHTBS---------------EEEEECCTTSTHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcCC---------------CEEEEeCCCCCHHHHHHHHHHH
Confidence            455677777777544               8999999999999988776543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.44  E-value=0.0011  Score=56.61  Aligned_cols=24  Identities=29%  Similarity=0.311  Sum_probs=22.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .+++|+|+||||||+|+++++..+
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~   78 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANEL   78 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            489999999999999999999876

>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=96.37  E-value=0.0022  Score=59.90  Aligned_cols=51  Identities=20%  Similarity=0.156  Sum_probs=36.7

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ...++|.+.....+.-.+......        ....+++|+|+||+|||+|++.+++.+
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~--------~~~~~vli~G~~G~GKTtl~~~l~~~~   69 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYRE--------EKPNNIFIYGLTGTGKTAVVKFVLSKL   69 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGT--------CCCCCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcC--------CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            356889988777776655431100        111389999999999999999999866

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=96.36  E-value=0.0039  Score=53.78  Aligned_cols=33  Identities=24%  Similarity=0.332  Sum_probs=23.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC--------C-CeEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS--------P-RSVLTTGV  272 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~--------~-~~~~~~~~  272 (345)
                      ...|+.|+||+|||.++.......        + +.+|.++.
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~   47 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNI   47 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECC
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecC
Confidence            368899999999999987754332        2 66765543

>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=96.26  E-value=0.0032  Score=63.21  Aligned_cols=88  Identities=22%  Similarity=0.201  Sum_probs=49.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC---CCeEEEcCCccCc-------CCceEEEEeecCee---EeeeceeeecCCcEEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS---PRSVLTTGVGTTT-------AGLTVSALRENGEW---HLEAGALVLSDGGVCCI  307 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~---~~~~~~~~~~~~~-------~glt~~~~~~~~~~---~~~~G~l~la~~gi~~I  307 (345)
                      .+++.|+||||||+++..+...+   +..+.....+..+       .|..+.-...--.+   .+....-...+..+++|
T Consensus       206 ~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~~~~~~~~~~~~~~~~dvlII  285 (574)
T 3e1s_A          206 LVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVHRLLGYGPQGFRHNHLEPAPYDLLIV  285 (574)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHTSCEEEHHHHTTEETTEESCSSSSCCSCSEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecCcHHHHHHhHhhhcccHHHHHHHHcCCcchhhhhhcccccCCEEEE
Confidence            89999999999999999887654   2223222111100       01111100000000   00000001123579999


Q ss_pred             cCCCCCCHHhHHHHHHHHhCC
Q psy1366         308 DEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       308 DEidk~~~~~~~~l~eame~~  328 (345)
                      ||+..++......|++++..+
T Consensus       286 DEasml~~~~~~~Ll~~~~~~  306 (574)
T 3e1s_A          286 DEVSMMGDALMLSLLAAVPPG  306 (574)
T ss_dssp             CCGGGCCHHHHHHHHTTSCTT
T ss_pred             cCccCCCHHHHHHHHHhCcCC
Confidence            999999999888888887654

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.19  E-value=0.0035  Score=51.96  Aligned_cols=28  Identities=29%  Similarity=0.361  Sum_probs=24.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|.|+|+||+|||++++.++..++..++
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~l~~~~i   33 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQLNMEFY   33 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTTCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            7999999999999999999998775443

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.18  E-value=0.0033  Score=52.34  Aligned_cols=28  Identities=29%  Similarity=0.507  Sum_probs=25.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|+|.|+||+|||++++.+++.++..++
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~l~~~~~   32 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSVLPEPWL   32 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSSSCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCCeE
Confidence            6899999999999999999999876544

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.92  E-value=0.004  Score=52.22  Aligned_cols=30  Identities=20%  Similarity=0.414  Sum_probs=25.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .+|+|+|+||+|||++++.+++.++..++.
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l~~~~i~   35 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLTKRILYD   35 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence            379999999999999999999887655543

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.89  E-value=0.0044  Score=51.24  Aligned_cols=30  Identities=33%  Similarity=0.399  Sum_probs=25.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .+|+|.|.||+|||++++.+++.++..++-
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id   37 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLD   37 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence            489999999999999999999976665543

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.88  E-value=0.0046  Score=51.54  Aligned_cols=29  Identities=21%  Similarity=0.332  Sum_probs=24.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +|+|+|+||+|||++++.+++.++..++-
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            69999999999999999999887655443

>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=95.79  E-value=0.0058  Score=50.32  Aligned_cols=28  Identities=14%  Similarity=0.100  Sum_probs=24.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|+|.|+||+|||++++.+++.++..+.
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            5899999999999999999988665443

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.76  E-value=0.0054  Score=52.89  Aligned_cols=30  Identities=27%  Similarity=0.308  Sum_probs=25.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      +|+|.|+||+|||++++.+++.++..++..
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            589999999999999999988876555433

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.75  E-value=0.0051  Score=52.54  Aligned_cols=29  Identities=24%  Similarity=0.305  Sum_probs=25.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      -.|+|+|+||+|||++++.+++.++..++
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~~l~~~~i   54 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFARKLNVPFI   54 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHTCCEE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcCCCEE
Confidence            38999999999999999999988765544

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=95.73  E-value=0.013  Score=53.81  Aligned_cols=51  Identities=24%  Similarity=0.191  Sum_probs=38.2

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      +.++|.+.....+.-++..|              ..++++|++|+|||+|++.+++..+ .+|...
T Consensus        12 ~~~~gR~~el~~L~~~l~~~--------------~~v~i~G~~G~GKT~Ll~~~~~~~~-~~~~~~   62 (350)
T 2qen_A           12 EDIFDREEESRKLEESLENY--------------PLTLLLGIRRVGKSSLLRAFLNERP-GILIDC   62 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHHC--------------SEEEEECCTTSSHHHHHHHHHHHSS-EEEEEH
T ss_pred             HhcCChHHHHHHHHHHHhcC--------------CeEEEECCCcCCHHHHHHHHHHHcC-cEEEEe
Confidence            35788877666666555433              2899999999999999999998775 555543

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.65  E-value=0.007  Score=50.99  Aligned_cols=31  Identities=26%  Similarity=0.311  Sum_probs=25.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      -+.|+|+||+|||++++.++......++..+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~~g~~~i~~   34 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQLDNSAYIEG   34 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSSEEEEEH
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCCeEEEcc
Confidence            5789999999999999999986655565554

>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=95.64  E-value=0.0055  Score=51.23  Aligned_cols=31  Identities=29%  Similarity=0.427  Sum_probs=26.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .+|+|+|+||+|||++++.+++.++..++..
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            4799999999999999999998876655443

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=95.62  E-value=0.006  Score=51.53  Aligned_cols=24  Identities=25%  Similarity=0.566  Sum_probs=22.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ++.|+|++|+|||+|++.++.+.+
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            689999999999999999998875

>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=95.54  E-value=0.0076  Score=49.42  Aligned_cols=28  Identities=36%  Similarity=0.606  Sum_probs=23.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .|+|.|+||+|||++++.+ +..+..++.
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~   30 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIV   30 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEE
Confidence            6899999999999999999 766665544

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.51  E-value=0.0097  Score=50.57  Aligned_cols=30  Identities=10%  Similarity=0.263  Sum_probs=24.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      -+.|+|++|+|||+|++.++.+.| .++..+
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~~~-~~~~~~   38 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKALA-EIKISI   38 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSS-SEEECC
T ss_pred             EEEEECcCCCCHHHHHHHHHhhCC-CeEEec
Confidence            578999999999999999999986 444443

>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=95.46  E-value=0.013  Score=55.29  Aligned_cols=50  Identities=22%  Similarity=0.355  Sum_probs=33.3

Q ss_pred             CcccccchHHHHHHHHHH-h---CCCcccCCCCCceeeeeceee--eCCCCChHHHHHHHHHhhC
Q psy1366         205 CPAIYGLYLVKLCLAVVL-A---GGVGRGGEDGSKVRAESHLLL--VGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l-~---~g~~~~~~~~~~~r~~~~iLl--~G~pGtGKs~l~~~i~~~~  263 (345)
                      -+.++|.+.....+.-.+ .   .|..         ....++++  +|+||+|||+|++.+++.+
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~---------~~~~~~li~i~G~~G~GKT~L~~~~~~~~   76 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAG---------LSDVNMIYGSIGRVGIGKTTLAKFTVKRV   76 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSC---------BCCEEEEEECTTCCSSSHHHHHHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCC---------CCCCEEEEeCcCcCCCCHHHHHHHHHHHH
Confidence            356889876555554444 2   1200         01137888  9999999999999998765

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.46  E-value=0.0066  Score=52.30  Aligned_cols=29  Identities=21%  Similarity=0.328  Sum_probs=24.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .|+|.|+||+|||++++.+++.++..++.
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            58999999999999999998876655443

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.45  E-value=0.009  Score=50.33  Aligned_cols=29  Identities=28%  Similarity=0.484  Sum_probs=24.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh-CCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM-SPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~-~~~~~~  268 (345)
                      .+|+|+|+||+|||++++.+++. .+..++
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~l~g~~~i   40 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAELDGFQHL   40 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCCEEe
Confidence            47999999999999999999998 554443

>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=95.43  E-value=0.0079  Score=50.39  Aligned_cols=29  Identities=34%  Similarity=0.447  Sum_probs=24.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .|+|+|+||+|||++++.+++.++..++-
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id   32 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLD   32 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEe
Confidence            59999999999999999999876655443

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=95.40  E-value=0.009  Score=49.30  Aligned_cols=29  Identities=17%  Similarity=0.283  Sum_probs=24.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .|+|.|+||+|||++++.+++.++..++.
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            68999999999999999999977655543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.40  E-value=0.0077  Score=49.95  Aligned_cols=21  Identities=33%  Similarity=0.449  Sum_probs=20.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|+|.|+||+|||++++.+++
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHh
Confidence            589999999999999999998

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=95.34  E-value=0.0079  Score=52.11  Aligned_cols=30  Identities=27%  Similarity=0.371  Sum_probs=24.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .|+|+||||+||++.++.+++.++-....+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g~~~ist   31 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKGFVHIST   31 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCeEEcH
Confidence            589999999999999999999876544433

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=95.32  E-value=0.018  Score=54.13  Aligned_cols=87  Identities=20%  Similarity=0.158  Sum_probs=48.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC----eEEEcCCccCc--CCceEEEE-eecC--eeEeeecee---eecCCcEEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR----SVLTTGVGTTT--AGLTVSAL-RENG--EWHLEAGAL---VLSDGGVCCID  308 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~----~~~~~~~~~~~--~glt~~~~-~~~~--~~~~~~G~l---~la~~gi~~ID  308 (345)
                      .++++||+|+|||++++.+....+.    .+.+.......  ......+. +..+  ...+ ..++   ...+.-++++|
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~-~~~La~aL~~~PdvillD  203 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGF-SEALRSALREDPDIILVG  203 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCH-HHHHHHHTTSCCSEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCH-HHHHHHHhhhCcCEEecC
Confidence            7999999999999999999887642    23222211100  00000000 1100  0000 0111   23467899999


Q ss_pred             CCCCCCHHhHHHHHHHHhCCEE
Q psy1366         309 EFSSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       309 Eidk~~~~~~~~l~eame~~~i  330 (345)
                      |..  +.+....++++.+.+..
T Consensus       204 Ep~--d~e~~~~~~~~~~~G~~  223 (356)
T 3jvv_A          204 EMR--DLETIRLALTAAETGHL  223 (356)
T ss_dssp             CCC--SHHHHHHHHHHHHTTCE
T ss_pred             CCC--CHHHHHHHHHHHhcCCE
Confidence            997  46666677788777653

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.29  E-value=0.0089  Score=49.83  Aligned_cols=29  Identities=21%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|+|.|.||+|||++++.+++.++..++
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            36999999999999999999988876665

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.27  E-value=0.0076  Score=50.47  Aligned_cols=29  Identities=21%  Similarity=0.298  Sum_probs=24.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|+|+|+||+|||++++.+++.++..++
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~~~~i   33 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELGFKKL   33 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            47999999999999999999986655444

>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=95.23  E-value=0.01  Score=49.22  Aligned_cols=27  Identities=22%  Similarity=0.300  Sum_probs=23.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .++|+|+||+|||++++.++..++..+
T Consensus        10 ~i~l~G~~GsGKSTl~~~l~~~~g~~~   36 (175)
T 1knq_A           10 IYVLMGVSGSGKSAVASEVAHQLHAAF   36 (175)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHTCEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhhCcEE
Confidence            689999999999999999998765433

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.22  E-value=0.0093  Score=51.63  Aligned_cols=30  Identities=23%  Similarity=0.365  Sum_probs=25.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      ..|+|+|+||+|||++++.+++.++..++.
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            479999999999999999999887655443

>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=95.22  E-value=0.012  Score=48.76  Aligned_cols=24  Identities=25%  Similarity=0.286  Sum_probs=22.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+||.|.|||+|++.++.+.|
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l~   58 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCC
Confidence            688999999999999999999884

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.20  E-value=0.011  Score=49.63  Aligned_cols=24  Identities=29%  Similarity=0.495  Sum_probs=22.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+||+|+|||+|++.+....+
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            689999999999999999999876

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.19  E-value=0.011  Score=50.48  Aligned_cols=26  Identities=23%  Similarity=0.379  Sum_probs=22.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.+.|+|+||+|||++++.++...+.
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~~~g~   55 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVADETGL   55 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhhCC
Confidence            37899999999999999999987754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.17  E-value=0.011  Score=48.56  Aligned_cols=28  Identities=21%  Similarity=0.236  Sum_probs=24.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|+|.|.||+|||++++.+++.++..++
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i   29 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFY   29 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            5899999999999999999997665554

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.16  E-value=0.012  Score=50.26  Aligned_cols=29  Identities=17%  Similarity=0.331  Sum_probs=24.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|+|.|+||+|||++++.+++.++..++
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            37999999999999999999988764443

>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=95.15  E-value=0.0082  Score=50.49  Aligned_cols=25  Identities=40%  Similarity=0.618  Sum_probs=22.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -.+.|+|+||+|||++++.++....
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~~~   34 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANLPG   34 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhccC
Confidence            3689999999999999999998743

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.15  E-value=0.011  Score=50.33  Aligned_cols=30  Identities=23%  Similarity=0.313  Sum_probs=25.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      ..|+|+|+||+|||++++.+++.++..++.
T Consensus        21 ~~I~l~G~~GsGKST~a~~La~~l~~~~i~   50 (201)
T 2cdn_A           21 MRVLLLGPPGAGKGTQAVKLAEKLGIPQIS   50 (201)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCcEEe
Confidence            369999999999999999999876655543

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.11  E-value=0.034  Score=50.55  Aligned_cols=32  Identities=22%  Similarity=0.405  Sum_probs=25.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC-eEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR-SVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~-~~~~~~  271 (345)
                      .-++|.|+||+|||++++.+++.++. .+++++
T Consensus        34 ~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~   66 (287)
T 1gvn_B           34 TAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   66 (287)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeEEEec
Confidence            47999999999999999999987753 344443

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.10  E-value=0.011  Score=49.70  Aligned_cols=29  Identities=21%  Similarity=0.261  Sum_probs=24.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|+|.|.||+|||++++.+++.++..++
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            46999999999999999999987665443

>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=95.09  E-value=0.01  Score=49.87  Aligned_cols=28  Identities=18%  Similarity=0.323  Sum_probs=23.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      ..|+|.|+||+|||++++.+++.++..+
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~~l~~~~   33 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALATGLRLPL   33 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHTCCE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCeE
Confidence            4799999999999999999998765433

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.06  E-value=0.014  Score=52.14  Aligned_cols=28  Identities=18%  Similarity=0.242  Sum_probs=23.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .++|+|+||+|||++++.+++..+..+.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i   30 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVV   30 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEE
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEE
Confidence            4789999999999999999987765443

>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=95.06  E-value=0.073  Score=46.48  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=22.4

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..+.|+|+|++|+|||+|+..+....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCC
Confidence            34799999999999999999988643

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.04  E-value=0.011  Score=51.20  Aligned_cols=30  Identities=20%  Similarity=0.289  Sum_probs=24.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      ..|.|+|+||+|||++++.+++.++-....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            369999999999999999999876544433

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.00  E-value=0.013  Score=50.11  Aligned_cols=26  Identities=27%  Similarity=0.460  Sum_probs=23.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..++|+|+||+|||++++.+++.++.
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~~~~~   38 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLSEFPS   38 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHCTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCcc
Confidence            36899999999999999999998863

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.99  E-value=0.01  Score=49.96  Aligned_cols=29  Identities=24%  Similarity=0.363  Sum_probs=24.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|.|.|+||+|||++++.+++.++..++
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            37999999999999999999987765544

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=94.97  E-value=0.029  Score=49.86  Aligned_cols=26  Identities=27%  Similarity=0.447  Sum_probs=23.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..++|+|+||+|||++++.+++.++.
T Consensus        33 ~~i~l~G~~GsGKSTla~~L~~~l~~   58 (253)
T 2p5t_B           33 IAILLGGQSGAGKTTIHRIKQKEFQG   58 (253)
T ss_dssp             EEEEEESCGGGTTHHHHHHHHHHTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            47999999999999999999998864

>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=94.95  E-value=0.0073  Score=53.05  Aligned_cols=35  Identities=17%  Similarity=0.019  Sum_probs=22.1

Q ss_pred             CcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCe
Q psy1366         302 GGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKE  337 (345)
Q Consensus       302 ~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi  337 (345)
                      ..+++|||+.-++.+....+..+... .+.+--.|.
T Consensus        90 ~dvViIDEaQ~l~~~~ve~l~~L~~~-gi~Vil~Gl  124 (223)
T 2b8t_A           90 TKVIGIDEVQFFDDRICEVANILAEN-GFVVIISGL  124 (223)
T ss_dssp             CCEEEECSGGGSCTHHHHHHHHHHHT-TCEEEEECC
T ss_pred             CCEEEEecCccCcHHHHHHHHHHHhC-CCeEEEEec
Confidence            46999999999987754444443333 454444444

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.92  E-value=0.014  Score=50.89  Aligned_cols=29  Identities=21%  Similarity=0.322  Sum_probs=25.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|+|.|+||+|||++++.+++.++...+
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i   36 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITTHFELKHL   36 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHSSSEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCeEE
Confidence            47999999999999999999988765544

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=94.91  E-value=0.015  Score=48.58  Aligned_cols=26  Identities=23%  Similarity=0.391  Sum_probs=22.7

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +..+.|+++|++|+|||+|+.++...
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhC
Confidence            44579999999999999999998764

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=94.90  E-value=0.012  Score=51.46  Aligned_cols=31  Identities=26%  Similarity=0.281  Sum_probs=26.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .+|+|+|+||+|||++++.+++.+...++.+
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            4799999999999999999998876555443

>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=94.90  E-value=0.011  Score=51.06  Aligned_cols=30  Identities=23%  Similarity=0.393  Sum_probs=24.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      +|+|.|+||+|||++++.+++.++..++.+
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            589999999999999999998766544443

>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=94.86  E-value=0.022  Score=48.53  Aligned_cols=27  Identities=37%  Similarity=0.493  Sum_probs=23.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .|.|.||+|+|||+|++.+.+..|..+
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            689999999999999999998877543

>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=94.86  E-value=0.014  Score=51.70  Aligned_cols=31  Identities=26%  Similarity=0.375  Sum_probs=25.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      ..|+|.|+||+|||++++.+++.++...+.+
T Consensus        30 ~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           30 GRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            5899999999999999999998766555443

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=94.86  E-value=0.015  Score=47.40  Aligned_cols=25  Identities=32%  Similarity=0.464  Sum_probs=21.8

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +..++|+++|++|+|||+|+..+..
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~   29 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQV   29 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhc
Confidence            3447999999999999999999865

>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=94.85  E-value=0.014  Score=48.89  Aligned_cols=25  Identities=20%  Similarity=0.329  Sum_probs=22.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..|+|.|+||+|||++++.+++.++
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3799999999999999999998665

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=94.82  E-value=0.023  Score=53.69  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=22.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .++++|++|+|||++++.++...+
T Consensus       138 ~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcC
Confidence            799999999999999999998764

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.80  E-value=0.012  Score=51.40  Aligned_cols=28  Identities=21%  Similarity=0.316  Sum_probs=23.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      -|+|+||||+||++.++.+++.++-...
T Consensus        31 iI~llGpPGsGKgTqa~~L~~~~g~~hI   58 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQKFHFNHL   58 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHHHHCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            5788999999999999999988765443

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.79  E-value=0.014  Score=49.16  Aligned_cols=28  Identities=21%  Similarity=0.339  Sum_probs=24.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|.|.|+||+|||++++.+++.++..++
T Consensus        14 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i   41 (199)
T 2bwj_A           14 IIFIIGGPGSGKGTQCEKLVEKYGFTHL   41 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            6999999999999999999997765444

>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=94.78  E-value=0.014  Score=48.73  Aligned_cols=29  Identities=24%  Similarity=0.302  Sum_probs=24.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|+|.|+||+|||++++.+++.++..++
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            36999999999999999999987665444

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=94.77  E-value=0.013  Score=49.10  Aligned_cols=24  Identities=33%  Similarity=0.469  Sum_probs=21.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .|+|.|+||+|||++++.+++.++
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            589999999999999999998765

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=94.77  E-value=0.018  Score=48.98  Aligned_cols=30  Identities=23%  Similarity=0.327  Sum_probs=25.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      ..|+|.|+||+|||++++.+++.++..++.
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            369999999999999999999887654443

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=94.76  E-value=0.017  Score=48.85  Aligned_cols=27  Identities=22%  Similarity=0.310  Sum_probs=23.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .|.|.|.||+|||++++.+++.++..+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~   28 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEI   28 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEE
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcE
Confidence            588999999999999999999776543

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.74  E-value=0.013  Score=50.72  Aligned_cols=31  Identities=35%  Similarity=0.606  Sum_probs=25.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      ..|+|+|+||+|||++++.+++.++..++..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            4799999999999999999998776555433

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.72  E-value=0.015  Score=50.66  Aligned_cols=30  Identities=20%  Similarity=0.355  Sum_probs=24.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .|+|.|+||+|||++++.+++.++..++.+
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            589999999999999999998766554444

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=94.71  E-value=0.016  Score=49.22  Aligned_cols=24  Identities=25%  Similarity=0.296  Sum_probs=22.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..+.|+|++|+|||++++.++...
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            368999999999999999999987

>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=94.63  E-value=0.014  Score=51.59  Aligned_cols=25  Identities=20%  Similarity=0.388  Sum_probs=21.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -.+.|+|+||+|||++++.+++.++
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3799999999999999999995543

>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=94.61  E-value=0.017  Score=49.71  Aligned_cols=25  Identities=20%  Similarity=0.331  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||++++.++...+.
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             EEEEECcCCCCHHHHHHHHHhhCCC
Confidence            6889999999999999999998864

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.60  E-value=0.02  Score=51.17  Aligned_cols=30  Identities=27%  Similarity=0.370  Sum_probs=25.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .|.|+|++|+|||++++.+++.++..++-+
T Consensus        50 ~i~l~G~~GsGKSTl~~~La~~lg~~~~d~   79 (250)
T 3nwj_A           50 SMYLVGMMGSGKTTVGKIMARSLGYTFFDC   79 (250)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCcEEeC
Confidence            899999999999999999999777655443

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.59  E-value=0.015  Score=49.47  Aligned_cols=26  Identities=23%  Similarity=0.212  Sum_probs=22.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..|+|.|+||+|||++++.+++.++.
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            36999999999999999999987653

>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=94.53  E-value=0.018  Score=49.02  Aligned_cols=25  Identities=24%  Similarity=0.291  Sum_probs=22.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..+.|+|++|+|||++++.++..++
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3799999999999999999998763

>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=94.52  E-value=0.026  Score=48.67  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=20.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -+.|+||+|+|||+|++.++...
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998744

>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=94.44  E-value=0.029  Score=51.56  Aligned_cols=50  Identities=20%  Similarity=0.083  Sum_probs=35.4

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC-CeEEEcC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP-RSVLTTG  271 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~-~~~~~~~  271 (345)
                      +.++|.+.....+.- +..               ..++++|++|+|||+|++.+++... ..+|...
T Consensus        13 ~~~~gR~~el~~L~~-l~~---------------~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~   63 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA---------------PITLVLGLRRTGKSSIIKIGINELNLPYIYLDL   63 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS---------------SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEG
T ss_pred             HHhcChHHHHHHHHH-hcC---------------CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEc
Confidence            457888766655554 322               1899999999999999999987653 3455543

>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=94.43  E-value=0.025  Score=47.08  Aligned_cols=28  Identities=21%  Similarity=0.293  Sum_probs=24.0

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ...++|+++|++|+|||+|++++....+
T Consensus        12 ~~~~ki~vvG~~~~GKssL~~~l~~~~~   39 (198)
T 3t1o_A           12 EINFKIVYYGPGLSGKTTNLKWIYSKVP   39 (198)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHTSC
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHhhcc
Confidence            3457999999999999999999987654

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.31  E-value=0.017  Score=50.06  Aligned_cols=26  Identities=19%  Similarity=0.350  Sum_probs=23.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..|+|+|+||+|||++++.+++.++.
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l~~   31 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKYQL   31 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            47999999999999999999987764

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=94.30  E-value=0.025  Score=45.55  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=20.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++|+++|+||+|||+|+..+..-
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            68999999999999999988753

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.29  E-value=0.024  Score=46.09  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=20.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+++|+||+|||+|++.+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            6899999999999999999864

>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=94.28  E-value=0.027  Score=47.85  Aligned_cols=26  Identities=27%  Similarity=0.388  Sum_probs=22.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .|.|+|++|+|||++++.+++ .+..+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~   28 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYV   28 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEE
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEE
Confidence            589999999999999999999 55433

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=94.26  E-value=0.025  Score=45.71  Aligned_cols=24  Identities=21%  Similarity=0.367  Sum_probs=21.5

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|++.+...
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            478999999999999999998763

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=94.23  E-value=0.073  Score=46.78  Aligned_cols=88  Identities=11%  Similarity=0.018  Sum_probs=48.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC-eEEEcCCccCc---------CCce-EEEEeec----Cee-Eeeeceee------
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR-SVLTTGVGTTT---------AGLT-VSALREN----GEW-HLEAGALV------  298 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~-~~~~~~~~~~~---------~glt-~~~~~~~----~~~-~~~~G~l~------  298 (345)
                      ++++.||+|+|||.++..++..... .+++.-..+..         -++. ......+    ... ...++.+.      
T Consensus       110 ~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P~~~L~~q~~~~~~~~~~~~v~~~~g~~~~~~~i~v~T~~~l~~~~~~~  189 (237)
T 2fz4_A          110 RGCIVLPTGSGKTHVAMAAINELSTPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGRIKELKPLTVSTYDSAYVNAEKL  189 (237)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEESSHHHHHHHHHHHGGGCGGGEEEESSSCBCCCSEEEEEHHHHHHTHHHH
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHhCCCCeEEEEeCCCCCcCCEEEEeHHHHHhhHHHh
Confidence            5999999999999998877766543 33333221100         1222 2221110    000 00011110      


Q ss_pred             ecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         299 LSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       299 la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      ..+-++++|||++.+.......+.+.+...
T Consensus       190 ~~~~~llIiDEaH~l~~~~~~~i~~~~~~~  219 (237)
T 2fz4_A          190 GNRFMLLIFDEVHHLPAESYVQIAQMSIAP  219 (237)
T ss_dssp             TTTCSEEEEECSSCCCTTTHHHHHHTCCCS
T ss_pred             cccCCEEEEECCccCCChHHHHHHHhccCC
Confidence            023589999999999887766666665543

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.16  E-value=0.026  Score=45.74  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=20.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++|+++|++|+|||+|++.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            6899999999999999999875

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=94.16  E-value=0.029  Score=45.54  Aligned_cols=25  Identities=16%  Similarity=0.201  Sum_probs=21.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|++.+...
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            5 YSFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3479999999999999999998754

>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=94.15  E-value=0.027  Score=48.30  Aligned_cols=24  Identities=25%  Similarity=0.502  Sum_probs=22.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+||+|+|||+|++.++.+.+
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            688999999999999999999986

>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=94.12  E-value=0.025  Score=49.98  Aligned_cols=31  Identities=29%  Similarity=0.267  Sum_probs=25.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      ..+.|.|+||+|||++++.+++.++..++..
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~lg~~~~d~   40 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARALGARYLDT   40 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCcccC
Confidence            5899999999999999999998876544433

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.12  E-value=0.03  Score=49.71  Aligned_cols=32  Identities=22%  Similarity=0.325  Sum_probs=26.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      ..|.|+|++|+|||++++.+++.++...+.+|
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~~Lg~~~~d~g   59 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAESLNWRLLDSG   59 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHTTCEEEEHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCCCcCCCC
Confidence            37999999999999999999987765544433

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.11  E-value=0.03  Score=45.32  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=21.1

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|++.+...
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999988754

>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=94.10  E-value=0.031  Score=45.18  Aligned_cols=24  Identities=25%  Similarity=0.445  Sum_probs=21.6

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..++|+++|++|+|||+|+.++..
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            5 CQFKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHc
Confidence            457999999999999999999875

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.10  E-value=0.038  Score=51.22  Aligned_cols=25  Identities=20%  Similarity=0.235  Sum_probs=22.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-+.|.|++|+|||++++.+..++.
T Consensus        93 ~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           93 YIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5789999999999999999998864

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=94.09  E-value=0.023  Score=48.57  Aligned_cols=24  Identities=33%  Similarity=0.457  Sum_probs=22.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+||+|+|||+|++.+....+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCc
Confidence            789999999999999999998765

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=94.09  E-value=0.032  Score=45.68  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=22.0

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|++.+..-
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcC
Confidence            4479999999999999999998754

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=94.08  E-value=0.029  Score=45.42  Aligned_cols=25  Identities=40%  Similarity=0.456  Sum_probs=22.0

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .++|+++|++|+|||+|++.+....
T Consensus         6 ~~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            6 ELKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            4799999999999999999987643

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=94.07  E-value=0.029  Score=45.97  Aligned_cols=26  Identities=19%  Similarity=0.432  Sum_probs=21.8

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +..++|+++|++|+|||+|++.+...
T Consensus         6 ~~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            6 KNILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhC
Confidence            34579999999999999999888753

>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=94.03  E-value=0.033  Score=47.44  Aligned_cols=26  Identities=23%  Similarity=0.286  Sum_probs=22.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .+.|+|++|+|||++++.++. ++..+
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~   29 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPL   29 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCE
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcc
Confidence            588999999999999999998 44433

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=94.00  E-value=0.029  Score=45.73  Aligned_cols=23  Identities=30%  Similarity=0.634  Sum_probs=20.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+++|+||+|||+|++.+...
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            68999999999999999988743

>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=93.99  E-value=0.038  Score=47.45  Aligned_cols=25  Identities=32%  Similarity=0.569  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.+.+..+.
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~~~~~   45 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLSQNPE   45 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             EEEEECcCCCCHHHHHHHHHhhCCc
Confidence            5889999999999999999998773

>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=93.97  E-value=0.045  Score=46.74  Aligned_cols=31  Identities=13%  Similarity=0.112  Sum_probs=23.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC-CeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP-RSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~-~~~~~~~  271 (345)
                      -++|+|+||+|||+|++.++.... +.+|.+.
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~   53 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGLLSGKKVAYVDT   53 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCSEEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEEEC
Confidence            689999999999999999987222 2345544

>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=93.97  E-value=0.031  Score=45.00  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++|+++|++|+|||+|++.+...
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            68999999999999999998753

>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=93.97  E-value=0.031  Score=45.11  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=20.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++|+++|++|+|||+|++++..
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~   25 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            6899999999999999999875

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=93.96  E-value=0.033  Score=46.62  Aligned_cols=23  Identities=22%  Similarity=0.187  Sum_probs=21.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .|.|.|.||+|||++++.+++.+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48899999999999999999865

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=93.95  E-value=0.027  Score=46.82  Aligned_cols=24  Identities=25%  Similarity=0.524  Sum_probs=21.5

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|++.+..-
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            478999999999999999998764

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.91  E-value=0.027  Score=50.77  Aligned_cols=25  Identities=24%  Similarity=0.437  Sum_probs=22.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      +++.|+|++|+|||+|++.++.+..
T Consensus         3 f~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            3 FNIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6899999999999999999997653

>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=93.89  E-value=0.033  Score=48.62  Aligned_cols=24  Identities=21%  Similarity=0.455  Sum_probs=22.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+||+|+|||+|++.+....+
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            578999999999999999999887

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=93.88  E-value=0.033  Score=45.61  Aligned_cols=24  Identities=17%  Similarity=0.407  Sum_probs=21.3

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|++.+..-
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            479999999999999999998753

>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=93.87  E-value=0.035  Score=47.34  Aligned_cols=25  Identities=20%  Similarity=0.282  Sum_probs=22.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..+.++|+||+|||++++.+++.++
T Consensus        22 ~~i~i~G~~GsGKSTl~~~L~~~~~   46 (207)
T 2qt1_A           22 FIIGISGVTNSGKTTLAKNLQKHLP   46 (207)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTTST
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4689999999999999999999874

>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=93.87  E-value=0.031  Score=47.22  Aligned_cols=24  Identities=38%  Similarity=0.610  Sum_probs=21.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +.+.|+|++|+|||+|++.+....
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            689999999999999999998764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.86  E-value=0.029  Score=47.47  Aligned_cols=30  Identities=13%  Similarity=0.164  Sum_probs=22.5

Q ss_pred             CCceeeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         233 GSKVRAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       233 ~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++.....+.|+++|++|+|||+|++.+..-
T Consensus        18 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           18 GMPLVRYRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             -----CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CCCCCCcEEEEEECCCCcCHHHHHHHHHhC
Confidence            334455689999999999999999998864

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=93.85  E-value=0.033  Score=48.33  Aligned_cols=29  Identities=24%  Similarity=0.370  Sum_probs=24.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      -+.|+||+|+|||+|++.++.+.|..++.
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~pG~i~~   53 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEFPNYFYF   53 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHSTTTEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCCCcEEE
Confidence            68899999999999999999988623443

>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=93.84  E-value=0.041  Score=47.84  Aligned_cols=21  Identities=24%  Similarity=0.222  Sum_probs=20.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      -++|+|+||+|||+|++.++.
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~   46 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAV   46 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            789999999999999999988

>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=93.84  E-value=0.03  Score=44.94  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++|+++|++|+|||+|++.+...
T Consensus         4 ~~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            4 YKLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            68999999999999999998754

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=93.82  E-value=0.14  Score=45.11  Aligned_cols=23  Identities=43%  Similarity=0.551  Sum_probs=20.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..+|+|+|+||+|||+|+..+..
T Consensus        22 ~~~I~lvG~~g~GKStl~n~l~~   44 (260)
T 2xtp_A           22 ELRIILVGKTGTGKSAAGNSILR   44 (260)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHhC
Confidence            36999999999999999999874

>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=93.77  E-value=0.03  Score=46.72  Aligned_cols=23  Identities=30%  Similarity=0.661  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+++|++|+|||+|++.+...
T Consensus         3 ~kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            3 MKLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            57999999999999999998763

>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=93.77  E-value=0.033  Score=44.97  Aligned_cols=22  Identities=36%  Similarity=0.406  Sum_probs=19.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +|+++|++|+|||+|+..+..-
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            6899999999999999998653

>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=93.77  E-value=0.047  Score=49.40  Aligned_cols=25  Identities=32%  Similarity=0.458  Sum_probs=21.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .|+|.|+||+|||++++.+++....
T Consensus         4 ~I~l~G~~GsGKST~a~~L~~~~~~   28 (301)
T 1ltq_A            4 IILTIGCPGSGKSTWAREFIAKNPG   28 (301)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCCC
Confidence            5899999999999999999986433

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=93.75  E-value=0.029  Score=48.08  Aligned_cols=25  Identities=28%  Similarity=0.387  Sum_probs=22.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..+.|+|++|+|||+|++.++.+++
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            4789999999999999999998875

>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=93.75  E-value=0.043  Score=48.90  Aligned_cols=23  Identities=35%  Similarity=0.546  Sum_probs=21.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|+|.|.||+|||++++.+++.
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHH
Confidence            36999999999999999999986

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=93.74  E-value=0.033  Score=47.62  Aligned_cols=25  Identities=20%  Similarity=0.485  Sum_probs=22.1

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..+|+++|++|+|||+|+..+....
T Consensus        12 ~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           12 QPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4699999999999999999988654

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=93.74  E-value=0.038  Score=46.15  Aligned_cols=28  Identities=25%  Similarity=0.278  Sum_probs=23.4

Q ss_pred             ceeeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         235 KVRAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       235 ~~r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..+..++|+++|++|+|||+|++.+..-
T Consensus        18 ~~~~~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           18 GSKEEMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             -CCEEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCCccEEEEECCCCCCHHHHHHHHHcC
Confidence            3455689999999999999999998753

>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=93.74  E-value=0.033  Score=47.12  Aligned_cols=25  Identities=16%  Similarity=0.163  Sum_probs=22.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..|.|.|+||+|||++++.+++.++
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l~   29 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESIP   29 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHC
Confidence            4799999999999999999999873

>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=93.73  E-value=0.037  Score=45.83  Aligned_cols=24  Identities=29%  Similarity=0.421  Sum_probs=21.6

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..++|+++|++|+|||+|+.++..
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~~   33 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYTD   33 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhc
Confidence            347999999999999999999875

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.70  E-value=0.037  Score=44.46  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|+++|++|+|||+|++.+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            37999999999999999998864

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=93.69  E-value=0.036  Score=46.46  Aligned_cols=25  Identities=28%  Similarity=0.389  Sum_probs=22.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..|+|+|.||+|||++++.++..++
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            4799999999999999999998764

>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=93.68  E-value=0.036  Score=46.96  Aligned_cols=30  Identities=17%  Similarity=0.214  Sum_probs=25.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .|.|.|++|+|||++++.+++.++..++-.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~   33 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSS   33 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceecc
Confidence            688999999999999999999776555443

>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=93.66  E-value=0.032  Score=45.21  Aligned_cols=23  Identities=39%  Similarity=0.518  Sum_probs=20.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++|+++|++|+|||+|+..+..-
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            68999999999999999998753

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=93.63  E-value=0.028  Score=45.49  Aligned_cols=22  Identities=36%  Similarity=0.662  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+++|+||+|||+|++.+..
T Consensus         3 ~ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            3 YKVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             CEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHcC
Confidence            5899999999999999998853

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=93.63  E-value=0.04  Score=46.02  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=21.3

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ...+.|+++|++|+|||+|++.+..
T Consensus        18 ~~~~ki~ivG~~~vGKSsL~~~~~~   42 (184)
T 3ihw_A           18 GPELKVGIVGNLSSGKSALVHRYLT   42 (184)
T ss_dssp             CCEEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhc
Confidence            4458999999999999999976654

>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=93.61  E-value=0.038  Score=45.17  Aligned_cols=23  Identities=30%  Similarity=0.527  Sum_probs=20.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..+.|+|+||+|||+|++.+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            57999999999999999999864

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.61  E-value=0.042  Score=45.54  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...++|+|++|+|||+|++.+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999763

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.61  E-value=0.028  Score=46.72  Aligned_cols=18  Identities=39%  Similarity=0.667  Sum_probs=16.6

Q ss_pred             ceeeeCCCCChHHHHHHH
Q psy1366         241 HLLLVGDPGTGKSEILKF  258 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~  258 (345)
                      -+.|+|++|+|||+|++.
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            688999999999999993

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.60  E-value=0.041  Score=45.14  Aligned_cols=26  Identities=35%  Similarity=0.452  Sum_probs=22.4

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...++|+++|++|+|||+|+..+...
T Consensus         8 ~~~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A            8 DVAFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhC
Confidence            34579999999999999999998754

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=93.60  E-value=0.039  Score=45.04  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=22.0

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|++.+...
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3479999999999999999998764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.59  E-value=0.041  Score=51.72  Aligned_cols=26  Identities=23%  Similarity=0.501  Sum_probs=23.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.++++|++|+|||+|++.+..+.+.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~~  201 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIPF  201 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            38999999999999999999998864

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=93.59  E-value=0.036  Score=47.63  Aligned_cols=22  Identities=32%  Similarity=0.461  Sum_probs=19.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+|+||+|||+|++.++..
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6889999999999999999854

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.55  E-value=0.051  Score=46.97  Aligned_cols=22  Identities=18%  Similarity=0.244  Sum_probs=20.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+|++|+|||+|++.++.+
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            6889999999999999999987

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=93.53  E-value=0.032  Score=47.56  Aligned_cols=24  Identities=21%  Similarity=0.216  Sum_probs=21.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..|.|.|.||+|||++++.+++.+
T Consensus        11 ~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            479999999999999999999864

>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=93.51  E-value=0.045  Score=46.17  Aligned_cols=28  Identities=25%  Similarity=0.377  Sum_probs=23.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|.|+|++|+|||++++.+++. +..++
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            47999999999999999999987 44443

>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=93.51  E-value=0.042  Score=50.89  Aligned_cols=22  Identities=14%  Similarity=0.359  Sum_probs=19.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+||+||||+|||+|+..++..
T Consensus       125 viLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          125 MVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             EEEEECSCSSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHh
Confidence            5799999999999999999865

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=93.50  E-value=0.044  Score=45.24  Aligned_cols=24  Identities=33%  Similarity=0.422  Sum_probs=21.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|+..+...
T Consensus         4 ~~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            4 EYKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHhC
Confidence            378999999999999999999754

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=93.47  E-value=0.043  Score=45.07  Aligned_cols=25  Identities=32%  Similarity=0.498  Sum_probs=21.8

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|++.+..-
T Consensus        11 ~~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           11 INAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3479999999999999999998753

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=93.44  E-value=0.043  Score=45.83  Aligned_cols=25  Identities=28%  Similarity=0.492  Sum_probs=21.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..+.|+++|++|+|||+|++++...
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcC
Confidence            3479999999999999999988763

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=93.44  E-value=0.035  Score=45.64  Aligned_cols=24  Identities=29%  Similarity=0.342  Sum_probs=21.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|++.+..-
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            478999999999999999998763

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=93.42  E-value=0.044  Score=45.23  Aligned_cols=24  Identities=33%  Similarity=0.407  Sum_probs=21.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|+..+..-
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            479999999999999999998753

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.40  E-value=0.042  Score=44.99  Aligned_cols=24  Identities=17%  Similarity=0.350  Sum_probs=21.2

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...|+++|++|+|||+|+..+..-
T Consensus         8 ~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            8 PPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999998753

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=93.39  E-value=0.056  Score=44.91  Aligned_cols=26  Identities=27%  Similarity=0.437  Sum_probs=22.6

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...++|+++|++|+|||+|+..+...
T Consensus        13 ~~~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           13 LTTLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcC
Confidence            44579999999999999999998754

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=93.39  E-value=0.035  Score=45.84  Aligned_cols=23  Identities=26%  Similarity=0.491  Sum_probs=21.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|.|+|+||+|||+|++.+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999864

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=93.38  E-value=0.045  Score=46.02  Aligned_cols=25  Identities=28%  Similarity=0.311  Sum_probs=21.8

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|+..+..-
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            4479999999999999999998753

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=93.37  E-value=0.043  Score=44.89  Aligned_cols=24  Identities=38%  Similarity=0.516  Sum_probs=20.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..++|+++|++|+|||+|++.+..
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCS
T ss_pred             cceEEEEECCCCCCHHHHHHHHhc
Confidence            447999999999999999998753

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.37  E-value=0.043  Score=45.76  Aligned_cols=24  Identities=21%  Similarity=0.481  Sum_probs=21.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..|+++|++|+|||+|+..+....
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            689999999999999999998654

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=93.37  E-value=0.047  Score=45.69  Aligned_cols=26  Identities=23%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +..++|+++|++|+|||+|++.+..-
T Consensus        21 ~~~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           21 KKALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceeeEEEEECcCCCCHHHHHHHHhcC
Confidence            44579999999999999999998764

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=93.33  E-value=0.042  Score=44.86  Aligned_cols=23  Identities=17%  Similarity=0.387  Sum_probs=20.9

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .++|+++|++|+|||+|+..+..
T Consensus        14 ~~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           14 KFKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHc
Confidence            37999999999999999999874

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.32  E-value=0.069  Score=49.44  Aligned_cols=28  Identities=18%  Similarity=0.407  Sum_probs=24.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .++|+|++|+|||+|++.+++.++..+.
T Consensus         7 ~i~i~GptGsGKTtla~~La~~l~~~ii   34 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALADALPCELI   34 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEE
Confidence            6899999999999999999999875443

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=93.31  E-value=0.046  Score=44.99  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.9

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .++|+++|++|+|||+|++.+..
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~   27 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTT   27 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHc
Confidence            47999999999999999998875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.31  E-value=0.029  Score=47.98  Aligned_cols=25  Identities=16%  Similarity=0.216  Sum_probs=22.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..+.|+|++|+|||+|++.++.+.+
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            3689999999999999999999865

>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=93.28  E-value=0.044  Score=46.40  Aligned_cols=25  Identities=36%  Similarity=0.492  Sum_probs=21.0

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +..+.|+++|++|+|||+|+.++..
T Consensus        18 ~~~~~i~v~G~~~~GKSsli~~l~~   42 (213)
T 3cph_A           18 DSIMKILLIGDSGVGKSCLLVRFVE   42 (213)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHh
Confidence            4457999999999999999998874

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=93.28  E-value=0.042  Score=44.94  Aligned_cols=24  Identities=29%  Similarity=0.383  Sum_probs=21.5

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|++++...
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            368999999999999999998764

>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=93.27  E-value=0.046  Score=45.44  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=21.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..+.|+|.+|+|||++++.++..+
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            368899999999999999999875

>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=93.25  E-value=0.04  Score=46.33  Aligned_cols=26  Identities=35%  Similarity=0.479  Sum_probs=22.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.+.|+|++|+|||+|++.+.....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~~   54 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNEF   54 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCCC
Confidence            36899999999999999999987653

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=93.24  E-value=0.049  Score=45.53  Aligned_cols=26  Identities=27%  Similarity=0.312  Sum_probs=21.5

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...+.|+++|++|+|||+|++.+..-
T Consensus        19 ~~~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           19 PLEVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHhC
Confidence            34479999999999999999887653

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=93.22  E-value=0.07  Score=52.60  Aligned_cols=26  Identities=23%  Similarity=0.397  Sum_probs=23.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+++++|++|+|||++++++..+.+.
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~~i~~  286 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMMFIPP  286 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCCC
Confidence            37999999999999999999998875

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.22  E-value=0.042  Score=45.91  Aligned_cols=25  Identities=20%  Similarity=0.329  Sum_probs=21.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|+.++..-
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcC
Confidence            3479999999999999999998763

>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=93.21  E-value=0.038  Score=47.10  Aligned_cols=24  Identities=21%  Similarity=0.148  Sum_probs=21.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..|.|.|.||+|||++++.+++.+
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            479999999999999999999764

>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=93.17  E-value=0.046  Score=51.78  Aligned_cols=28  Identities=14%  Similarity=0.166  Sum_probs=23.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      -.++|+|+||+|||+|++.++......+
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~~~~g~~  197 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLELCGGKA  197 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHCCEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcCCcE
Confidence            3799999999999999999998754433

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=93.17  E-value=0.051  Score=45.80  Aligned_cols=25  Identities=20%  Similarity=0.449  Sum_probs=21.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|+..+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3479999999999999999998754

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=93.16  E-value=0.044  Score=45.40  Aligned_cols=23  Identities=39%  Similarity=0.496  Sum_probs=20.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .++|+++|++|+|||+|+..+..
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~   40 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNG   40 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Confidence            47999999999999999998864

>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=93.16  E-value=0.059  Score=50.41  Aligned_cols=34  Identities=18%  Similarity=0.282  Sum_probs=27.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC--C--------CeEEEcCCc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS--P--------RSVLTTGVG  273 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~--~--------~~~~~~~~~  273 (345)
                      --+.|+|+||+|||+|++.++...  +        +.+|+.+..
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~  175 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN  175 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCC
Confidence            478999999999999999999887  2        237777644

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=93.15  E-value=0.051  Score=44.70  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=21.5

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|++.+..-
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC
Confidence            479999999999999999998753

>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=93.14  E-value=0.053  Score=45.06  Aligned_cols=24  Identities=33%  Similarity=0.410  Sum_probs=21.5

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|+..+..-
T Consensus        21 ~~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           21 EYKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECcCCCCHHHHHHHHHcC
Confidence            479999999999999999999754

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.11  E-value=0.05  Score=45.64  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=21.5

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|++.+..-
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            379999999999999999998764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.09  E-value=0.047  Score=48.32  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=23.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.+.|+||+|+|||+|++.++.+.+.
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~~p   50 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIVKP   50 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            36889999999999999999998764

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=93.07  E-value=0.05  Score=44.77  Aligned_cols=24  Identities=17%  Similarity=0.212  Sum_probs=21.3

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..++|+++|++|+|||+|+..+..
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHc
Confidence            347999999999999999999874

>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=93.04  E-value=0.057  Score=47.78  Aligned_cols=26  Identities=15%  Similarity=0.169  Sum_probs=23.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..|.|.|+||+|||++++.+++.++.
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg~   48 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLGQ   48 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            57999999999999999999997664

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.04  E-value=0.054  Score=46.09  Aligned_cols=23  Identities=35%  Similarity=0.730  Sum_probs=21.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .+.|+|++|+|||+|++.++...
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            68999999999999999999875

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=93.02  E-value=0.055  Score=45.03  Aligned_cols=24  Identities=17%  Similarity=0.223  Sum_probs=21.3

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..++|+++|++|+|||+|+..+..
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~   42 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCA   42 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHc
Confidence            347999999999999999999875

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=92.97  E-value=0.046  Score=47.98  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=21.8

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ||.++|++.|+||+|||+++-.++..
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la~~   29 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAAHA   29 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHH
Confidence            67789999999999999996666543

>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=92.96  E-value=0.053  Score=44.54  Aligned_cols=24  Identities=25%  Similarity=0.185  Sum_probs=21.3

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|++.+..-
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999988754

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=92.96  E-value=0.053  Score=46.53  Aligned_cols=26  Identities=35%  Similarity=0.516  Sum_probs=21.6

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...+.|+++|++|+|||+|++.+..-
T Consensus        25 ~~~~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           25 VARCKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcC
Confidence            44589999999999999999988753

>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=92.95  E-value=0.049  Score=44.95  Aligned_cols=25  Identities=32%  Similarity=0.404  Sum_probs=21.7

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|++.+..-
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3479999999999999999988753

>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=92.93  E-value=0.042  Score=48.42  Aligned_cols=25  Identities=24%  Similarity=0.485  Sum_probs=22.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+||+|+|||+|++.++.+.+.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~~p   57 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLDKP   57 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCC
Confidence            6899999999999999999988764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=92.92  E-value=0.037  Score=48.34  Aligned_cols=25  Identities=24%  Similarity=0.482  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+||+|+|||+|++.++.+.+.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~~p   56 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLDAP   56 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            6889999999999999999988764

>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=92.92  E-value=0.072  Score=45.76  Aligned_cols=28  Identities=25%  Similarity=0.275  Sum_probs=23.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|.|.|++|+|||++++.+++ ++..++
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~-lg~~~i   32 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD-LGINVI   32 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH-TTCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHH-cCCEEE
Confidence            4799999999999999999998 554443

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=92.91  E-value=0.032  Score=48.58  Aligned_cols=25  Identities=20%  Similarity=0.286  Sum_probs=15.4

Q ss_pred             ceeeeCCCCChHHHHHHHHH-hhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAK-RMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~-~~~~~  265 (345)
                      -+.|+||+|+|||++++.++ .+.+.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~~~~   54 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQKNN   54 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC----C
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCCCC
Confidence            68899999999999999999 87753

>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=92.91  E-value=0.06  Score=45.91  Aligned_cols=29  Identities=28%  Similarity=0.322  Sum_probs=24.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|.|+|.+|+|||++++.+++.++..++
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~lg~~vi   41 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKYGAHVV   41 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHCCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCEEE
Confidence            35889999999999999999998554443

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=92.91  E-value=0.069  Score=45.82  Aligned_cols=32  Identities=28%  Similarity=0.275  Sum_probs=26.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      ..|.|.|++|+|||++++.+++.++..++..+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g~~~~~~d   35 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELSMIYVDTG   35 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCceecCC
Confidence            47999999999999999999998776665543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=92.91  E-value=0.06  Score=44.86  Aligned_cols=25  Identities=40%  Similarity=0.410  Sum_probs=21.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|++++..-
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            4479999999999999999998753

>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=92.90  E-value=0.055  Score=45.05  Aligned_cols=24  Identities=29%  Similarity=0.343  Sum_probs=21.5

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|+..+...
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            479999999999999999998754

>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=92.88  E-value=0.042  Score=45.53  Aligned_cols=23  Identities=17%  Similarity=0.353  Sum_probs=20.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++|+++|++|+|||+|+..+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCc
Confidence            47999999999999999988753

>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=92.88  E-value=0.052  Score=45.46  Aligned_cols=25  Identities=36%  Similarity=0.429  Sum_probs=21.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|++.+...
T Consensus        22 ~~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           22 RELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             CceEEEEECcCCCCHHHHHHHHhcC
Confidence            3479999999999999999998754

>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=92.83  E-value=0.37  Score=44.14  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=21.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      --++++|++|+|||+++..++..+
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHHHH
Confidence            368999999999999999988765

>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=92.80  E-value=0.046  Score=46.90  Aligned_cols=25  Identities=20%  Similarity=0.166  Sum_probs=22.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..|+|.|+||+|||++++.+++.++
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            3799999999999999999998765

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=92.80  E-value=0.061  Score=44.90  Aligned_cols=26  Identities=27%  Similarity=0.341  Sum_probs=22.4

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...++|+++|++|+|||+|+..+..-
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           19 SYLFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             CEEEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcC
Confidence            34579999999999999999998764

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=92.79  E-value=0.054  Score=45.59  Aligned_cols=24  Identities=21%  Similarity=0.310  Sum_probs=21.3

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|+..+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            479999999999999999988753

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=92.79  E-value=0.047  Score=45.38  Aligned_cols=22  Identities=27%  Similarity=0.376  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++|+++|++|+|||+|++.+..
T Consensus        17 ~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           17 HKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            7999999999999999999874

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=92.78  E-value=0.059  Score=45.37  Aligned_cols=25  Identities=28%  Similarity=0.377  Sum_probs=21.6

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..+.|+++|++|+|||+|+.++..-
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            3479999999999999999998754

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=92.76  E-value=0.057  Score=45.39  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=21.0

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ...++|+++|++|+|||+|++.+..
T Consensus        18 ~~~~ki~~~G~~~~GKssl~~~l~~   42 (201)
T 2q3h_A           18 GRGVKCVLVGDGAVGKTSLVVSYTT   42 (201)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHh
Confidence            4457999999999999999998874

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=92.71  E-value=0.062  Score=45.24  Aligned_cols=22  Identities=27%  Similarity=0.557  Sum_probs=20.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+|+|+||+|||+|+..+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999998875

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=92.70  E-value=0.051  Score=45.58  Aligned_cols=22  Identities=32%  Similarity=0.579  Sum_probs=20.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|+||+|||+|++.+..
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999876

>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=92.67  E-value=0.049  Score=47.33  Aligned_cols=25  Identities=24%  Similarity=0.296  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+|++|+|||+|++.++.+.+.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~~p   61 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYLKP   61 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            6889999999999999999988754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=92.66  E-value=0.19  Score=46.04  Aligned_cols=25  Identities=24%  Similarity=0.306  Sum_probs=22.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      --++|+|++|+|||++++.++.+.+
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag~l~  125 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4789999999999999999998753

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=92.66  E-value=0.1  Score=48.53  Aligned_cols=28  Identities=36%  Similarity=0.441  Sum_probs=24.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|+|+||+|+|||+|+..+++.++..+.
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            6899999999999999999999875443

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.62  E-value=0.055  Score=45.18  Aligned_cols=27  Identities=22%  Similarity=0.278  Sum_probs=23.2

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ...+.|+++|++|+|||+|++.+..--
T Consensus        21 ~~~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           21 DYMFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EECEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeeeEEEEECCCCcCHHHHHHHHhcCC
Confidence            445799999999999999999988654

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.61  E-value=0.035  Score=45.75  Aligned_cols=21  Identities=33%  Similarity=0.528  Sum_probs=19.3

Q ss_pred             eceeeeCCCCChHHHHHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      +.|+++|++|+|||+|+..+.
T Consensus        19 ~~i~v~G~~~~GKssli~~l~   39 (183)
T 1moz_A           19 LRILILGLDGAGKTTILYRLQ   39 (183)
T ss_dssp             EEEEEEEETTSSHHHHHHHTC
T ss_pred             cEEEEECCCCCCHHHHHHHHh
Confidence            799999999999999998765

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=92.60  E-value=0.076  Score=53.81  Aligned_cols=36  Identities=22%  Similarity=0.332  Sum_probs=25.0

Q ss_pred             hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHH-HHHHHh
Q psy1366         212 YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEI-LKFAKR  261 (345)
Q Consensus       212 ~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l-~~~i~~  261 (345)
                      +.-+.|+..+|...              --.|+.||||||||+. +..+..
T Consensus       192 ~~Q~~AV~~al~~~--------------~~~lI~GPPGTGKT~ti~~~I~~  228 (646)
T 4b3f_X          192 TSQKEAVLFALSQK--------------ELAIIHGPPGTGKTTTVVEIILQ  228 (646)
T ss_dssp             HHHHHHHHHHHHCS--------------SEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC--------------CceEEECCCCCCHHHHHHHHHHH
Confidence            45577888887643              1578999999999874 333433

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=92.59  E-value=0.061  Score=45.75  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=20.9

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...|+++|++|+|||+|+..+..-
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            469999999999999999988754

>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=92.58  E-value=0.056  Score=45.70  Aligned_cols=24  Identities=38%  Similarity=0.430  Sum_probs=21.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|+.++...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            479999999999999999998753

>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=92.57  E-value=0.049  Score=45.45  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=21.2

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...|+++|++|+|||+|+..+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999998753

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=92.57  E-value=0.059  Score=47.12  Aligned_cols=31  Identities=23%  Similarity=0.268  Sum_probs=25.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      ..|.|+|++|+|||++++.+++.++..++..
T Consensus        17 ~~i~i~G~~gsGKst~~~~l~~~lg~~~~d~   47 (236)
T 1q3t_A           17 IQIAIDGPASSGKSTVAKIIAKDFGFTYLDT   47 (236)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCceecC
Confidence            3699999999999999999998666555443

>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=92.55  E-value=0.064  Score=44.57  Aligned_cols=24  Identities=29%  Similarity=0.274  Sum_probs=21.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -.+|+|+.|+|||+|++++.-++.
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            467999999999999999988764

>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=92.54  E-value=0.061  Score=49.41  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=21.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .+.|+||+|+|||+|++.++.+.
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhhhc
Confidence            78999999999999999999887

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=92.50  E-value=0.051  Score=48.50  Aligned_cols=25  Identities=24%  Similarity=0.464  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+||+|+|||+|++.++.+.+.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~~p   59 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFLKA   59 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            6889999999999999999988764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=92.50  E-value=0.052  Score=48.64  Aligned_cols=25  Identities=24%  Similarity=0.498  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~~p   58 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLEKP   58 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            6889999999999999999988764

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=92.49  E-value=0.063  Score=50.35  Aligned_cols=25  Identities=36%  Similarity=0.558  Sum_probs=22.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+++|+|+||+|||++++.+++.+.
T Consensus        25 ~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           25 VCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhC
Confidence            3799999999999999999998664

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=92.49  E-value=0.019  Score=55.54  Aligned_cols=91  Identities=14%  Similarity=0.046  Sum_probs=48.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEE-----e-ec------CeeEeeeceeeecCCcEEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSAL-----R-EN------GEWHLEAGALVLSDGGVCCID  308 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~-----~-~~------~~~~~~~G~l~la~~gi~~ID  308 (345)
                      -.++.|+||+|||+++...+... +..+.+-.......+...+.     . ..      ..|.+.++.....+..+++||
T Consensus       163 v~~I~G~aGsGKTt~I~~~~~~~-~~lVlTpT~~aa~~l~~kl~~~~~~~~~~~~V~T~dsfL~~~~~~~~~~~d~liiD  241 (446)
T 3vkw_A          163 VVLVDGVPGCGKTKEILSRVNFE-EDLILVPGRQAAEMIRRRANASGIIVATKDNVRTVDSFLMNYGKGARCQFKRLFID  241 (446)
T ss_dssp             EEEEEECTTSCHHHHHHHHCCTT-TCEEEESCHHHHHHHHHHHTTTSCCCCCTTTEEEHHHHHHTTTSSCCCCCSEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHhccC-CeEEEeCCHHHHHHHHHHhhhcCccccccceEEEeHHhhcCCCCCCCCcCCEEEEe
Confidence            56899999999999998776532 22232222111111000000     0 00      001111111111125699999


Q ss_pred             CCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         309 EFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       309 Eidk~~~~~~~~l~eame~~~i~i  332 (345)
                      |...++.....+++.+.....+-+
T Consensus       242 E~sm~~~~~l~~l~~~~~~~~vil  265 (446)
T 3vkw_A          242 EGLMLHTGCVNFLVEMSLCDIAYV  265 (446)
T ss_dssp             TGGGSCHHHHHHHHHHTTCSEEEE
T ss_pred             CcccCCHHHHHHHHHhCCCCEEEE
Confidence            999999988878877765544443

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=92.49  E-value=0.063  Score=44.96  Aligned_cols=24  Identities=17%  Similarity=0.472  Sum_probs=21.0

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..++|+++|++|+|||+|++.+..
T Consensus        25 ~~~ki~vvG~~~~GKSsLi~~l~~   48 (192)
T 2il1_A           25 FKLQVIIIGSRGVGKTSLMERFTD   48 (192)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhc
Confidence            347899999999999999998864

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=92.45  E-value=0.054  Score=44.99  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|+++|++|+|||+|++.+...
T Consensus        17 ~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           17 VRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999988654

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=92.42  E-value=0.053  Score=48.13  Aligned_cols=25  Identities=32%  Similarity=0.502  Sum_probs=22.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+|++|+|||+|++.++.+.+.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~~p   61 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFYIP   61 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            6889999999999999999998764

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=92.42  E-value=0.053  Score=45.58  Aligned_cols=22  Identities=36%  Similarity=0.496  Sum_probs=20.0

Q ss_pred             eeceeeeCCCCChHHHHHHHHH
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      .+.|+++|++|+|||+|+..+.
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~   50 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLK   50 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHC
T ss_pred             ccEEEEECCCCCCHHHHHHHHH
Confidence            3799999999999999999885

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=92.42  E-value=0.053  Score=45.63  Aligned_cols=26  Identities=31%  Similarity=0.391  Sum_probs=21.7

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..+.|+++|++|+|||+|++++....
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~~~   44 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFHKM   44 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHSCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhcC
Confidence            34799999999999999999887643

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=92.40  E-value=0.071  Score=45.43  Aligned_cols=25  Identities=32%  Similarity=0.361  Sum_probs=21.8

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|++.+..-
T Consensus        24 ~~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           24 YLIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eeEEEEEECcCCCCHHHHHHHHhcC
Confidence            3479999999999999999988753

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=92.38  E-value=0.056  Score=45.66  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=20.5

Q ss_pred             eeeceeeeCCCCChHHHHHHHHH
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      ..+.|+++|++|+|||+|++.+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            44799999999999999999874

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=92.33  E-value=0.068  Score=47.86  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=22.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .++++||+|+|||++++.++.+.+
T Consensus        27 ~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHHhCC
Confidence            799999999999999999998763

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=92.32  E-value=0.089  Score=48.81  Aligned_cols=25  Identities=24%  Similarity=0.594  Sum_probs=23.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .++++|++|+|||+|++.++.+.+.
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~~~  197 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFIPK  197 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGSCT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcC
Confidence            8999999999999999999998864

>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=92.32  E-value=0.23  Score=45.57  Aligned_cols=23  Identities=30%  Similarity=0.405  Sum_probs=20.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -+.|+|+.|.|||+|++.+....
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            46899999999999999999765

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=92.31  E-value=0.058  Score=47.72  Aligned_cols=31  Identities=26%  Similarity=0.481  Sum_probs=25.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      .+.|+|++|+|||+|++.++.+.+.   .++..|
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g   63 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFYQPTAGEITIDG   63 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSBSCEEETT
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCcEEEECC
Confidence            6899999999999999999988753   344444

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=92.30  E-value=0.081  Score=44.90  Aligned_cols=25  Identities=24%  Similarity=0.195  Sum_probs=21.7

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..+.|+++|++|+|||+|++.+..-
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcC
Confidence            3479999999999999999988753

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=92.30  E-value=0.052  Score=44.92  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.6

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|+..+...
T Consensus        20 ~~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           20 QEHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcC
Confidence            3479999999999999999998754

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=92.30  E-value=0.058  Score=47.26  Aligned_cols=25  Identities=24%  Similarity=0.361  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|+.|+|||+|++.++.+.+.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~~p   60 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGELEP   60 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcC
Confidence            6889999999999999999988764

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=92.29  E-value=0.058  Score=48.01  Aligned_cols=25  Identities=40%  Similarity=0.504  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.++.+.+.
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~~p   52 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMTSG   52 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCC
Confidence            6889999999999999999988763

>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=92.28  E-value=0.069  Score=46.00  Aligned_cols=25  Identities=32%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-++|+|++|+|||+|+..+++...
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            3699999999999999999998776

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=92.28  E-value=0.042  Score=45.31  Aligned_cols=23  Identities=39%  Similarity=0.515  Sum_probs=11.0

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+.|+++|++|+|||+|+..+..
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~   30 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSE   30 (183)
T ss_dssp             EEEEEEECCCCC-----------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            47899999999999999988764

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=92.27  E-value=0.058  Score=47.65  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.++.+.+.
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~~p   58 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLVRA   58 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            6889999999999999999988754

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=92.25  E-value=0.059  Score=48.40  Aligned_cols=31  Identities=23%  Similarity=0.520  Sum_probs=25.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      -+.|+|++|+|||+|++.++.+.+.   .++..|
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~~p~~G~I~~~g   85 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLEDFDEGEIIIDG   85 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETT
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCCCCCCcEEEECC
Confidence            6889999999999999999998764   344444

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=92.24  E-value=0.059  Score=48.75  Aligned_cols=31  Identities=19%  Similarity=0.314  Sum_probs=25.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      -+.|+||+|+|||+|++.++.+.+.   .++..|
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~~p~~G~I~~~G   69 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGILKPSSGRILFDN   69 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETT
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCeEEEECC
Confidence            6889999999999999999988764   344444

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=92.22  E-value=0.069  Score=45.55  Aligned_cols=24  Identities=25%  Similarity=0.524  Sum_probs=21.6

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|++.+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            378999999999999999999864

>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=92.20  E-value=0.047  Score=48.15  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.++.+.+.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~~p   57 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEMDK   57 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCSEE
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            6899999999999999999988753

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=92.20  E-value=0.036  Score=47.50  Aligned_cols=92  Identities=21%  Similarity=0.123  Sum_probs=47.9

Q ss_pred             ceeeeCCCCChHH-HHHHHHHhhC--CC-eEEEcCC----c----cCcCCceEEEEee--cCeeEeeeceeeecCCcEEE
Q psy1366         241 HLLLVGDPGTGKS-EILKFAKRMS--PR-SVLTTGV----G----TTTAGLTVSALRE--NGEWHLEAGALVLSDGGVCC  306 (345)
Q Consensus       241 ~iLl~G~pGtGKs-~l~~~i~~~~--~~-~~~~~~~----~----~~~~glt~~~~~~--~~~~~~~~G~l~la~~gi~~  306 (345)
                      =.+++|+.|+||| .|++++.+..  .+ .++....    .    .+..|+...+..-  ..++...     ..+--+++
T Consensus        22 l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~~-----~~~~DvIl   96 (195)
T 1w4r_A           22 IQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQE-----ALGVAVIG   96 (195)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEETTCCCGGGSCCHHHHHHSEEEEESSGGGGHHH-----HHTCSEEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccccCccchhhhhhccCCcccceecCCHHHHHHh-----ccCCCEEE
Confidence            4678999999999 8888887643  22 2232211    0    1111221111111  1111000     11235999


Q ss_pred             EcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEE
Q psy1366         307 IDEFSSIKEHDRTSIHEAMEQQTISVAKDKESK  339 (345)
Q Consensus       307 IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~  339 (345)
                      |||+.-+ ++ +..+++.|-+.-+.|--+|+..
T Consensus        97 IDEaQFf-k~-~ve~~~~L~~~gk~VI~~GL~~  127 (195)
T 1w4r_A           97 IDEGQFF-PD-IVEFCEAMANAGKTVIVAALDG  127 (195)
T ss_dssp             ESSGGGC-TT-HHHHHHHHHHTTCEEEEEEESB
T ss_pred             EEchhhh-HH-HHHHHHHHHHCCCeEEEEeccc
Confidence            9999999 54 5566666644444554445443

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.18  E-value=0.064  Score=44.51  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=21.2

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...|+++|++|+|||+|+..+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            368999999999999999998754

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=92.13  E-value=0.093  Score=44.26  Aligned_cols=25  Identities=28%  Similarity=0.436  Sum_probs=21.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|+..+..-
T Consensus        24 ~~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           24 IRKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3478999999999999999998764

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=92.11  E-value=0.066  Score=46.53  Aligned_cols=32  Identities=25%  Similarity=0.225  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHh-hC---CCeEEEcCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR-MS---PRSVLTTGV  272 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~-~~---~~~~~~~~~  272 (345)
                      -++++|+||+|||+|+..++. .+   .+.+|.+..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~e   60 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALE   60 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcc
Confidence            689999999999999766543 22   244565543

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=92.11  E-value=0.072  Score=45.30  Aligned_cols=24  Identities=21%  Similarity=0.426  Sum_probs=21.2

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|++.+..-
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            479999999999999999988753

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=92.10  E-value=0.063  Score=47.99  Aligned_cols=25  Identities=24%  Similarity=0.422  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+|++|+|||+|++.++.+.+.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~~p   67 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLIKP   67 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            6889999999999999999988754

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=92.10  E-value=0.64  Score=44.54  Aligned_cols=24  Identities=25%  Similarity=0.403  Sum_probs=21.2

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.+.++|+||+|||+|+.++...
T Consensus       175 ~~ki~lvG~~nvGKSSLin~l~~~  198 (436)
T 2hjg_A          175 VIQFCLIGRPNVGKSSLVNAMLGE  198 (436)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCC
Confidence            368999999999999999998753

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=92.06  E-value=0.075  Score=44.87  Aligned_cols=25  Identities=32%  Similarity=0.396  Sum_probs=21.7

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ...++|+++|++|+|||+|++.+..
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~   47 (200)
T 2o52_A           23 DFLFKFLVIGSAGTGKSCLLHQFIE   47 (200)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHC
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHh
Confidence            3447999999999999999998864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=92.03  E-value=0.063  Score=48.37  Aligned_cols=25  Identities=28%  Similarity=0.425  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.++.+.+.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~~p   71 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLYQP   71 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            6899999999999999999998764

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.00  E-value=0.085  Score=43.98  Aligned_cols=26  Identities=23%  Similarity=0.207  Sum_probs=22.5

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...++|+++|++|+|||+|++.+..-
T Consensus        16 ~~~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           16 ALMLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcC
Confidence            34579999999999999999998764

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.00  E-value=0.077  Score=45.00  Aligned_cols=24  Identities=29%  Similarity=0.451  Sum_probs=21.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|+..+..-
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            468999999999999999998764

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=91.99  E-value=0.066  Score=47.74  Aligned_cols=25  Identities=28%  Similarity=0.458  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.++.+.+.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~~p   57 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIHRP   57 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            6889999999999999999988753

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=91.99  E-value=0.081  Score=44.15  Aligned_cols=25  Identities=20%  Similarity=0.433  Sum_probs=20.8

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ....+|+++|++|+|||+|+..+..
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~   39 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKP   39 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhc
Confidence            3446899999999999999998764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=91.98  E-value=0.066  Score=48.51  Aligned_cols=31  Identities=29%  Similarity=0.488  Sum_probs=25.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      .+.|+|++|+|||+|++.++.+.+.   .++..|
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~~p~~G~I~~~g   82 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYEPATSGTVNLFG   82 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETT
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCCCCeEEEECC
Confidence            6889999999999999999988764   344444

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=91.96  E-value=0.057  Score=44.99  Aligned_cols=25  Identities=32%  Similarity=0.445  Sum_probs=21.0

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|++.+...
T Consensus        20 ~~~ki~v~G~~~~GKSsli~~l~~~   44 (190)
T 2h57_A           20 KEVHVLCLGLDNSGKTTIINKLKPS   44 (190)
T ss_dssp             -CEEEEEEECTTSSHHHHHHHTSCG
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3479999999999999999887643

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=91.95  E-value=0.088  Score=46.30  Aligned_cols=25  Identities=16%  Similarity=0.162  Sum_probs=22.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-+-|.|++|+|||++++.++..++
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~~lG   50 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIMELLG   50 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4689999999999999999998654

>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=91.94  E-value=0.071  Score=48.23  Aligned_cols=23  Identities=17%  Similarity=0.291  Sum_probs=20.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -++|+|+||+|||+|++.++...
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            68999999999999999988754

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=91.91  E-value=0.076  Score=45.40  Aligned_cols=23  Identities=35%  Similarity=0.589  Sum_probs=20.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+.|+++|++|+|||+|+..+..
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~   56 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFAD   56 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHc
Confidence            37999999999999999999874

>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=91.91  E-value=0.094  Score=49.16  Aligned_cols=26  Identities=15%  Similarity=0.268  Sum_probs=23.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -.+.|+|++|+|||+|++.++.+.+.
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            37899999999999999999998864

>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=91.90  E-value=0.13  Score=47.46  Aligned_cols=36  Identities=14%  Similarity=-0.021  Sum_probs=25.2

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh-hC-----CCeEEEcCCcc
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR-MS-----PRSVLTTGVGT  274 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~-~~-----~~~~~~~~~~~  274 (345)
                      +| + +++.||||+|||+|+-.++. ..     .+.+|+++..+
T Consensus        28 ~G-i-teI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s   69 (333)
T 3io5_A           28 SG-L-LILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFG   69 (333)
T ss_dssp             SE-E-EEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCC
T ss_pred             CC-e-EEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccch
Confidence            56 5 89999999999998655443 22     34677776543

>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=91.90  E-value=0.064  Score=48.20  Aligned_cols=25  Identities=24%  Similarity=0.480  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+||+|+|||+|++.++.+.+.
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~~p   63 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYLSP   63 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCC
Confidence            6889999999999999999988754

>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=91.89  E-value=0.073  Score=46.60  Aligned_cols=25  Identities=16%  Similarity=0.309  Sum_probs=22.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-|.|.|+||+|||++++.+++.++
T Consensus        27 ~~i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           27 AFITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            4689999999999999999998875

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=91.85  E-value=0.068  Score=47.97  Aligned_cols=25  Identities=32%  Similarity=0.602  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.++.+.+.
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~~p   59 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLIEP   59 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCC
Confidence            6889999999999999999988754

>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=91.84  E-value=0.22  Score=42.42  Aligned_cols=27  Identities=19%  Similarity=0.180  Sum_probs=19.2

Q ss_pred             CcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         302 GGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       302 ~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      --+++|||++.++++....+.++.+.+
T Consensus        82 ~dvViIDEaqfl~~~~v~~l~~l~~~~  108 (191)
T 1xx6_A           82 TEVIAIDEVQFFDDEIVEIVNKIAESG  108 (191)
T ss_dssp             CSEEEECSGGGSCTHHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            469999999999877655555544443

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=91.80  E-value=0.084  Score=44.64  Aligned_cols=24  Identities=33%  Similarity=0.402  Sum_probs=21.3

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|++.+..-
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            478999999999999999998753

>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=91.79  E-value=0.15  Score=48.80  Aligned_cols=25  Identities=20%  Similarity=0.482  Sum_probs=22.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..+.|+|++|+|||+|++.+..+.+
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~~   94 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIGN   94 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCCT
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCCC
Confidence            4899999999999999999998654

>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=91.77  E-value=0.15  Score=46.83  Aligned_cols=27  Identities=19%  Similarity=0.454  Sum_probs=23.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      -+++.||+|+|||+|+..+++.++..+
T Consensus        12 ~i~i~GptgsGKt~la~~La~~~~~~i   38 (316)
T 3foz_A           12 AIFLMGPTASGKTALAIELRKILPVEL   38 (316)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSCEEE
T ss_pred             EEEEECCCccCHHHHHHHHHHhCCCcE
Confidence            478899999999999999999987544

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=91.72  E-value=0.082  Score=44.83  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=21.1

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|+..+..-
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            379999999999999999888753

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=91.69  E-value=0.095  Score=45.04  Aligned_cols=25  Identities=32%  Similarity=0.517  Sum_probs=21.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++|+++|++|+|||+|+..+...
T Consensus        12 ~~~ki~v~G~~~vGKSsli~~l~~~   36 (223)
T 3cpj_B           12 LLFKIVLIGDSGVGKSNLLSRFTKN   36 (223)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHHC
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcC
Confidence            3479999999999999999998764

>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=91.68  E-value=0.13  Score=51.93  Aligned_cols=35  Identities=26%  Similarity=0.218  Sum_probs=25.3

Q ss_pred             hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         212 YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       212 ~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.-+.|+..++..+               ..++.||||||||+++..+..
T Consensus       183 ~~Q~~av~~~l~~~---------------~~li~GppGTGKT~~~~~~i~  217 (624)
T 2gk6_A          183 HSQVYAVKTVLQRP---------------LSLIQGPPGTGKTVTSATIVY  217 (624)
T ss_dssp             HHHHHHHHHHHTCS---------------EEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC---------------CeEEECCCCCCHHHHHHHHHH
Confidence            45566666666433               689999999999997665543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=91.65  E-value=0.071  Score=47.69  Aligned_cols=24  Identities=42%  Similarity=0.555  Sum_probs=22.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||+|++.++.+.+
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            689999999999999999998875

>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=91.63  E-value=0.16  Score=48.46  Aligned_cols=20  Identities=30%  Similarity=0.278  Sum_probs=18.1

Q ss_pred             ceeeeCCCCChHHHHHHHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~  260 (345)
                      -++|+|+||+|||+|++.++
T Consensus       180 i~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCChHHHHHHHH
Confidence            69999999999999999654

>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=91.62  E-value=0.037  Score=47.23  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=21.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -|.+.|++|+|||++++.+++.++
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999998764

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=91.61  E-value=0.067  Score=48.93  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+|+|++|+|||+|++.+...
T Consensus        19 ~~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           19 FTLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            58899999999999999998753

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=91.56  E-value=0.1  Score=45.00  Aligned_cols=24  Identities=25%  Similarity=0.481  Sum_probs=20.9

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..+.|+|+|+||+|||+|+..+..
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            346899999999999999998863

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=91.54  E-value=0.054  Score=45.05  Aligned_cols=21  Identities=29%  Similarity=0.409  Sum_probs=19.4

Q ss_pred             eceeeeCCCCChHHHHHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      ++|+++|++|+|||+|+.++.
T Consensus        23 ~~i~v~G~~~~GKssli~~l~   43 (189)
T 2x77_A           23 IRVLMLGLDNAGKTSILYRLH   43 (189)
T ss_dssp             EEEEEEEETTSSHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            799999999999999998874

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=91.54  E-value=0.1  Score=45.29  Aligned_cols=22  Identities=18%  Similarity=0.386  Sum_probs=19.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+|+|++|+|||+|+..+..
T Consensus        14 ~KivlvGd~~VGKTsLi~r~~~   35 (216)
T 4dkx_A           14 FKLVFLGEQSVGKTSLITRFMY   35 (216)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECcCCcCHHHHHHHHHh
Confidence            6899999999999999987764

>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=91.54  E-value=0.077  Score=47.63  Aligned_cols=22  Identities=27%  Similarity=0.135  Sum_probs=19.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -++|+|+||+|||+|++.++..
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~~   53 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAAQ   53 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6899999999999999988853

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=91.52  E-value=0.089  Score=44.76  Aligned_cols=24  Identities=17%  Similarity=0.108  Sum_probs=21.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .-+.|.|++|+|||++++.++..+
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            469999999999999999999865

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=91.52  E-value=0.09  Score=49.35  Aligned_cols=25  Identities=28%  Similarity=0.523  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~~p   67 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLERP   67 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCC
Confidence            6889999999999999999998764

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=91.52  E-value=0.1  Score=46.47  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=20.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+.|+|+|+||+|||+|+.++..
T Consensus         5 ~~kI~lvG~~nvGKTsL~n~l~g   27 (258)
T 3a1s_A            5 MVKVALAGCPNVGKTSLFNALTG   27 (258)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHC
Confidence            46899999999999999999875

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=91.49  E-value=0.092  Score=45.62  Aligned_cols=21  Identities=33%  Similarity=0.485  Sum_probs=17.9

Q ss_pred             eceeeeCCCCChHHHHHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      .-+++.|+||+|||+|+..++
T Consensus        31 ~l~~i~G~pG~GKT~l~l~~~   51 (251)
T 2zts_A           31 TTVLLTGGTGTGKTTFAAQFI   51 (251)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHH
Confidence            378999999999999987654

>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=91.47  E-value=0.18  Score=46.39  Aligned_cols=23  Identities=17%  Similarity=0.238  Sum_probs=20.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -++++|+||+|||+|+..++..+
T Consensus       109 i~~i~G~~GsGKT~la~~la~~~  131 (324)
T 2z43_A          109 MTEFFGEFGSGKTQLCHQLSVNV  131 (324)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHhHHHHHHHHHH
Confidence            79999999999999999988653

>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=91.33  E-value=0.097  Score=49.21  Aligned_cols=25  Identities=24%  Similarity=0.392  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p   55 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIYKP   55 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEEcCCCchHHHHHHHHHCCCCC
Confidence            5789999999999999999998754

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=91.31  E-value=0.099  Score=49.20  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p   55 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIYKP   55 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCchHHHHHHHHhcCCCC
Confidence            5789999999999999999998764

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=91.29  E-value=0.19  Score=49.87  Aligned_cols=46  Identities=15%  Similarity=0.005  Sum_probs=33.7

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHH
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      .+.++|.+.....+.-.+....     ++     ..-++++|++|+|||+|++.++
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~-----~~-----~~~v~I~G~~GiGKTtLa~~~~  168 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLK-----GE-----PGWVTIHGMAGCGKSVLAAEAV  168 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTST-----TS-----CEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhccc-----CC-----CceEEEEcCCCCCHHHHHHHHH
Confidence            3458888887777777776421     01     1268999999999999998875

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=91.29  E-value=0.088  Score=49.26  Aligned_cols=25  Identities=20%  Similarity=0.436  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~~p   52 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFHVP   52 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCccHHHHHHHHHcCCCC
Confidence            6889999999999999999998754

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=91.27  E-value=0.54  Score=45.11  Aligned_cols=24  Identities=25%  Similarity=0.433  Sum_probs=21.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.+.|+|+||+|||+|++.+...
T Consensus       180 ~~kvaivG~~gvGKSTLln~l~g~  203 (439)
T 1mky_A          180 AIKVAIVGRPNVGKSTLFNAILNK  203 (439)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CceEEEECCCCCCHHHHHHHHhCC
Confidence            478999999999999999999865

>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=91.27  E-value=0.15  Score=47.50  Aligned_cols=22  Identities=18%  Similarity=0.080  Sum_probs=20.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -++++|+||+|||+|+..++..
T Consensus       124 i~~I~G~~GsGKTtla~~la~~  145 (343)
T 1v5w_A          124 ITEAFGEFRTGKTQLSHTLCVT  145 (343)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999998875

>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=91.27  E-value=0.1  Score=49.35  Aligned_cols=25  Identities=28%  Similarity=0.563  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~~p   63 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLEEP   63 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCC
Confidence            6789999999999999999998764

>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=91.26  E-value=0.088  Score=49.49  Aligned_cols=25  Identities=24%  Similarity=0.541  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~~p   56 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFEQP   56 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCchHHHHHHHHhcCCCC
Confidence            5789999999999999999998754

>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=91.24  E-value=0.16  Score=46.84  Aligned_cols=27  Identities=19%  Similarity=0.250  Sum_probs=23.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      -+++.||+|+|||+|+..+++.++..+
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~~~i   31 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLNGEV   31 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTEEE
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCccce
Confidence            578999999999999999999887533

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=91.23  E-value=0.076  Score=44.87  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|++|+|||+|++.+..
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999998853

>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=91.21  E-value=0.1  Score=49.43  Aligned_cols=25  Identities=28%  Similarity=0.571  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~~p   55 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLETI   55 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEEcCCCchHHHHHHHHHcCCCC
Confidence            5789999999999999999998764

>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=91.21  E-value=0.11  Score=47.89  Aligned_cols=25  Identities=16%  Similarity=0.198  Sum_probs=22.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-+.|+|++|+|||+|++.++.+.+
T Consensus        91 ~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           91 FIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCchHHHHHHHHHhhcc
Confidence            4788999999999999999998764

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=91.18  E-value=0.056  Score=45.43  Aligned_cols=26  Identities=19%  Similarity=0.379  Sum_probs=7.1

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ...++|+++|++|+|||+|+..+...
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEEEEC-----------------
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhC
Confidence            34579999999999999999987654

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=91.18  E-value=0.12  Score=45.06  Aligned_cols=97  Identities=16%  Similarity=0.142  Sum_probs=50.9

Q ss_pred             eeeceeeeCCCCChHHH-HHHHHHhhCC--CeE--EEcCC--------ccCcCCceEEEE--eecCeeEeeeceeeecCC
Q psy1366         238 AESHLLLVGDPGTGKSE-ILKFAKRMSP--RSV--LTTGV--------GTTTAGLTVSAL--RENGEWHLEAGALVLSDG  302 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~-l~~~i~~~~~--~~~--~~~~~--------~~~~~glt~~~~--~~~~~~~~~~G~l~la~~  302 (345)
                      |.++ +++|+-|+|||+ |++.+.+...  ..+  +....        -++..|+...+.  .+..+.    -..+..+-
T Consensus        28 G~I~-vitG~M~sGKTT~Llr~~~r~~~~g~kvli~kp~~D~R~~~~~I~Sr~G~~~~a~~v~~~~di----~~~i~~~~  102 (219)
T 3e2i_A           28 GWIE-CITGSMFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISKASEI----MTHDLTNV  102 (219)
T ss_dssp             CEEE-EEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEEC-----------CBTTBCCEEEEESSGGGG----GGSCCTTC
T ss_pred             ceEE-EEECCCCCCHHHHHHHHHHHHHHcCCceEEEEeccCCcchhhhHHHhcCCceeeEEeCCHHHH----HHHHhcCC
Confidence            4444 669999999998 7777655432  222  11111        111223322211  111000    00012244


Q ss_pred             cEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEEE
Q psy1366         303 GVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKK  340 (345)
Q Consensus       303 gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~~  340 (345)
                      -+++|||..-++++.-..+.++.+. -+.|--+|+...
T Consensus       103 dvV~IDEaQFf~~~~v~~l~~la~~-gi~Vi~~GLd~D  139 (219)
T 3e2i_A          103 DVIGIDEVQFFDDEIVSIVEKLSAD-GHRVIVAGLDMD  139 (219)
T ss_dssp             SEEEECCGGGSCTHHHHHHHHHHHT-TCEEEEEEESBC
T ss_pred             CEEEEechhcCCHHHHHHHHHHHHC-CCEEEEeecccc
Confidence            6999999999998776777766654 455545555443

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=91.17  E-value=0.15  Score=47.50  Aligned_cols=26  Identities=19%  Similarity=0.296  Sum_probs=23.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      -|.+.|++|+|||+|++.+++.++..
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            58999999999999999999998743

>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=91.12  E-value=0.14  Score=53.35  Aligned_cols=35  Identities=26%  Similarity=0.218  Sum_probs=25.5

Q ss_pred             hHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         212 YLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       212 ~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.-+.|+..++.++               ..++.|+||||||+++..+..
T Consensus       359 ~~Q~~Av~~~l~~~---------------~~lI~GppGTGKT~ti~~~i~  393 (800)
T 2wjy_A          359 HSQVYAVKTVLQRP---------------LSLIQGPPGTGKTVTSATIVY  393 (800)
T ss_dssp             HHHHHHHHHHHTSS---------------EEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCC---------------eEEEEcCCCCCHHHHHHHHHH
Confidence            45566776666433               689999999999987666544

>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=91.11  E-value=0.1  Score=49.23  Aligned_cols=25  Identities=24%  Similarity=0.561  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~~p   55 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLEEP   55 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCcHHHHHHHHHHcCCCC
Confidence            6889999999999999999998764

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=91.05  E-value=0.12  Score=47.31  Aligned_cols=24  Identities=38%  Similarity=0.522  Sum_probs=20.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+|+|+||+|||+|+..+..-
T Consensus         3 ~~KI~lvG~~~vGKSSLi~~l~~~   26 (307)
T 3r7w_A            3 GSKLLLMGRSGSGKSSMRSIIFSN   26 (307)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            368999999999999999987653

>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=91.03  E-value=0.11  Score=46.20  Aligned_cols=22  Identities=32%  Similarity=0.329  Sum_probs=20.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+|++|+|||+|++.++.+
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            6889999999999999999997

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=91.01  E-value=0.099  Score=46.71  Aligned_cols=23  Identities=30%  Similarity=0.595  Sum_probs=20.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++|.|+|+||+|||+|+.++...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999754

>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=90.96  E-value=0.21  Score=49.45  Aligned_cols=46  Identities=24%  Similarity=0.097  Sum_probs=33.4

Q ss_pred             ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..||.+..+..|.-.|..+...         ....|.++|.+|+|||+||+.+++
T Consensus       129 ~~~GR~~~~~~l~~~L~~~~~~---------~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          129 TCYIREYHVDRVIKKLDEMCDL---------DSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             CSCCCHHHHHHHHHHHHHHTTS---------SSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccCCchHHHHHHHHHHhcccCC---------CceEEEEEcCCCCCHHHHHHHHHH
Confidence            3369987777777666533110         113689999999999999999995

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=90.91  E-value=0.1  Score=48.46  Aligned_cols=24  Identities=25%  Similarity=0.382  Sum_probs=21.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..+.|+|+||+|||+|++.+..+.
T Consensus        56 ~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           56 IRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhh
Confidence            479999999999999999998654

>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=90.87  E-value=0.1  Score=48.93  Aligned_cols=34  Identities=12%  Similarity=0.139  Sum_probs=26.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC----CCeEEEcCCc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS----PRSVLTTGVG  273 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~~~  273 (345)
                      --++|+||||+|||+|+..++..+    .+.+|+++..
T Consensus        62 ~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~   99 (356)
T 3hr8_A           62 RIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEH   99 (356)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeccc
Confidence            378999999999999999988654    2345766543

>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=90.85  E-value=0.11  Score=46.51  Aligned_cols=23  Identities=22%  Similarity=0.267  Sum_probs=21.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -+.|+|++|+|||+|++.++.+.
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl~   70 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGRE   70 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTCT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68899999999999999999974

>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=90.85  E-value=0.13  Score=48.05  Aligned_cols=32  Identities=13%  Similarity=0.149  Sum_probs=24.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC----CCeEEEcCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS----PRSVLTTGV  272 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~~  272 (345)
                      -++++|+||+|||+|+..++...    .+.+|.+..
T Consensus        63 iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E   98 (349)
T 2zr9_A           63 VIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAE   98 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECC
Confidence            68999999999999988877432    245566543

>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=90.81  E-value=0.11  Score=49.99  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=22.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .++++||+|+|||++++.+....+
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            699999999999999999988765

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=90.77  E-value=0.092  Score=50.50  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=20.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++.|+|++|+|||+|++.++..
T Consensus        44 ~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           44 NILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            5999999999999999999876

>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=90.71  E-value=0.1  Score=49.98  Aligned_cols=25  Identities=28%  Similarity=0.367  Sum_probs=21.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-|+|+|+||+|||++++.+++.++
T Consensus       259 ~lIil~G~pGSGKSTla~~L~~~~~  283 (416)
T 3zvl_A          259 EVVVAVGFPGAGKSTFIQEHLVSAG  283 (416)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTGGGT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3588999999999999999987654

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=90.67  E-value=0.11  Score=46.54  Aligned_cols=22  Identities=36%  Similarity=0.584  Sum_probs=19.7

Q ss_pred             eeceeeeCCCCChHHHHHHHHH
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      .++|+++|+||+|||+|+..+.
T Consensus         8 ~~~I~vvG~~g~GKSTLin~L~   29 (274)
T 3t5d_A            8 EFTLMVVGESGLGKSTLINSLF   29 (274)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHh
Confidence            4799999999999999998764

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=90.66  E-value=0.064  Score=45.40  Aligned_cols=23  Identities=22%  Similarity=0.309  Sum_probs=20.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..+.|+|++|+|||+|++.+...
T Consensus        27 ~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           27 IEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999988654

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=90.61  E-value=0.12  Score=44.54  Aligned_cols=22  Identities=32%  Similarity=0.688  Sum_probs=20.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|++|+|||+|+.++..
T Consensus        30 ~kI~vvG~~~vGKSsLin~l~~   51 (228)
T 2qu8_A           30 KTIILSGAPNVGKSSFMNIVSR   51 (228)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999998864

>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=90.60  E-value=0.1  Score=47.81  Aligned_cols=25  Identities=16%  Similarity=0.255  Sum_probs=22.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-+.|+|++|+|||+|++.++.+.+
T Consensus        81 ~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           81 YIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3688999999999999999998754

>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=90.56  E-value=0.092  Score=49.25  Aligned_cols=25  Identities=16%  Similarity=0.446  Sum_probs=22.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||+|+|||+|++.++.+.+.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~~p   57 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLDVP   57 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCC
Confidence            5789999999999999999988754

>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=90.54  E-value=0.12  Score=46.66  Aligned_cols=23  Identities=35%  Similarity=0.414  Sum_probs=21.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|.|.|+||+|||++++.++++
T Consensus        76 ~iI~I~G~~GSGKSTva~~La~l   98 (281)
T 2f6r_A           76 YVLGLTGISGSGKSSVAQRLKNL   98 (281)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
Confidence            47999999999999999999964

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=90.51  E-value=0.11  Score=49.86  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=21.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ++|.|+|++|+|||+|++.+....
T Consensus        32 f~I~lvG~sGaGKSTLln~L~g~~   55 (418)
T 2qag_C           32 FTLMVVGESGLGKSTLINSLFLTD   55 (418)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTCC
T ss_pred             EEEEEECCCCCcHHHHHHHHhCCC
Confidence            578999999999999999998754

>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=90.39  E-value=0.14  Score=48.40  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=22.0

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|++++|++|+|||++++.+...
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~   58 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLR   58 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHH
Confidence            4569999999999999999998754

>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=90.37  E-value=0.14  Score=46.89  Aligned_cols=24  Identities=29%  Similarity=0.393  Sum_probs=21.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||++++.++.+.+
T Consensus       104 vi~lvG~nGsGKTTll~~Lagll~  127 (304)
T 1rj9_A          104 VVLVVGVNGVGKTTTIAKLGRYYQ  127 (304)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHH
Confidence            688999999999999999997764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=90.34  E-value=0.11  Score=46.62  Aligned_cols=24  Identities=25%  Similarity=0.666  Sum_probs=22.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||+|++.++.+.|
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~p   55 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLLP   55 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            688999999999999999998874

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=90.29  E-value=0.14  Score=45.99  Aligned_cols=23  Identities=22%  Similarity=0.652  Sum_probs=20.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|.|+|+||+|||+|+..+...
T Consensus         4 ~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            4 TEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHCC
Confidence            57999999999999999999753

>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=90.22  E-value=0.26  Score=45.12  Aligned_cols=23  Identities=26%  Similarity=0.264  Sum_probs=20.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      --++++|+||+|||+|+..++..
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            37999999999999999988764

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=90.10  E-value=0.14  Score=43.87  Aligned_cols=23  Identities=17%  Similarity=0.260  Sum_probs=20.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++++|++|+|||+|+..+...
T Consensus        39 ~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           39 VAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            47999999999999999888765

>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=90.08  E-value=0.11  Score=47.40  Aligned_cols=25  Identities=24%  Similarity=0.361  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|+.|+|||+|++.++.+.+.
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~~p   90 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGELEP   90 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSCE
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCC
Confidence            6889999999999999999988763

>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=89.80  E-value=0.17  Score=46.90  Aligned_cols=25  Identities=20%  Similarity=0.283  Sum_probs=22.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      --+.|+|++|+|||++++.++.+..
T Consensus       130 ~vi~lvG~nGaGKTTll~~Lag~l~  154 (328)
T 3e70_C          130 YVIMFVGFNGSGKTTTIAKLANWLK  154 (328)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3789999999999999999997753

>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=89.79  E-value=0.092  Score=48.55  Aligned_cols=82  Identities=6%  Similarity=0.020  Sum_probs=51.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC-C---e--EEEcCCccCcCCceEEEEeecCeeEeeecee-eecCCcEEEEcCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP-R---S--VLTTGVGTTTAGLTVSALRENGEWHLEAGAL-VLSDGGVCCIDEFSS  312 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~-~---~--~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l-~la~~gi~~IDEidk  312 (345)
                      ...||+||+|+||++.++.+++.+. .   .  ++... +  ...+     +   +..-..... ..++.-|++|||.+.
T Consensus        19 ~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-~--~~~~-----~---~l~~~~~~~plf~~~kvvii~~~~~   87 (343)
T 1jr3_D           19 AAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSID-P--NTDW-----N---AIFSLCQAMSLFASRQTLLLLLPEN   87 (343)
T ss_dssp             SEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECC-T--TCCH-----H---HHHHHHHHHHHCCSCEEEEEECCSS
T ss_pred             cEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEec-C--CCCH-----H---HHHHHhcCcCCccCCeEEEEECCCC
Confidence            3789999999999999988877431 1   1  11110 0  0000     0   000000001 135577999999999


Q ss_pred             -CCHHhHHHHHHHHhC---CEEEE
Q psy1366         313 -IKEHDRTSIHEAMEQ---QTISV  332 (345)
Q Consensus       313 -~~~~~~~~l~eame~---~~i~i  332 (345)
                       ++.+.+++|+..||+   .++-|
T Consensus        88 kl~~~~~~aLl~~le~p~~~~~~i  111 (343)
T 1jr3_D           88 GPNAAINEQLLTLTGLLHDDLLLI  111 (343)
T ss_dssp             CCCTTHHHHHHHHHTTCBTTEEEE
T ss_pred             CCChHHHHHHHHHHhcCCCCeEEE
Confidence             999999999999997   66655

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=89.28  E-value=0.062  Score=45.37  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.1

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .++|+++|++|+|||+|+..+..
T Consensus        30 ~~ki~v~G~~~~GKSsli~~l~~   52 (204)
T 3th5_A           30 AIKCVVVGDGAVGKTCLLISYTT   52 (204)
Confidence            37999999999999999977753

>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=89.73  E-value=0.17  Score=41.07  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=19.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -.+++||.|+|||+++.++.-.+
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            35899999999999999997543

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=89.68  E-value=0.12  Score=43.26  Aligned_cols=24  Identities=21%  Similarity=0.344  Sum_probs=21.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.++|++|+|||+|++.+..+++
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~~   27 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPILR   27 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            578999999999999999998864

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=89.66  E-value=0.76  Score=44.29  Aligned_cols=89  Identities=27%  Similarity=0.322  Sum_probs=47.8

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC-ccCcCCceEEEEeecCeeEe--eec-------------------
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV-GTTTAGLTVSALRENGEWHL--EAG-------------------  295 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~-~~~~~glt~~~~~~~~~~~~--~~G-------------------  295 (345)
                      ....+.++|+||+|||+|+..+...- + ..+... +++..-.......++..+.+  .||                   
T Consensus       194 ~~~ki~ivG~~~vGKSslin~l~~~~-~-~~~~~~~gtt~~~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~  271 (456)
T 4dcu_A          194 EVIQFCLIGRPNVGKSSLVNAMLGEE-R-VIVSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRA  271 (456)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTST-T-EEECC------CTTSEEEEETTEEEEETTGGGTTTBTTBCCCCSHHHHHHH
T ss_pred             ccceeEEecCCCCCHHHHHHHHhCCC-c-cccCCCCCeEEEEEEEEEEECCceEEEEECCCCCcCcccchHHHHHHHHHH
Confidence            34689999999999999999987431 1 122211 11111111112111112221  255                   


Q ss_pred             --eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         296 --ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       296 --~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                        .+..|+.-++++|--+...+.+...+..+.+.+
T Consensus       272 ~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~~~  306 (456)
T 4dcu_A          272 LKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEAG  306 (456)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHTT
T ss_pred             HHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHHcC
Confidence              123356778888877777777665555555543

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=89.61  E-value=0.14  Score=45.09  Aligned_cols=31  Identities=32%  Similarity=0.517  Sum_probs=24.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      ..+-|+|+||+|||++++.+++.+.-..+.+
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~g~~~is~   39 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKFGIPQIST   39 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHTCCEECH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHhCCCeeec
Confidence            3467899999999999999998776544433

>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=89.55  E-value=0.16  Score=45.64  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=21.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++|.|+|+||+|||+|+.++...
T Consensus         4 ~~I~lvG~~n~GKSTLin~l~g~   26 (274)
T 3i8s_A            4 LTIGLIGNPNSGKTTLFNQLTGS   26 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTT
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            69999999999999999998754

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=89.55  E-value=0.17  Score=47.55  Aligned_cols=31  Identities=29%  Similarity=0.514  Sum_probs=25.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      -+.|+||+|+|||+|++.++.+.+.   .++..|
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~~p~~G~I~i~G   89 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLERPTEGSVLVDG   89 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETT
T ss_pred             EEEEEcCCCchHHHHHHHHhcCCCCCceEEEECC
Confidence            6889999999999999999998764   344444

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=89.52  E-value=0.13  Score=47.25  Aligned_cols=25  Identities=44%  Similarity=0.598  Sum_probs=22.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|.|||+|++.++.+.+.
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~~p  106 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFYDI  106 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCchHHHHHHHHHcCCCC
Confidence            7899999999999999999998764

>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=89.50  E-value=0.15  Score=46.31  Aligned_cols=25  Identities=20%  Similarity=0.131  Sum_probs=22.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-|.+.|++|+|||+|++.++..++
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            4789999999999999999988775

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=89.48  E-value=0.9  Score=41.29  Aligned_cols=21  Identities=33%  Similarity=0.539  Sum_probs=19.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|.|+|+||+|||+|+.++..
T Consensus         9 ~V~ivG~~nvGKSTLln~l~g   29 (301)
T 1wf3_A            9 FVAIVGKPNVGKSTLLNNLLG   29 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            699999999999999999875

>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=89.42  E-value=0.12  Score=49.02  Aligned_cols=24  Identities=33%  Similarity=0.486  Sum_probs=22.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+||+|+|||+|++.++.+.+
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl~~   72 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRLLN   72 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTCSE
T ss_pred             EEEEECCCCChHHHHHHHHhCCCC
Confidence            689999999999999999998765

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=89.33  E-value=0.16  Score=46.39  Aligned_cols=25  Identities=24%  Similarity=0.203  Sum_probs=22.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+|++|+|||+|++.++.+...
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~~~  195 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGLKL  195 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCC
T ss_pred             eEEEECCCCCcHHHHHHHhcccccc
Confidence            6789999999999999999877643

>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=89.31  E-value=0.19  Score=48.82  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=21.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..|+|+|.||+|||++++.+++.+
T Consensus        40 ~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           40 TLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998764

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=89.30  E-value=0.18  Score=42.43  Aligned_cols=23  Identities=26%  Similarity=0.317  Sum_probs=20.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .-+||.|++|+|||+++..+.+.
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            47999999999999999988774

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=89.27  E-value=0.18  Score=43.02  Aligned_cols=23  Identities=17%  Similarity=0.328  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++++|.+|+|||+|+..+...
T Consensus        31 ~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           31 VAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            48999999999999999988765

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=89.26  E-value=0.22  Score=51.86  Aligned_cols=20  Identities=35%  Similarity=0.426  Sum_probs=16.4

Q ss_pred             ceeeeCCCCChHHHHHHHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~  260 (345)
                      ..|+.|+||||||+++..+.
T Consensus       377 ~~lI~GppGTGKT~~i~~~i  396 (802)
T 2xzl_A          377 LSLIQGPPGTGKTVTSATIV  396 (802)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHH
Confidence            68999999999998765543

>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=89.25  E-value=0.25  Score=46.28  Aligned_cols=31  Identities=10%  Similarity=0.141  Sum_probs=23.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC----CCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS----PRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~  271 (345)
                      -+++.|+||+|||+|+..++..+    .+.+|++.
T Consensus        65 ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~   99 (356)
T 1u94_A           65 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDA   99 (356)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            68999999999999998877542    24556665

>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=89.08  E-value=0.24  Score=41.75  Aligned_cols=29  Identities=21%  Similarity=0.320  Sum_probs=22.8

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      +|++|.+|+|||+++..++....+.+|..
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~~~~~~yia   30 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGDAPQVLYIA   30 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCSCSSEEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHhcCCCeEEEe
Confidence            79999999999999999986622345554

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=89.07  E-value=0.18  Score=44.88  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.9

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+.|+++|++|+|||+|+.++..
T Consensus        39 ~~~I~vvG~~g~GKSSLin~l~~   61 (270)
T 1h65_A           39 SLTILVMGKGGVGKSSTVNSIIG   61 (270)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHhC
Confidence            37999999999999999999875

>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=89.06  E-value=0.23  Score=41.61  Aligned_cols=23  Identities=30%  Similarity=0.273  Sum_probs=20.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -+.+.|++|+|||+|++.+...+
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            57899999999999999988764

>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82

Probab=89.06  E-value=0.14  Score=38.92  Aligned_cols=32  Identities=25%  Similarity=0.474  Sum_probs=23.6

Q ss_pred             EEEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCC
Q psy1366          38 EFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTN   80 (345)
Q Consensus        38 ~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~   80 (345)
                      +...-|+|.+||+.|.        ..+..|.+||   .|++.+
T Consensus        63 L~v~p~~C~~CG~~F~--------~~~~kPsrCP---~CkSe~   94 (105)
T 2gmg_A           63 LLIKPAQCRKCGFVFK--------AEINIPSRCP---KCKSEW   94 (105)
T ss_dssp             EEECCCBBTTTCCBCC--------CCSSCCSSCS---SSCCCC
T ss_pred             EEEECcChhhCcCeec--------ccCCCCCCCc---CCCCCc
Confidence            3344699999999861        1356899998   699964

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=89.03  E-value=0.12  Score=44.14  Aligned_cols=23  Identities=17%  Similarity=0.325  Sum_probs=20.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+++|++|+|||+|+..+...
T Consensus        30 ~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           30 PEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             CEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCC
Confidence            68999999999999999988653

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=88.94  E-value=0.12  Score=44.18  Aligned_cols=25  Identities=40%  Similarity=0.554  Sum_probs=20.9

Q ss_pred             eeeceeeeCCCCChHHHHHHH-HHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKF-AKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~-i~~~  262 (345)
                      ..++|+++|++|+|||+|++. +...
T Consensus        14 ~~~ki~v~G~~~~GKSsli~~~~~~~   39 (221)
T 3gj0_A           14 VQFKLVLVGDGGTGKTTFVKRHLTGE   39 (221)
T ss_dssp             CEEEEEEEECTTSSHHHHHTTBHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC
Confidence            347999999999999999998 4443

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=88.93  E-value=0.29  Score=45.89  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=21.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+|++|+|||+|++.+....+
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCccHHHHHHHHhcccc
Confidence            688999999999999999997654

>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=88.89  E-value=0.23  Score=55.55  Aligned_cols=32  Identities=9%  Similarity=0.121  Sum_probs=24.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC----CeEEEcCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP----RSVLTTGV  272 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~----~~~~~~~~  272 (345)
                      .+|++||||||||+|+++++....    ..+|++..
T Consensus      1084 ~~l~~G~~g~GKT~la~~~~~~~~~~g~~~~fi~~~ 1119 (1706)
T 3cmw_A         1084 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAE 1119 (1706)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTT
T ss_pred             EEEEEcCCCCChHHHHHHHHHHhhhcCCceeEEEcc
Confidence            599999999999999999886442    34555543

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=88.87  E-value=0.51  Score=43.42  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      --++++|++|+|||+++..++..+
T Consensus       106 ~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          106 NIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            368899999999999998888665

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=88.86  E-value=0.19  Score=47.06  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=19.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++|+++|++|+|||+|++.+..
T Consensus        38 ~~I~vvG~~g~GKSTLln~L~~   59 (361)
T 2qag_A           38 FTLMVVGESGLGKSTLINSLFL   59 (361)
T ss_dssp             ECEEECCCTTSCHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHhC
Confidence            6899999999999999999754

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=88.85  E-value=0.22  Score=45.50  Aligned_cols=23  Identities=35%  Similarity=0.411  Sum_probs=20.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+|++|+|||+|++.+. ..+
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~~  189 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GEE  189 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SCC
T ss_pred             EEEEECCCCCCHHHHHHHHH-Hhh
Confidence            67899999999999999999 654

>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=88.85  E-value=0.2  Score=41.86  Aligned_cols=23  Identities=17%  Similarity=0.196  Sum_probs=20.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -+.+.|++|+|||+++..+...+
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            57899999999999999988764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=88.80  E-value=0.27  Score=45.84  Aligned_cols=25  Identities=20%  Similarity=0.306  Sum_probs=23.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+|++|+|||+|++.++.....
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            7899999999999999999999764

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=88.75  E-value=0.19  Score=48.90  Aligned_cols=24  Identities=21%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -++|+|++|+|||+|+|.++.+.+
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl~~  163 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSYAL  163 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHTTH
T ss_pred             EEEEECCCCCCHHHHHHHHhCccc
Confidence            799999999999999999998874

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=88.72  E-value=0.19  Score=42.74  Aligned_cols=24  Identities=25%  Similarity=0.427  Sum_probs=20.8

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..+.|+++|++|+|||+|+..+..
T Consensus        10 ~~~ki~vvG~~~~GKSsli~~l~~   33 (218)
T 4djt_A           10 LTYKICLIGDGGVGKTTYINRVLD   33 (218)
T ss_dssp             CEEEEEEECCTTSSHHHHHCBCTT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            347999999999999999987763

>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=88.71  E-value=0.18  Score=44.76  Aligned_cols=22  Identities=32%  Similarity=0.685  Sum_probs=19.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +|.|+|+||+|||+|+.++...
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            7999999999999999998754

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=88.65  E-value=0.23  Score=46.68  Aligned_cols=25  Identities=24%  Similarity=0.306  Sum_probs=22.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      --++|+|++|+|||++++.++.+++
T Consensus       158 ~vi~lvG~nGsGKTTll~~Lag~l~  182 (359)
T 2og2_A          158 AVIMIVGVNGGGKTTSLGKLAHRLK  182 (359)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHhhcc
Confidence            4789999999999999999998753

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=88.64  E-value=0.28  Score=55.67  Aligned_cols=33  Identities=9%  Similarity=0.111  Sum_probs=25.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC----CCeEEEcCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS----PRSVLTTGV  272 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~~  272 (345)
                      -+++|+||||||||+|+.+++..+    .+..|.+-.
T Consensus      1428 ~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e 1464 (2050)
T 3cmu_A         1428 RIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAE 1464 (2050)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcc
Confidence            589999999999999998886654    234555543

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=88.61  E-value=0.26  Score=42.81  Aligned_cols=31  Identities=19%  Similarity=0.352  Sum_probs=24.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      .-+.|.|+.|+|||++++.++.. ...+...+
T Consensus        21 ~~i~i~G~~GsGKSTl~~~L~~~-~g~v~~~~   51 (230)
T 2vp4_A           21 FTVLIEGNIGSGKTTYLNHFEKY-KNDICLLT   51 (230)
T ss_dssp             EEEEEECSTTSCHHHHHHTTGGG-TTTEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc-cCCeEEEe
Confidence            36899999999999999999988 33344444

>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=88.60  E-value=0.18  Score=49.64  Aligned_cols=33  Identities=24%  Similarity=0.198  Sum_probs=25.8

Q ss_pred             ceeeeCCCCChHHHHHHH--HHhhCC---CeEEEcCCc
Q psy1366         241 HLLLVGDPGTGKSEILKF--AKRMSP---RSVLTTGVG  273 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~--i~~~~~---~~~~~~~~~  273 (345)
                      .++|+|++|+|||+|++.  ++.+.+   ..+++.+..
T Consensus        41 ~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g~~   78 (525)
T 1tf7_A           41 STLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEE   78 (525)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEeC
Confidence            799999999999999998  455443   467777653

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=88.52  E-value=0.31  Score=42.46  Aligned_cols=26  Identities=27%  Similarity=0.474  Sum_probs=23.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..|.+.|.+|+|||++++.+++.++.
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l~~   28 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            36899999999999999999998854

>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=88.46  E-value=0.3  Score=46.54  Aligned_cols=27  Identities=22%  Similarity=0.321  Sum_probs=23.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      -|.+.||+|+|||+|+..+++.++..+
T Consensus         4 ~i~i~GptgsGKttla~~La~~~~~~i   30 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLAQKFNGEV   30 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHTEEE
T ss_pred             EEEEECcchhhHHHHHHHHHHHCCCeE
Confidence            578999999999999999999887544

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=88.45  E-value=0.31  Score=41.62  Aligned_cols=29  Identities=10%  Similarity=0.024  Sum_probs=26.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .-|.|.|++|+|||++++.+++.++..++
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~~~~   35 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNIPLY   35 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTCCEE
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCcCEE
Confidence            36899999999999999999999887766

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=88.42  E-value=0.11  Score=45.61  Aligned_cols=24  Identities=25%  Similarity=0.185  Sum_probs=20.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+.|+||+|+|||+|+++++.+.+
T Consensus        29 ~~~i~GpnGsGKSTll~~i~g~~~   52 (227)
T 1qhl_A           29 VTTLSGGNGAGKSTTMAAFVTALI   52 (227)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcccc
Confidence            356889999999999999998765

>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=88.23  E-value=0.25  Score=48.43  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=21.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      --++|+|++|+|||++++.++.++
T Consensus       294 eVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          294 FVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCcccHHHHHHHHHHHh
Confidence            468899999999999999999875

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=88.18  E-value=0.25  Score=47.69  Aligned_cols=25  Identities=28%  Similarity=0.421  Sum_probs=23.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+|++|+|||+|++.++.+.+.
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~~~  183 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYTRA  183 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcccCC
Confidence            7899999999999999999999865

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=88.17  E-value=0.27  Score=45.83  Aligned_cols=23  Identities=35%  Similarity=0.645  Sum_probs=21.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..+.|+|+||+|||+|+..+...
T Consensus        75 ~~v~lvG~pgaGKSTLln~L~~~   97 (349)
T 2www_A           75 FRVGLSGPPGAGKSTFIEYFGKM   97 (349)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            57999999999999999999864

>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=88.08  E-value=0.21  Score=49.34  Aligned_cols=24  Identities=33%  Similarity=0.452  Sum_probs=21.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .-|+|+|.||+|||++++.+++.+
T Consensus        36 ~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           36 TVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999998765

>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=88.03  E-value=0.23  Score=46.69  Aligned_cols=26  Identities=19%  Similarity=0.358  Sum_probs=20.6

Q ss_pred             eeeec-eeeeCCCCChHHHHHHHHHhh
Q psy1366         237 RAESH-LLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       237 r~~~~-iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      |..+. +.|+|+||+|||+|++.+...
T Consensus       176 ~~~~~~V~lvG~~naGKSTLln~L~~~  202 (364)
T 2qtf_A          176 RNNIPSIGIVGYTNSGKTSLFNSLTGL  202 (364)
T ss_dssp             ---CCEEEEECBTTSSHHHHHHHHHCC
T ss_pred             hcCCcEEEEECCCCCCHHHHHHHHHCC
Confidence            44455 889999999999999999864

>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=88.00  E-value=1.6  Score=39.58  Aligned_cols=22  Identities=32%  Similarity=0.489  Sum_probs=19.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      --|.++|+||+|||+|+.++..
T Consensus        11 g~v~ivG~~nvGKSTLin~l~g   32 (308)
T 3iev_A           11 GYVAIVGKPNVGKSTLLNNLLG   32 (308)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4799999999999999998875

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=87.99  E-value=1.5  Score=41.90  Aligned_cols=27  Identities=15%  Similarity=0.190  Sum_probs=19.0

Q ss_pred             ecCCcEEEEcCCCCCCH---HhHHHHHHHH
Q psy1366         299 LSDGGVCCIDEFSSIKE---HDRTSIHEAM  325 (345)
Q Consensus       299 la~~gi~~IDEidk~~~---~~~~~l~eam  325 (345)
                      +.+-++++|||.+.+..   ..+..+.+..
T Consensus        91 ~~~l~~vViDEaH~~~~~~~~~~~~l~~~~  120 (431)
T 2v6i_A           91 VPNYNLYIMDEAHFLDPASVAARGYIETRV  120 (431)
T ss_dssp             CCCCSEEEEESTTCCSHHHHHHHHHHHHHH
T ss_pred             ccCCCEEEEeCCccCCccHHHHHHHHHHHh
Confidence            45569999999999973   3445555554

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=87.87  E-value=0.25  Score=45.25  Aligned_cols=21  Identities=19%  Similarity=0.382  Sum_probs=18.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      =+++.|+||+|||+|+..++.
T Consensus        70 l~li~G~pG~GKTtl~l~ia~   90 (315)
T 3bh0_A           70 FVLIAARPSMGKTAFALKQAK   90 (315)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            699999999999999888764

>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=87.78  E-value=0.23  Score=44.02  Aligned_cols=26  Identities=19%  Similarity=0.408  Sum_probs=23.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..|.|.|.+|+|||++++.+++.+..
T Consensus        25 ~~I~ieG~~GsGKST~~~~L~~~l~~   50 (263)
T 1p5z_B           25 KKISIEGNIAAGKSTFVNILKQLCED   50 (263)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            47899999999999999999998754

>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=87.77  E-value=0.71  Score=40.51  Aligned_cols=36  Identities=22%  Similarity=0.081  Sum_probs=25.9

Q ss_pred             CcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCeEE
Q psy1366         302 GGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESK  339 (345)
Q Consensus       302 ~gi~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi~~  339 (345)
                      -.+++|||+.-+.+  ...+.+.|.+..+.+--+|...
T Consensus        91 ~dvViIDEaQF~~~--v~el~~~l~~~gi~VI~~GL~~  126 (234)
T 2orv_A           91 VAVIGIDEGQFFPD--IVEFCEAMANAGKTVIVAALDG  126 (234)
T ss_dssp             CSEEEESSGGGCTT--HHHHHHHHHHTTCEEEEECCSB
T ss_pred             CCEEEEEchhhhhh--HHHHHHHHHhCCCEEEEEeccc
Confidence            46999999999975  5677777776656665555543

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=87.71  E-value=0.26  Score=43.69  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+++|++|+|||+|+.++...
T Consensus        36 ~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           36 SMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            379999999999999999998753

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=87.69  E-value=0.26  Score=44.86  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=20.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+|+||+|||+|++++...
T Consensus        10 ~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A           10 FIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            7999999999999999999754

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=87.58  E-value=0.23  Score=49.42  Aligned_cols=25  Identities=20%  Similarity=0.247  Sum_probs=22.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ..+.|+|++|+|||+|++.++..++
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            4799999999999999999998874

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=87.32  E-value=0.53  Score=45.84  Aligned_cols=26  Identities=27%  Similarity=0.428  Sum_probs=21.8

Q ss_pred             eeeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         236 VRAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       236 ~r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|..++|.|+|+||+|||+|+.++..
T Consensus       230 ~r~~~kV~ivG~~nvGKSSLln~L~~  255 (476)
T 3gee_A          230 VSEGVSTVIAGKPNAGKSTLLNTLLG  255 (476)
T ss_dssp             HHHCEEEEEECCTTSSHHHHHHHCC-
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            45557899999999999999988764

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=87.18  E-value=0.51  Score=45.78  Aligned_cols=28  Identities=29%  Similarity=0.452  Sum_probs=23.7

Q ss_pred             ceeeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         235 KVRAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       235 ~~r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|..++|.++|+||+|||+|+.++...
T Consensus       220 ~~r~~~kV~ivG~~nvGKSSLln~L~~~  247 (462)
T 3geh_A          220 LLRTGLKVAIVGRPNVGKSSLLNAWSQS  247 (462)
T ss_dssp             HHHHCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             hhcCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            3455678999999999999999998764

>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=87.16  E-value=0.23  Score=45.23  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .++++|++|+|||+++..++..+
T Consensus       107 vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          107 YIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999988655

>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=87.03  E-value=0.55  Score=46.16  Aligned_cols=26  Identities=4%  Similarity=-0.082  Sum_probs=23.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      ..|.|+|.+|+|||++++.+++.+..
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            58999999999999999999998763

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=86.69  E-value=0.26  Score=44.17  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=20.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|.++|+||+|||+|+.++...
T Consensus        27 ~~i~vvG~~~~GKSSLln~l~g~   49 (299)
T 2aka_B           27 PQIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             CEEEEEEBTTSCHHHHHHHHHTS
T ss_pred             CeEEEEeCCCCCHHHHHHHHHCC
Confidence            58999999999999999999753

>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=86.58  E-value=0.41  Score=45.02  Aligned_cols=32  Identities=9%  Similarity=0.043  Sum_probs=23.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC----CCeEEEcCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS----PRSVLTTGV  272 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~~  272 (345)
                      -+++.|+||+|||+|+..++..+    .+.+|++..
T Consensus        76 li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E  111 (366)
T 1xp8_A           76 ITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAE  111 (366)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECC
Confidence            57789999999999998776542    245565543

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=86.52  E-value=0.33  Score=48.04  Aligned_cols=24  Identities=33%  Similarity=0.342  Sum_probs=22.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+.|+|++|+|||+|++.++.+.+
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~~   72 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQLI   72 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            689999999999999999998764

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=86.50  E-value=0.3  Score=41.66  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=19.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -.+|+|+.|+|||+++.++.-.+
T Consensus        25 ~~~I~G~NgsGKStil~ai~~~l   47 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAILVGL   47 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            46889999999999999997554

>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=86.30  E-value=0.4  Score=48.38  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=22.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..|+|+|.||+|||++++.+++.+
T Consensus        53 ~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           53 CTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            369999999999999999999886

>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=86.27  E-value=0.38  Score=47.33  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=21.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -.++|+|+||+|||+|++.++...+
T Consensus       282 ~i~~i~G~~GsGKSTLl~~l~g~~~  306 (525)
T 1tf7_A          282 SIILATGATGTGKTLLVSRFVENAC  306 (525)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            3799999999999999999987653

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=86.24  E-value=0.34  Score=47.34  Aligned_cols=25  Identities=24%  Similarity=0.127  Sum_probs=22.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+|++|+|||+|++.++.+.+.
T Consensus        31 ~~~liG~nGsGKSTLl~~l~Gl~~p   55 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVTALIP   55 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             eEEEECCCCCcHHHHHHHHhcCCCC
Confidence            6789999999999999999987653

>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=86.20  E-value=0.33  Score=41.93  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=21.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-|.|.|++|+|||++++.+++.+.
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~   31 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLR   31 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4688999999999999999987653

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=86.20  E-value=0.26  Score=45.48  Aligned_cols=24  Identities=38%  Similarity=0.445  Sum_probs=20.5

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..+.|+++|++|+|||+|+..+..
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~  187 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKL  187 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCS
T ss_pred             CcceEEEECCCCccHHHHHHHHhC
Confidence            346899999999999999988753

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=86.04  E-value=0.33  Score=43.34  Aligned_cols=23  Identities=43%  Similarity=0.634  Sum_probs=20.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..++++|.||+|||+|+..+...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~  122 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGK  122 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTT
T ss_pred             hheEEeCCCCCCHHHHHHHHhcc
Confidence            48999999999999999998753

>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=86.03  E-value=1.4  Score=42.14  Aligned_cols=16  Identities=31%  Similarity=0.401  Sum_probs=14.6

Q ss_pred             eceeeeCCCCChHHHH
Q psy1366         240 SHLLLVGDPGTGKSEI  255 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l  255 (345)
                      -++|+.||+|+|||..
T Consensus         9 ~~vlv~a~TGSGKT~~   24 (440)
T 1yks_A            9 MTTVLDFHPGAGKTRR   24 (440)
T ss_dssp             CEEEECCCTTSSTTTT
T ss_pred             CCEEEEcCCCCCHHHH
Confidence            4899999999999985

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=86.01  E-value=0.38  Score=45.74  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=21.4

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ....+.|+|+||+|||+|++++...
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~   45 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNS   45 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC-
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3368999999999999999999864

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=86.00  E-value=0.36  Score=45.86  Aligned_cols=23  Identities=26%  Similarity=0.418  Sum_probs=21.1

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ...+.|+|+||+|||+|++.+..
T Consensus        20 g~~vgiVG~pnaGKSTL~n~Ltg   42 (392)
T 1ni3_A           20 NLKTGIVGMPNVGKSTFFRAITK   42 (392)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC
Confidence            35899999999999999999987

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=85.93  E-value=0.33  Score=43.96  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=20.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+++|++|+|||+|+..+..
T Consensus       156 ~~i~i~G~~~~GKssli~~~~~  177 (332)
T 2wkq_A          156 IKCVVVGDGAVGKTCLLISYTT  177 (332)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCChHHHHHHHHh
Confidence            6899999999999999988764

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=85.91  E-value=0.083  Score=44.46  Aligned_cols=23  Identities=43%  Similarity=0.494  Sum_probs=20.0

Q ss_pred             eeeceeeeCCCCChHHHHHHHHH
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      ..++|+++|++|+|||+|++.+.
T Consensus        32 ~~~ki~vvG~~~~GKSsli~~l~   54 (199)
T 3l0i_B           32 YLFKLLLIGDSGVGKSCLLLRFA   54 (199)
T ss_dssp             EEEEEEEECCTTSCCTTTTTSSB
T ss_pred             cceEEEEECCCCCCHHHHHHHHh
Confidence            34799999999999999987765

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=85.82  E-value=0.38  Score=46.44  Aligned_cols=22  Identities=14%  Similarity=0.271  Sum_probs=19.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -+++.|+||+|||+|+..++..
T Consensus       205 liiI~G~pG~GKTtl~l~ia~~  226 (454)
T 2r6a_A          205 LIIVAARPSVGKTAFALNIAQN  226 (454)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999887753

>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=85.74  E-value=0.33  Score=45.02  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=20.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ..+.++|+||+|||+++..++..+
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            478899999999999999997653

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=85.72  E-value=0.18  Score=46.26  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -+.|+|+||+|||+|++.+....
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             EEEEECCCCCCHHHHHHHhcccc
Confidence            78999999999999999997654

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=85.69  E-value=0.37  Score=43.49  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=20.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+.++++|.||+|||+|+.++..
T Consensus       120 ~~~v~~vG~~nvGKSsliN~l~~  142 (282)
T 1puj_A          120 AIRALIIGIPNVGKSTLINRLAK  142 (282)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CceEEEEecCCCchHHHHHHHhc
Confidence            47899999999999999999874

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=85.66  E-value=0.42  Score=44.99  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=20.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.+.|+|+||+|||+|++.+...
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~   24 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRA   24 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999865

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=85.40  E-value=0.39  Score=44.70  Aligned_cols=21  Identities=29%  Similarity=0.455  Sum_probs=20.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|.++|++|+|||+|+.++..
T Consensus        36 ~I~vvG~~~sGKSSLln~l~g   56 (360)
T 3t34_A           36 AIAVVGGQSSGKSSVLESIVG   56 (360)
T ss_dssp             EEEEECBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            899999999999999999987

---

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	345
d1ltla_	239	b.40.4.11 (A:) DNA replication initiator (cdc21/cd	5e-23
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	0.001

>d1ltla_ b.40.4.11 (A:) DNA replication initiator (cdc21/cdc54) N-terminal domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 239

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: DNA replication initiator (cdc21/cdc54) N-terminal domain
domain: DNA replication initiator (cdc21/cdc54) N-terminal domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score = 93.6 bits (232), Expect = 5e-23
 Identities = 41/162 (25%), Positives = 64/162 (39%), Gaps = 14/162 (8%)

Query: 5   PQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSI 64
             +   +   ++ IG  + + G V +    +    +  + C  C +   V    +    I
Sbjct: 89  SNVIPLRELRSKFIGKFVAVDGIVRKTDEIRPRIVKAVFECRGCMRHHAV---TQSTNMI 145

Query: 65  ANPLSCGSPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDL 122
             P  C   S C G +F  +   D+  + D Q +K+QE    +  G  P+ I V LEDDL
Sbjct: 146 TEPSLC---SECGGRSFRLLQ--DESEFLDTQTLKLQEPLENLSGGEQPRQITVVLEDDL 200

Query: 123 VDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTV 164
           VD   PGD V V G +    R V        +  +  NY   
Sbjct: 201 VDTLTPGDIVRVTGTL----RTVRDERTKRFKNFIYGNYTEF 238

>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 = 38.0 bits (87), Expect = 0.001
 Identities = 32/162 (19%), Positives = 49/162 (30%), Gaps = 49/162 (30%)

Query: 206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKS------------ 253
            AI G   +KL L +      G G            +L+ GD GTGKS            
Sbjct: 7   SAIVGQEDMKLALLLTAVDP-GIG-----------GVLVFGDRGTGKSTAVRALAALLPE 54

Query: 254 ----EILKFAK-------------------RMSPRSVLTTGV--GTTTAGLTVSALRENG 288
               E    +                    + +P   L  GV        L +      G
Sbjct: 55  IEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKG 114

Query: 289 EWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI 330
           E   E G L  ++ G   IDE + +++H    + +  +    
Sbjct: 115 EKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGEN 156

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	345
d1ltla_	239	DNA replication initiator (cdc21/cdc54) N-terminal	100.0
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.87
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.17
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.16
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.16
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.14
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.09
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.03
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.79
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.72
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.67
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.66
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.62
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.57
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.52
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.42
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.38
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.35
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.32
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.25
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.19
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.15
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.06
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.05
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.95
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.91
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.88
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.76
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.71
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.57
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.57
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.33
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.25
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.23
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.21
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.19
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.19
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.08
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.08
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.83
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.82
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.73
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.71
d1tuea_	205	Replication protein E1 helicase domain {Human papi	96.68
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.68
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.65
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.65
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.55
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.54
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.5
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.45
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.41
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.38
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.33
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.32
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.27
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.26
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.25
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.25
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.2
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.17
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.12
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	95.93
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.78
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.78
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.7
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.64
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.55
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.53
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	95.52
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.5
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.44
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	95.42
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.41
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.37
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.37
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.34
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.29
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.11
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.99
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	94.9
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.85
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.8
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.65
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.64
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.57
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.51
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.5
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.48
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.48
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.46
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.41
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.38
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.34
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	94.31
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.3
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.29
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.29
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.28
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.23
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.2
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.17
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.04
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.91
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.9
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.88
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.86
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.84
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.82
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.8
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.8
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.79
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	93.78
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	93.73
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.7
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	93.69
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.65
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.64
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.63
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.54
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	93.52
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.48
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.46
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.38
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.29
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.27
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.23
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.21
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.15
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.12
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.04
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	92.98
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.98
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	92.94
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.85
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.83
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.82
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.81
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	92.67
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.65
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	92.64
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	92.57
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.55
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.5
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	92.48
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.46
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.44
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.37
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	92.29
d2awna2	232	Maltose transport protein MalK, N-terminal domain	92.28
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.19
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	92.14
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.07
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	92.01
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	92.01
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.97
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	91.87
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	91.86
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	91.78
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	91.76
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.76
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	91.7
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	91.69
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.61
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	91.61
d1g2912	240	Maltose transport protein MalK, N-terminal domain	91.51
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.48
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	91.47
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	91.34
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.26
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	90.92
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	90.85
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	90.81
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	90.78
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	90.7
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	90.46
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	90.46
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	90.19
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	90.07
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.04
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	89.92
d1ls1a2	207	GTPase domain of the signal sequence recognition p	89.88
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	89.74
d1okkd2	207	GTPase domain of the signal recognition particle r	89.64
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	89.63
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	89.51
d1j8yf2	211	GTPase domain of the signal sequence recognition p	89.43
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.39
d1vmaa2	213	GTPase domain of the signal recognition particle r	89.39
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	89.35
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	89.3
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	89.3
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	89.12
d2gmga1	105	Hypothetical protein PF0610 {Pyrococcus furiosus [	89.12
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	89.01
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	88.98
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	88.92
d2qy9a2	211	GTPase domain of the signal recognition particle r	88.88
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	88.17
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	88.15
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	88.13
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	87.92
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	87.87
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	87.87
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.77
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	87.76
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	87.59
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	87.31
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	87.06
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	87.05
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	86.57
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	86.55
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	86.37
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	86.18
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	85.89
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	85.52
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	85.45
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	85.08
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	84.9
d1lkoa2	44	Rubrerythrin, C-terminal domain {Desulfovibrio vul	84.86
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	84.86
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	84.53
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	84.5
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	84.42
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	83.92
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	81.73
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	81.36
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	81.08
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	80.81
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	80.79
d1xpua3	289	Transcription termination factor Rho, ATPase domai	80.16
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	80.06

>d1ltla_ b.40.4.11 (A:) DNA replication initiator (cdc21/cdc54) N-terminal domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: DNA replication initiator (cdc21/cdc54) N-terminal domain
domain: DNA replication initiator (cdc21/cdc54) N-terminal domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=100.00  E-value=2.3e-32  Score=245.00  Aligned_cols=148  Identities=26%  Similarity=0.401  Sum_probs=130.1

Q ss_pred             cccccccCCCCCCCCcEEEEEEEEEEecCCceEEEEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCCeeee
Q psy1366           5 PQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTNFSPV   84 (345)
Q Consensus         5 ~~~~~~~~~~s~~igkLV~i~G~Vir~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~f~~l   84 (345)
                      |.....|.+++.++||||+++|+|+|+|+++|++.+++|+|.+||+.+.+...   .+.+.+|..|+   .|++++|.++
T Consensus        89 ~~~~~ir~l~s~~igkLv~v~GiV~r~s~v~~~~~~~~~~C~~C~~~~~~~~~---~~~~~~p~~C~---~C~~~~f~~~  162 (239)
T d1ltla_          89 SNVIPLRELRSKFIGKFVAVDGIVRKTDEIRPRIVKAVFECRGCMRHHAVTQS---TNMITEPSLCS---ECGGRSFRLL  162 (239)
T ss_dssp             SCBCCGGGCCGGGTTSEEEEEEEEEEECCCEEEEEEEEEEETTTCCEEEEECS---SSSCCCCSCCT---TTCCCCEEEC
T ss_pred             CCccchhccchhhhccEEEEEEEEEEeCCEEEEEEEEEEECCCCCceEEEEec---CCeecCCccCC---CCCCcccEEc
Confidence            44556778999999999999999999999999999999999999999877553   45678999996   6999999887


Q ss_pred             ecCCCCceeeeeeEEEeeec--CCCCCCceEEEEEEecCccccccCCCEEEEEEEEeeeeeecccCccceeEEEeeecee
Q psy1366          85 TSVDQDNYKDYQEIKIQERA--AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYL  162 (345)
Q Consensus        85 ~~~~~~~~~d~Q~IriQE~~--~~~g~~prsi~V~l~~dlv~~~~pGd~V~i~Gil~~~~~~~~~~~~~~~~~~i~a~~i  162 (345)
                        .+.+.|+|||+|+|||++  ++.|++||+++|+|++||||+++|||+|.|+|||+...    .+....++.+++|+||
T Consensus       163 --~~~s~~~d~Q~i~iQE~~e~~~~G~~Pr~i~v~l~~dlvd~~~pGd~V~i~GI~~~~~----~~~~~~~~~~i~a~~I  236 (239)
T d1ltla_         163 --QDESEFLDTQTLKLQEPLENLSGGEQPRQITVVLEDDLVDTLTPGDIVRVTGTLRTVR----DERTKRFKNFIYGNYT  236 (239)
T ss_dssp             --GGGCEEEEEEEEEEECCSTTCCSSCCCCEEEEEEEGGGTTCCCTTCEEEEEEEEEEEE----ETTTTEEEEEEEEEEC
T ss_pred             --cCcceEeeeEEEEEecccccCCCCCCCcEEEEEEeccccCccCCCCEEEEEEEEEEee----cCCCCceEEEEEEEEE
Confidence              457889999999999999  88999999999999999999999999999999997543    2334568899999999


Q ss_pred             ee
Q psy1366         163 TV  164 (345)
Q Consensus       163 ~~  164 (345)
                      +.
T Consensus       237 e~  238 (239)
T d1ltla_         237 EF  238 (239)
T ss_dssp             CB
T ss_pred             EE
Confidence            75

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=99.87  E-value=1.7e-23  Score=195.66  Aligned_cols=126  Identities=25%  Similarity=0.307  Sum_probs=102.5

Q ss_pred             CcccccchHHHHHHHHHHh--CCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCC----------
Q psy1366         205 CPAIYGLYLVKLCLAVVLA--GGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGV----------  272 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~--~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~----------  272 (345)
                      +++|+||+.+|+|++++++  |+              .|+||+|+||||||+|+|.++.++|.-....+.          
T Consensus         6 f~~I~Gq~~~kral~laa~~~~~--------------h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~   71 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAVDPGI--------------GGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMI   71 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHHCGGG--------------CCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGS
T ss_pred             hhhccCcHHHHHHHHHHHhccCC--------------CeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccc
Confidence            4689999999999999887  43              499999999999999999999999764333221          


Q ss_pred             -----------------------ccCcCCceEEEE----eecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHH
Q psy1366         273 -----------------------GTTTAGLTVSAL----RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAM  325 (345)
Q Consensus       273 -----------------------~~~~~glt~~~~----~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eam  325 (345)
                                             +.+..++.....    ...|.|..++|.+.+||+||+||||++++++..+++|+++|
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~~~~~aLl~~m  151 (333)
T d1g8pa_          72 PDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVA  151 (333)
T ss_dssp             CTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHH
T ss_pred             cchhhccccCcccccCceeeccCCCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHHHHHHHHHhhhh
Confidence                                   111112222211    11377889999999999999999999999999999999999


Q ss_pred             hCCEEEEeeCCeEEEeccC
Q psy1366         326 EQQTISVAKDKESKKVKVK  344 (345)
Q Consensus       326 e~~~i~i~k~gi~~~l~ar  344 (345)
                      |+++++|+++|...+++++
T Consensus       152 e~~~v~i~r~g~~~~~p~~  170 (333)
T d1g8pa_         152 QSGENVVERDGLSIRHPAR  170 (333)
T ss_dssp             HHSEEEECCTTCCEEEECC
T ss_pred             cCCeEEecccCceecCCCC
Confidence            9999999999999999886

>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=99.17  E-value=1.2e-11  Score=113.50  Aligned_cols=130  Identities=14%  Similarity=0.142  Sum_probs=84.4

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc--
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT--  276 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~--  276 (345)
                      .+.+.|...|+||+.+++++..++...... ..+..  +...++||+||||+|||.|++.+|+.+..++.....+...  
T Consensus        15 ~l~~~L~~~viGQ~~a~~~v~~~v~~~~~~-l~~~~--~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~   91 (315)
T d1r6bx3          15 NLGDRLKMLVFGQDKAIEALTEAIKMARAG-LGHEH--KPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMER   91 (315)
T ss_dssp             HHHHHHTTTSCSCHHHHHHHHHHHHHHHTT-CSCTT--SCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSS
T ss_pred             HHHHHhCCeecChHHHHHHHHHHHHHHHcc-CCCCC--CCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccch
Confidence            455557778999999999988776421100 01111  2223799999999999999999999998775443322111  


Q ss_pred             ---CCceEEEE----eecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         277 ---AGLTVSAL----RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       277 ---~glt~~~~----~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                         ..|..+..    .+.+.  .-.+.+.....+|+++||+||++++.++.|+++|+.|+++-.
T Consensus        92 ~~~~~l~g~~~gy~g~~~~~--~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~  153 (315)
T d1r6bx3          92 HTVSRLIGAPPGYVGFDQGG--LLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDN  153 (315)
T ss_dssp             SCCSSSCCCCSCSHHHHHTT--HHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEET
T ss_pred             hhhhhhcccCCCccccccCC--hhhHHHHhCccchhhhcccccccchHhhhhHHhhccceecCC
Confidence               11111100    00000  001223445678999999999999999999999999999744

>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=99.16  E-value=8.6e-12  Score=109.45  Aligned_cols=110  Identities=25%  Similarity=0.305  Sum_probs=74.1

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc-CCccCcCCceEEEE
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT-GVGTTTAGLTVSAL  284 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~-~~~~~~~glt~~~~  284 (345)
                      .+++|++.+|+.+..++.....+.       ..-.|+||+||||||||++++.+++.+...+... +......+....  
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~-------~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~~~~~~--   79 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARK-------EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAA--   79 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSS-------SCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHH--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcC-------CCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccchhhHH--
Confidence            478999999988776655331110       1124999999999999999999999887654433 221111110000  


Q ss_pred             eecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEEe
Q psy1366         285 RENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVA  333 (345)
Q Consensus       285 ~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i~  333 (345)
                          .     -.-...++.+++|||+++++...+..++.+||...+.+.
T Consensus        80 ----~-----~~~~~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~  119 (239)
T d1ixsb2          80 ----I-----LANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIV  119 (239)
T ss_dssp             ----H-----HHTTCCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEE
T ss_pred             ----H-----HHhhccCCCeeeeecccccchhHHHhhhhhhhhhhhhhh
Confidence                0     000223467999999999999999999999998766543

>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=99.16  E-value=9.6e-12  Score=113.89  Aligned_cols=130  Identities=20%  Similarity=0.271  Sum_probs=75.5

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCccc-CCCCCc-eeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCcc--
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRG-GEDGSK-VRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT--  274 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~-~~~~~~-~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~--  274 (345)
                      .|.+.|...|+||+.+|+++..++.....+. ..++.+ .+..-++||+||||||||.|++++|+.+..++.....+.  
T Consensus         7 ~i~~~L~~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~   86 (309)
T d1ofha_           7 EIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFT   86 (309)
T ss_dssp             HHHHHHHTTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGS
T ss_pred             HHHHHhcCcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccc
Confidence            3445566678999999999987763100000 000000 001148999999999999999999998876554332211  


Q ss_pred             ---CcCCceEEEEeecCeeEeeecee-e-ecCCcEEEEcCCCCCCHH------------hHHHHHHHHhCCEEE
Q psy1366         275 ---TTAGLTVSALRENGEWHLEAGAL-V-LSDGGVCCIDEFSSIKEH------------DRTSIHEAMEQQTIS  331 (345)
Q Consensus       275 ---~~~glt~~~~~~~~~~~~~~G~l-~-la~~gi~~IDEidk~~~~------------~~~~l~eame~~~i~  331 (345)
                         ...|+..+..+.   ....++.. . ....+|+|||||||+.+.            .++.|+..|+..+++
T Consensus        87 ~~~~~~~~~~~~~~~---~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~  157 (309)
T d1ofha_          87 EVGYVGKEVDSIIRD---LTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVS  157 (309)
T ss_dssp             SCCSGGGSTTHHHHH---HHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEE
T ss_pred             cceeEeeeccccccc---cchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEe
Confidence               112221111110   00112111 1 112589999999998643            456788889877665

>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=99.14  E-value=1.3e-11  Score=115.31  Aligned_cols=132  Identities=16%  Similarity=0.200  Sum_probs=81.3

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCccc---------CCC---------CCceeeeeceeeeCCCCChHHHHHHHHH
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRG---------GED---------GSKVRAESHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~---------~~~---------~~~~r~~~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      .|.+.|...|+||+.+|+++..|+.....+.         ..+         +...+..-|+||+||+|+|||.|+|.+|
T Consensus        10 ei~~~L~~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA   89 (364)
T d1um8a_          10 ELKAVLDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLA   89 (364)
T ss_dssp             HHHHHHHTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHH
T ss_pred             HHHHHhCCeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHH
Confidence            4666677789999999999998874210000         000         0000122489999999999999999999


Q ss_pred             hhCCCeEEEcC-CccCcCCceEEEEeecCe-----eEeeeceeeecCCcEEEEcCCCC--------------CCHHhHHH
Q psy1366         261 RMSPRSVLTTG-VGTTTAGLTVSALRENGE-----WHLEAGALVLSDGGVCCIDEFSS--------------IKEHDRTS  320 (345)
Q Consensus       261 ~~~~~~~~~~~-~~~~~~glt~~~~~~~~~-----~~~~~G~l~la~~gi~~IDEidk--------------~~~~~~~~  320 (345)
                      +.+..++.... ..-+..|...   ++.+.     ....++.+..+..|++++||++|              ..++.++.
T Consensus        90 ~~~~~~~ir~D~s~~~e~gyvg---~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~  166 (364)
T d1um8a_          90 KHLDIPIAISDATSLTEAGYVG---EDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQA  166 (364)
T ss_dssp             HHTTCCEEEEEGGGCC-----------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHH
T ss_pred             hhcccceeehhhhhcccchhhH---hhhccchhhhhhhchhHHHHhhcccchhhhhhhhccccccccccccccchHHHHh
Confidence            99876543322 2122223221   11110     00113344566789999999999              77789999


Q ss_pred             HHHHHhCCEEEEe
Q psy1366         321 IHEAMEQQTISVA  333 (345)
Q Consensus       321 l~eame~~~i~i~  333 (345)
                      |++.||.+.+.+.
T Consensus       167 lLqild~~~~~~~  179 (364)
T d1um8a_         167 LLKIVEGSLVNIP  179 (364)
T ss_dssp             HHHHHHCCEEC--
T ss_pred             hhhhhcCceeccC
Confidence            9999998877653

>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=99.09  E-value=1.9e-11  Score=106.97  Aligned_cols=106  Identities=26%  Similarity=0.346  Sum_probs=71.3

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEe
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR  285 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~  285 (345)
                      .+|+|++.+|+.+.-++..+..+.       ....|+||+||||||||++++.+++.+.............         
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~-------~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~---------   72 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRG-------EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV---------   72 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHT-------CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCC---------
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcC-------CCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccc---------
Confidence            578999999887766654321100       0114999999999999999999999887655432211110         


Q ss_pred             ecCeeEeeecee-eecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEE
Q psy1366         286 ENGEWHLEAGAL-VLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       286 ~~~~~~~~~G~l-~la~~gi~~IDEidk~~~~~~~~l~eame~~~i  330 (345)
                      ..++.   ...+ ....+++++|||++++++..++.++.+|+.+.+
T Consensus        73 ~~~~~---~~~~~~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~  115 (238)
T d1in4a2          73 KQGDM---AAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQI  115 (238)
T ss_dssp             SHHHH---HHHHHHCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC
T ss_pred             cHHHH---HHHHHhhccCCchHHHHHHHhhhHHHhhcccceeeeee
Confidence            00000   1111 123468999999999999999999999998764

>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=99.03  E-value=1.1e-10  Score=106.81  Aligned_cols=128  Identities=14%  Similarity=0.149  Sum_probs=78.0

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC---CCeEEEcCCccC
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS---PRSVLTTGVGTT  275 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~---~~~~~~~~~~~~  275 (345)
                      .|.+.+...|+||+.++.++..++...... ..+..  +....+||+||||+|||.+++.+++.+   ...+......+.
T Consensus        16 ~l~~~L~~~v~GQ~~ai~~v~~~i~~~~~~-l~~~~--kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~   92 (315)
T d1qvra3          16 RLEEELHKRVVGQDEAIRAVADAIRRARAG-LKDPN--RPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEY   92 (315)
T ss_dssp             SHHHHHHHHSCSCHHHHHHHHHHHHHHGGG-CSCSS--SCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTC
T ss_pred             HHHHHhcCeEeCHHHHHHHHHHHHHHHhcC-CCCCC--CCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEecccc
Confidence            344556667899998888887665422110 01111  222368999999999999999999986   233332222211


Q ss_pred             c-----CCceEE---EE-ee-cCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCCEEEE
Q psy1366         276 T-----AGLTVS---AL-RE-NGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       276 ~-----~glt~~---~~-~~-~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~~i~i  332 (345)
                      .     ..|..+   .. .+ ++.   -..++.....+|+++|||||++++.++.|+++|+.++++-
T Consensus        93 ~~~~~~~~L~g~~~gyvG~~~~~~---l~~~~~~~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~  156 (315)
T d1qvra3          93 MEKHAVSRLIGAPPGYVGYEEGGQ---LTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTD  156 (315)
T ss_dssp             CSSGGGGGC--------------C---HHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECC
T ss_pred             ccchhhhhhcCCCCCCcCcccCCh---HHHHHHhCCCcEEEEehHhhcCHHHHHHHHHHhccCceeC
Confidence            1     111111   00 00 111   1122333447999999999999999999999999998873

>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=98.79  E-value=9.1e-10  Score=97.23  Aligned_cols=90  Identities=21%  Similarity=0.374  Sum_probs=62.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe---EEE-cCCccCc----CCceEEEEee--cCeeEeeeceeeecCCcEEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS---VLT-TGVGTTT----AGLTVSALRE--NGEWHLEAGALVLSDGGVCCIDE  309 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~-~~~~~~~----~glt~~~~~~--~~~~~~~~G~l~la~~gi~~IDE  309 (345)
                      .+|||.|++||||+.+|++++..++..   +.. .....+.    ..+... .+.  .+.-...+|.+.+|++|++||||
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~lfg~-~~~~~~~~~~~~~g~l~~a~gGtL~l~~  102 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGY-EKGAFTGAVSSKEGFFELADGGTLFLDE  102 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCB-CTTSSTTCCSCBCCHHHHTTTSEEEEES
T ss_pred             CCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHHhcCc-ccCCcCCcccccCCHHHccCCCEEEEeC
Confidence            499999999999999999999887652   111 1111000    001100 000  01112347888999999999999


Q ss_pred             CCCCCHHhHHHHHHHHhCCEE
Q psy1366         310 FSSIKEHDRTSIHEAMEQQTI  330 (345)
Q Consensus       310 idk~~~~~~~~l~eame~~~i  330 (345)
                      +|.++.+.|..|+.+++++++
T Consensus       103 i~~L~~~~Q~~L~~~l~~~~~  123 (247)
T d1ny5a2         103 IGELSLEAQAKLLRVIESGKF  123 (247)
T ss_dssp             GGGCCHHHHHHHHHHHHHSEE
T ss_pred             hHhCCHHHHHHHHHHHHhCCE
Confidence            999999999999999998764

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.72  E-value=5.2e-10  Score=96.90  Aligned_cols=109  Identities=20%  Similarity=0.259  Sum_probs=66.9

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC-----eEEEcCCccCcCCc
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR-----SVLTTGVGTTTAGL  279 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~-----~~~~~~~~~~~~gl  279 (345)
                      +.+++|++.++..+.-.+-.+..            .|+||+||||+|||++++.+++.+..     .+... ..+...+.
T Consensus        13 ~~divg~~~~~~~L~~~i~~~~~------------~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~-~~~~~~~~   79 (227)
T d1sxjc2          13 LDEVYGQNEVITTVRKFVDEGKL------------PHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLEL-NASDDRGI   79 (227)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCC------------CCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEE-CTTSCCSH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCC------------CeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEe-cccccCCe
Confidence            35789999999888887765521            38999999999999999999986421     11111 11111110


Q ss_pred             eEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         280 TVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       280 t~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      ...  ............+.....-+++|||+|.+....+.+|+.+||+.
T Consensus        80 ~~~--~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~  126 (227)
T d1sxjc2          80 DVV--RNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERY  126 (227)
T ss_dssp             HHH--HTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHT
T ss_pred             eee--ecchhhccccccccCCCeEEEEEeccccchhhHHHHHHHHhhhc
Confidence            000  00000000000111122349999999999999999999999963

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.67  E-value=2.6e-09  Score=92.41  Aligned_cols=109  Identities=19%  Similarity=0.246  Sum_probs=68.1

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC-----eEEEcCCccCcCCc
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR-----SVLTTGVGTTTAGL  279 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~-----~~~~~~~~~~~~gl  279 (345)
                      +.++.|++.++..+.-.+-.+..            .|+||+||||+|||++++.+++.+..     .++... .+...+.
T Consensus        14 ~~d~ig~~~~~~~L~~~~~~~~~------------~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n-~~~~~~~   80 (224)
T d1sxjb2          14 LSDIVGNKETIDRLQQIAKDGNM------------PHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELN-ASDDRGI   80 (224)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCCC------------CCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC-TTSCCSH
T ss_pred             HHHhcCCHHHHHHHHHHHHcCCC------------CeEEEECCCCCCchhhHHHHHHHHhcccccccccccc-ccccCCc
Confidence            45789999998888888776521            38999999999999999999876532     121111 1111110


Q ss_pred             eEEEEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         280 TVSALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       280 t~~~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      ..  .++. ..+....-........+++|||+|.+....|.+|+..||..
T Consensus        81 ~~--i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~  128 (224)
T d1sxjb2          81 DV--VRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELY  128 (224)
T ss_dssp             HH--HHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHT
T ss_pred             ee--hhhHHHHHHHhhccCCCcceEEEEEecccccchhHHHHHhhhcccc
Confidence            00  0000 00000000011123469999999999999999999999864

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.66  E-value=1.7e-09  Score=93.92  Aligned_cols=107  Identities=20%  Similarity=0.245  Sum_probs=69.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCC------eEEEcCCccCcCC
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPR------SVLTTGVGTTTAG  278 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~------~~~~~~~~~~~~g  278 (345)
                      ..+|.|++.++..+.-++-.+..            .|+||+||||+|||++++.+++.+..      .+...+  ++..+
T Consensus        23 ~~diig~~~~~~~l~~~i~~~~~------------~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~--s~~~~   88 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTGSM------------PHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNA--SDERG   88 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCC------------CEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEET--TCHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCC------------CeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEec--Ccccc
Confidence            45899999999998888876521            38999999999999999999986531      112221  11111


Q ss_pred             ceEEEEeec-CeeEeeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         279 LTVSALREN-GEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       279 lt~~~~~~~-~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      ..  ..++. .++ ..-.........|+++||+|.+....+.+|+..|+..
T Consensus        89 ~~--~~~~~~~~~-~~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~  136 (231)
T d1iqpa2          89 IN--VIREKVKEF-ARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMF  136 (231)
T ss_dssp             HH--TTHHHHHHH-HHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHT
T ss_pred             hh--HHHHHHHHH-HhhhhccCCCceEEeehhhhhcchhHHHHHhhhcccC
Confidence            00  00000 000 0000112235679999999999999999999999864

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.62  E-value=5.2e-09  Score=91.57  Aligned_cols=111  Identities=18%  Similarity=0.154  Sum_probs=66.1

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCc---------
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTT---------  276 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~---------  276 (345)
                      -++.|++.++..+.-.+..+.           ...++||+||||+|||++++.+++.+.......+.....         
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-----------~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~   80 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-----------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQ   80 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-----------CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCC-----------CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHc
Confidence            478999999998887777651           112489999999999999999987653221111110000         


Q ss_pred             -CCceEEEEeecCee-------Eeeeceeee--cCCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         277 -AGLTVSALRENGEW-------HLEAGALVL--SDGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       277 -~glt~~~~~~~~~~-------~~~~G~l~l--a~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                       ...........+.-       .++......  ...-|++|||+|+|+.+.|++|+..||+
T Consensus        81 ~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~  141 (239)
T d1njfa_          81 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEE  141 (239)
T ss_dssp             TCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHS
T ss_pred             CCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhc
Confidence             00000000000000       000000111  1234899999999999999999999997

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.57  E-value=6.7e-09  Score=89.95  Aligned_cols=110  Identities=15%  Similarity=0.224  Sum_probs=66.0

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC-------CCeEEEcCCccCcC
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS-------PRSVLTTGVGTTTA  277 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~-------~~~~~~~~~~~~~~  277 (345)
                      +.+++|++.++..+.-++-.+..            .|+||+||||+|||++++.+++.+       .........  ...
T Consensus        11 ~~diig~~~~~~~l~~~i~~~~~------------~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~--~~~   76 (237)
T d1sxjd2          11 LDEVTAQDHAVTVLKKTLKSANL------------PHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNAS--DER   76 (237)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTC------------CCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSS--SCC
T ss_pred             HHHccCcHHHHHHHHHHHHcCCC------------CeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheecc--ccc
Confidence            34688999888887777654421            379999999999999999999864       112222221  111


Q ss_pred             CceE--EEEeecCeeEee-ec-----eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         278 GLTV--SALRENGEWHLE-AG-----ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       278 glt~--~~~~~~~~~~~~-~G-----~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      +...  ...++....... ..     ........+++|||+|.+....++.|+..++..
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~  135 (237)
T d1sxjd2          77 GISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETY  135 (237)
T ss_dssp             CHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccc
Confidence            1100  000000000000 00     001122348999999999999999999999864

>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=98.52  E-value=5.1e-08  Score=85.00  Aligned_cols=47  Identities=26%  Similarity=0.138  Sum_probs=36.2

Q ss_pred             cccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         206 PAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .++.|++.++..+.-.+..+           +...|+||+||||+|||++++.+++.+
T Consensus        11 ~diig~~~~~~~L~~~~~~~-----------~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQP-----------RDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCT-----------TCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC-----------CCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            46899999888776554433           112489999999999999999998753

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.42  E-value=1e-08  Score=90.73  Aligned_cols=63  Identities=24%  Similarity=0.228  Sum_probs=40.9

Q ss_pred             cccccchHHHHHHHHHH--hCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         206 PAIYGLYLVKLCLAVVL--AGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l--~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -+|.|.+.+|..+.-.+  +.........|  .+..-++||+||||||||.+++++++.+...++..
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g--~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i   76 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLG--GKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTI   76 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-------CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEE
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcC--CCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEE
Confidence            57889988887774321  11111111111  12234799999999999999999999988776544

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.38  E-value=1.5e-07  Score=81.97  Aligned_cols=121  Identities=17%  Similarity=0.202  Sum_probs=66.5

Q ss_pred             CcccccchHHHHHHHHHHhCCCc--cc--CCCCC-ceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCC-
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVG--RG--GEDGS-KVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAG-  278 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~--~~--~~~~~-~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~g-  278 (345)
                      +.++.|++.++..+.-.+.....  +.  ...+. ......|+||+||||||||++++++++.....++.........+ 
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~~~~~   92 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKT   92 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCHH
T ss_pred             HHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccchhhH
Confidence            45788998888777665532100  00  00000 00111389999999999999999999998876654432211110 


Q ss_pred             -ceEEEEee---c----CeeE-eeeceeeecCCcEEEEcCCCCCCHHhHHHHHHHHh
Q psy1366         279 -LTVSALRE---N----GEWH-LEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAME  326 (345)
Q Consensus       279 -lt~~~~~~---~----~~~~-~~~G~l~la~~gi~~IDEidk~~~~~~~~l~eame  326 (345)
                       +.. ..++   .    ..+. ...........-++++||++.+....+..+...++
T Consensus        93 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~  148 (253)
T d1sxja2          93 LLNA-GVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQ  148 (253)
T ss_dssp             HHHH-TGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHH
T ss_pred             HHHH-HHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhh
Confidence             000 0000   0    0000 00011122335689999999999888877666665

>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=98.35  E-value=1.3e-07  Score=89.76  Aligned_cols=71  Identities=20%  Similarity=0.287  Sum_probs=52.8

Q ss_pred             HHHhccCcccccchHHHHHHHHHHhCCCcccC---CCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         199 HILASICPAIYGLYLVKLCLAVVLAGGVGRGG---EDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       199 ~l~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~---~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      .|.+.|...|+||+.+|+++..++.....+..   ..... ....||||+||||||||.|+|.+|+++.-++...
T Consensus         7 ~i~~~Ld~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~e-i~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~   80 (443)
T d1g41a_           7 EIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHE-VTPKNILMIGPTGVGKTEIARRLAKLANAPFIKV   80 (443)
T ss_dssp             HHHHHHHTTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTT-CCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHHhcCcccCcHHHHHHHHHHHHHHHHHhhcccccccc-cccccEEEECCCCCCHHHHHHHHHHHhCCCEEEe
Confidence            46666777899999999999999975432210   11111 1234999999999999999999999998776544

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.32  E-value=2.5e-08  Score=88.32  Aligned_cols=64  Identities=17%  Similarity=0.118  Sum_probs=41.4

Q ss_pred             cccccchHHHHHHHHHHhC---CCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         206 PAIYGLYLVKLCLAVVLAG---GVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       206 p~i~G~~~vk~~i~l~l~~---g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      -+|.|++.+|+.|.-.+.-   ........|.  ...-.+||+||||||||.++++++..+...++...
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~--~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~   70 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGV--KPPRGILLYGPPGTGKTLIARAVANETGAFFFLIN   70 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCC--CCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEEC
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCC--CCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEE
Confidence            3678888887766554321   0000000011  11126999999999999999999999988876543

>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=98.25  E-value=4.5e-08  Score=86.03  Aligned_cols=84  Identities=13%  Similarity=0.171  Sum_probs=49.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceee---ecCCcEEEEcCCCCC---
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALV---LSDGGVCCIDEFSSI---  313 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~---la~~gi~~IDEidk~---  313 (345)
                      ..|||+||||||||++++++|+.+..+++.....+...|.+...   ... .+ ...+.   ....+|++|||+|++   
T Consensus        41 ~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~---~~~-~i-~~if~~A~~~~p~il~iDEid~l~~~  115 (246)
T d1d2na_          41 VSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETA---KCQ-AM-KKIFDDAYKSQLSCVVVDDIERLLDY  115 (246)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHH---HHH-HH-HHHHHHHHTSSEEEEEECCHHHHTTC
T ss_pred             eEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccc---hhh-hh-hhhhhhhhhcccceeehhhhhhHhhh
Confidence            47999999999999999999999887765443222222321100   000 00 00111   123479999999864   


Q ss_pred             -------CHHhHHHHHHHHhCC
Q psy1366         314 -------KEHDRTSIHEAMEQQ  328 (345)
Q Consensus       314 -------~~~~~~~l~eame~~  328 (345)
                             .....++|+..|+..
T Consensus       116 ~~~~~~~~~~~~~~ll~~l~~~  137 (246)
T d1d2na_         116 VPIGPRFSNLVLQALLVLLKKA  137 (246)
T ss_dssp             BTTTTBCCHHHHHHHHHHTTCC
T ss_pred             cccccchhHHHHHHHHHHhcCC
Confidence                   233346677777643

>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=98.19  E-value=3.9e-07  Score=77.64  Aligned_cols=27  Identities=7%  Similarity=0.257  Sum_probs=25.0

Q ss_pred             CCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         301 DGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       301 ~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      ...|++|||+|.|+.+.|++|+..||+
T Consensus       108 ~~kviIide~d~l~~~a~n~Llk~lEe  134 (207)
T d1a5ta2         108 GAKVVWVTDAALLTDAAANALLKTLEE  134 (207)
T ss_dssp             SCEEEEESCGGGBCHHHHHHHHHHHTS
T ss_pred             ccceEEechhhhhhhhhhHHHHHHHHh
Confidence            456999999999999999999999997

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.15  E-value=2.8e-08  Score=88.37  Aligned_cols=31  Identities=23%  Similarity=0.387  Sum_probs=28.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      +|||+||||||||.++++++..++..++...
T Consensus        43 giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~   73 (265)
T d1r7ra3          43 GVLFYGPPGCGKTLLAKAIANECQANFISIK   73 (265)
T ss_dssp             EEEEBCCTTSSHHHHHHHHHHHTTCEEEEEC
T ss_pred             eEEEECCCCCcchhHHHHHHHHhCCcEEEEE
Confidence            7999999999999999999999998876554

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.06  E-value=1.6e-07  Score=79.05  Aligned_cols=111  Identities=23%  Similarity=0.345  Sum_probs=65.4

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC----------CCeEEEcCCc
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS----------PRSVLTTGVG  273 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~----------~~~~~~~~~~  273 (345)
                      +.| ++|.+..-..+...|....            .-|++|+||||+|||.+++.+++..          .+.++....+
T Consensus        21 ld~-~igRd~Ei~~l~~iL~r~~------------k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~   87 (195)
T d1jbka_          21 LDP-VIGRDEEIRRTIQVLQRRT------------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG   87 (195)
T ss_dssp             SCC-CCSCHHHHHHHHHHHTSSS------------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH
T ss_pred             CCC-CcCcHHHHHHHHHHHhccC------------CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH
Confidence            444 7798766666666665431            1399999999999999999988632          2344433322


Q ss_pred             cCcCCceEEEEeecCeeEeee-cee--eecC--CcEEEEcCCCCCCH--------HhHHHHHHHHhCCEEEE
Q psy1366         274 TTTAGLTVSALRENGEWHLEA-GAL--VLSD--GGVCCIDEFSSIKE--------HDRTSIHEAMEQQTISV  332 (345)
Q Consensus       274 ~~~~glt~~~~~~~~~~~~~~-G~l--~la~--~gi~~IDEidk~~~--------~~~~~l~eame~~~i~i  332 (345)
                      +-.+|...     -|+|.-.- ..+  ..+.  +-|+||||+..+-.        +.-+.|..+|+.+.+.+
T Consensus        88 ~LiAg~~~-----rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg~l~~  154 (195)
T d1jbka_          88 ALVAGAKY-----RGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHC  154 (195)
T ss_dssp             HHHTTTCS-----HHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTTSCCE
T ss_pred             HHhccCCc-----cHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCCCceE
Confidence            22222110     02221110 111  1123  34999999987622        23377888999888765

>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=98.05  E-value=1.4e-06  Score=76.97  Aligned_cols=109  Identities=21%  Similarity=0.230  Sum_probs=63.1

Q ss_pred             ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC----------CCeEEEcCCccCc
Q psy1366         207 AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS----------PRSVLTTGVGTTT  276 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~----------~~~~~~~~~~~~~  276 (345)
                      .++|.+.--..++-.|.....            .|+||+||||+|||.+++.+++..          .+.++....++-.
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~k------------~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~li   86 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRRK------------NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL   86 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSS------------CEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---
T ss_pred             cccChHHHHHHHHHHHhcCcc------------CCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHh
Confidence            478987666666666654421            399999999999999999988642          2234443332222


Q ss_pred             CCceEEEEeecCeeEeee----ceeeecCCcEEEEcCCCCCC---------HHhHHHHHHHHhCCEEEE
Q psy1366         277 AGLTVSALRENGEWHLEA----GALVLSDGGVCCIDEFSSIK---------EHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       277 ~glt~~~~~~~~~~~~~~----G~l~la~~gi~~IDEidk~~---------~~~~~~l~eame~~~i~i  332 (345)
                      +|..     --|+|...-    ..+..+++-|+||||++.+-         .+.-+.|..+|+.+.+.+
T Consensus        87 ag~~-----~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~v  150 (268)
T d1r6bx2          87 AGTK-----YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRV  150 (268)
T ss_dssp             CCCC-----CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEE
T ss_pred             ccCc-----cchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeE
Confidence            2211     113332110    01123445789999999871         123344556777787765

>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=97.95  E-value=2.2e-07  Score=84.26  Aligned_cols=24  Identities=13%  Similarity=0.278  Sum_probs=21.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ++||+||||||||.|++++|..+.
T Consensus       125 ~~l~~G~pG~GKT~la~ala~~~~  148 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGEALG  148 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHHHhc
Confidence            677799999999999999998853

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.91  E-value=8.1e-06  Score=66.50  Aligned_cols=25  Identities=24%  Similarity=0.579  Sum_probs=23.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      +|+|+||||+|||+|++.++..++.
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            7999999999999999999987765

>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=97.88  E-value=1.9e-06  Score=75.36  Aligned_cols=61  Identities=26%  Similarity=0.310  Sum_probs=38.3

Q ss_pred             ccccchHHHHHHHHHH--hCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         207 AIYGLYLVKLCLAVVL--AGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       207 ~i~G~~~vk~~i~l~l--~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +|.|++.+|+.|.-.+  +-........|  .+..-++||+||||||||++++++++.+...++.
T Consensus        10 di~G~~~~k~~l~~~i~~l~~~~~~~~~g--~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~   72 (247)
T d1ixza_          10 DVAGAEEAKEELKEIVEFLKNPSRFHEMG--ARIPKGVLLVGPPGVGKTHLARAVAGEARVPFIT   72 (247)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHCHHHHHHTT--CCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEE
T ss_pred             HHccHHHHHHHHHHHHHHHHCHHHHHHcC--CCCCceEEEecCCCCChhHHHHHHHHHcCCCEEE
Confidence            5788888877653321  10000000011  1122379999999999999999999998876543

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.76  E-value=2.3e-06  Score=72.32  Aligned_cols=83  Identities=12%  Similarity=0.191  Sum_probs=51.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC------eEEEcCCccCcCCceEEEEeecCee-EeeeceeeecCCcEEEEcCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR------SVLTTGVGTTTAGLTVSALRENGEW-HLEAGALVLSDGGVCCIDEFSS  312 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~------~~~~~~~~~~~~glt~~~~~~~~~~-~~~~G~l~la~~gi~~IDEidk  312 (345)
                      .|+||+|+||+|||++++.+++....      .++.....+..-|.  ..+|+-..+ ...|   ..+..-|++|||+|+
T Consensus        16 ~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~I--d~IR~i~~~~~~~~---~~~~~KviIId~ad~   90 (198)
T d2gnoa2          16 ISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGI--DDIRTIKDFLNYSP---ELYTRKYVIVHDCER   90 (198)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCH--HHHHHHHHHHTSCC---SSSSSEEEEETTGGG
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCH--HHHHHHHHHHhhCc---ccCCCEEEEEeCccc
Confidence            69999999999999999999875421      12221111011010  001110001 0111   123456999999999


Q ss_pred             CCHHhHHHHHHHHhC
Q psy1366         313 IKEHDRTSIHEAMEQ  327 (345)
Q Consensus       313 ~~~~~~~~l~eame~  327 (345)
                      |+...+++|+..||+
T Consensus        91 l~~~aqNaLLK~LEE  105 (198)
T d2gnoa2          91 MTQQAANAFLKALEE  105 (198)
T ss_dssp             BCHHHHHHTHHHHHS
T ss_pred             cchhhhhHHHHHHhC
Confidence            999999999999995

>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=97.71  E-value=6.8e-06  Score=76.31  Aligned_cols=111  Identities=21%  Similarity=0.351  Sum_probs=54.2

Q ss_pred             cCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhC----------CCeEEEcCCc
Q psy1366         204 ICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMS----------PRSVLTTGVG  273 (345)
Q Consensus       204 ~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~----------~~~~~~~~~~  273 (345)
                      +.| ++|.+.--.-++-.|...            ..-|+||+||||+|||.++..++...          ++.++....+
T Consensus        21 ld~-~~gr~~ei~~~~~~L~r~------------~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~   87 (387)
T d1qvra2          21 LDP-VIGRDEEIRRVIQILLRR------------TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMG   87 (387)
T ss_dssp             SCC-CCSCHHHHHHHHHHHHCS------------SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-
T ss_pred             CCC-CcCcHHHHHHHHHHHhcC------------CCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHh
Confidence            445 778865555555555532            12489999999999999998877532          1234433332


Q ss_pred             cCcCCceEEEEeecCeeEeeecee----eecCC-cEEEEcCCCCC--------CHHhHHHHHHHHhCCEEEE
Q psy1366         274 TTTAGLTVSALRENGEWHLEAGAL----VLSDG-GVCCIDEFSSI--------KEHDRTSIHEAMEQQTISV  332 (345)
Q Consensus       274 ~~~~glt~~~~~~~~~~~~~~G~l----~la~~-gi~~IDEidk~--------~~~~~~~l~eame~~~i~i  332 (345)
                      .-.+|...     -|+|.-.--.+    ..+++ -|+||||++.+        ..+.-+.|..+|..|.+.+
T Consensus        88 ~l~ag~~~-----~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~~~~  154 (387)
T d1qvra2          88 SLLAGAKY-----RGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRL  154 (387)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCE
T ss_pred             hhhcccCc-----chhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCCcce
Confidence            22222111     13331111011    11222 36999999987        2233466778888887765

>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=97.57  E-value=2e-05  Score=68.08  Aligned_cols=59  Identities=20%  Similarity=0.187  Sum_probs=37.6

Q ss_pred             HHhccCc-ccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         200 ILASICP-AIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       200 l~~s~~p-~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      |..+..| .+.|.+.-.+.+.-+|..+... ..     ....|+||+||||||||++++.+++.++
T Consensus         9 l~~~y~p~~l~~Re~ei~~l~~~l~~~l~~-~~-----~~~~~lll~GppGtGKT~l~~~l~~~l~   68 (276)
T d1fnna2           9 FSPSYVPKRLPHREQQLQQLDILLGNWLRN-PG-----HHYPRATLLGRPGTGKTVTLRKLWELYK   68 (276)
T ss_dssp             GSTTCCCSCCTTCHHHHHHHHHHHHHHHHS-TT-----SSCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHhC-CC-----CCCCceEEECCCCCCHHHHHHHHHHHHh
Confidence            3344455 4778776555555444432100 00     1114999999999999999999998764

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.57  E-value=3.8e-05  Score=66.62  Aligned_cols=29  Identities=28%  Similarity=0.486  Sum_probs=25.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|||+||||||||+|+++++..+...++
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~~~~~~~   61 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEETQGNVI   61 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHTTTCCE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhcceE
Confidence            46999999999999999999998865443

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.33  E-value=6.6e-05  Score=59.32  Aligned_cols=29  Identities=28%  Similarity=0.348  Sum_probs=26.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +|+|+|+||+|||++++.+++.++.+++.
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L~~~~id   32 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQLNMEFYD   32 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCeEe
Confidence            79999999999999999999998876653

>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=97.25  E-value=7.6e-05  Score=59.64  Aligned_cols=31  Identities=26%  Similarity=0.311  Sum_probs=27.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      -|+|.|+||+|||++++.+++.++..++.++
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~~~~~~~~   34 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLDNSAYIEG   34 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSSEEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCEEEeh
Confidence            4899999999999999999999988766554

>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=97.23  E-value=0.00018  Score=65.83  Aligned_cols=29  Identities=17%  Similarity=0.214  Sum_probs=26.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .+||+||||||||++++++++.+...++.
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~~~~~~~i~  184 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLELCGGKALN  184 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEEC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEE
Confidence            89999999999999999999999887654

>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=97.21  E-value=6e-05  Score=60.84  Aligned_cols=23  Identities=35%  Similarity=0.730  Sum_probs=21.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      ||+|+|+||+|||+|++.+++.+
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH
Confidence            89999999999999999998765

>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=97.19  E-value=8.7e-05  Score=64.29  Aligned_cols=25  Identities=24%  Similarity=0.345  Sum_probs=21.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .+++|+||||||||++++++++.+.
T Consensus        47 ~~l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          47 MIYGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             EEEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             eEEEeECCCCCCHHHHHHHHHHHHH
Confidence            4678899999999999999998753

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.19  E-value=0.00011  Score=59.20  Aligned_cols=28  Identities=14%  Similarity=0.240  Sum_probs=25.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .|++.|+||+|||+|++.+++.++....
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~~~~~i   36 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVFNTTSA   36 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHTTCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeE
Confidence            7999999999999999999999876543

>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=97.08  E-value=0.00017  Score=57.82  Aligned_cols=28  Identities=25%  Similarity=0.430  Sum_probs=25.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .||+|.|+||+|||++++.+++.++...
T Consensus         6 ~~I~i~G~~GsGKTT~~~~La~~l~~~~   33 (174)
T d1y63a_           6 INILITGTPGTGKTSMAEMIAAELDGFQ   33 (174)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHSTTEE
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHhCCCc
Confidence            6999999999999999999999886433

>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=97.08  E-value=0.00011  Score=58.78  Aligned_cols=30  Identities=30%  Similarity=0.441  Sum_probs=25.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      .+|+|+|+||+|||++++.+++.+...++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~~~~i~   34 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSGLKYIN   34 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            479999999999999999999887665543

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.83  E-value=0.00029  Score=56.58  Aligned_cols=30  Identities=20%  Similarity=0.338  Sum_probs=26.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      ||.|+|+||+|||++++.+|+.+...++-.
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~~~~~d~   31 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   31 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCEEec
Confidence            689999999999999999999988766643

>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=96.82  E-value=0.00035  Score=55.78  Aligned_cols=29  Identities=28%  Similarity=0.496  Sum_probs=25.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      =|+|.|+||+|||++++.+++.++...+.
T Consensus         5 iI~l~G~~GsGKsTva~~L~~~l~~~~~~   33 (178)
T d1qhxa_           5 MIILNGGSSAGKSGIVRCLQSVLPEPWLA   33 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSSSCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCeEE
Confidence            48889999999999999999999876554

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.73  E-value=0.00031  Score=56.98  Aligned_cols=28  Identities=25%  Similarity=0.316  Sum_probs=24.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      +|+|+|+||+|||++++.+++.++-...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i   29 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHI   29 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcee
Confidence            6999999999999999999998765444

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.71  E-value=0.00039  Score=55.62  Aligned_cols=28  Identities=36%  Similarity=0.523  Sum_probs=24.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      -|+|.|+||+|||++++.+++.++..++
T Consensus         6 iI~l~G~~GsGKSTia~~La~~lg~~~~   33 (176)
T d1zp6a1           6 ILLLSGHPGSGKSTIAEALANLPGVPKV   33 (176)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTCSSSCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            5889999999999999999998876554

>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=96.68  E-value=0.00059  Score=56.81  Aligned_cols=79  Identities=22%  Similarity=0.275  Sum_probs=51.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTS  320 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~  320 (345)
                      -++|+|||+||||.++.++.+.+...+. +-.++            ...|-+.    .+++..++++||.........+.
T Consensus        55 ~i~~~GP~~TGKS~f~~sl~~~l~G~vi-s~~N~------------~s~F~Lq----~l~~~kv~l~dD~t~~~~~~~d~  117 (205)
T d1tuea_          55 CLVFCGPANTGKSYFGMSFIHFIQGAVI-SFVNS------------TSHFWLE----PLTDTKVAMLDDATTTCWTYFDT  117 (205)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHHHTCEEC-CCCCS------------SSCGGGG----GGTTCSSEEEEEECHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHHHHhCCEEE-eccCC------------CCCcccc----cccCCeEEEEeccccchHHHHHH
Confidence            7999999999999999999998754331 11111            1112121    34567899999987766554454


Q ss_pred             -HHHHHhCCEEEEeeCC
Q psy1366         321 -IHEAMEQQTISVAKDK  336 (345)
Q Consensus       321 -l~eame~~~i~i~k~g  336 (345)
                       |-.+++-..|++..-+
T Consensus       118 ~lK~ll~G~~vsvd~Kh  134 (205)
T d1tuea_         118 YMRNALDGNPISIDRKH  134 (205)
T ss_dssp             HCHHHHHTCCEEEC---
T ss_pred             HHHhccCCCeeeeeccc
Confidence             5677787788875443

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.68  E-value=0.00044  Score=55.77  Aligned_cols=29  Identities=17%  Similarity=0.283  Sum_probs=25.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +|.|+|+||+|||++++.+|+.++.+++-
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~~~id   32 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGYEFVD   32 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            68899999999999999999988877553

>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=96.65  E-value=0.00067  Score=53.06  Aligned_cols=29  Identities=28%  Similarity=0.340  Sum_probs=23.3

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      |+|.|+||+|||++++.+.+..+...+.+
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~~~~~~~~   33 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKNPGFYNIN   33 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSTTEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCCEEec
Confidence            78999999999999999877665544433

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.65  E-value=0.00045  Score=55.45  Aligned_cols=29  Identities=34%  Similarity=0.447  Sum_probs=25.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +|.|+|.||+|||++++.+++.+..+++-
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~~~fiD   31 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALGVGLLD   31 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCeEe
Confidence            68899999999999999999998877653

>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=96.55  E-value=0.00042  Score=55.42  Aligned_cols=25  Identities=20%  Similarity=0.231  Sum_probs=22.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .-|+|+|.||+|||++++.+++.++
T Consensus         7 ~~I~l~G~~GsGKTTia~~La~~L~   31 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARALQVTLN   31 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4799999999999999999997763

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.54  E-value=0.00049  Score=55.92  Aligned_cols=29  Identities=24%  Similarity=0.306  Sum_probs=24.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ++|+|+|+||+|||++++.+++.+.-...
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~~g~~~i   29 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEKLGIPQI   29 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCCEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            37999999999999999999988765443

>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=96.50  E-value=0.0007  Score=53.93  Aligned_cols=30  Identities=23%  Similarity=0.303  Sum_probs=24.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      =++|+|+||+|||++++.+++.++-..+..
T Consensus         8 iivl~G~~GsGKsT~a~~La~~l~~~~~~~   37 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAHQLHAAFLDG   37 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHTCEEEEG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeech
Confidence            466799999999999999999876544433

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.45  E-value=0.0006  Score=55.49  Aligned_cols=29  Identities=21%  Similarity=0.330  Sum_probs=24.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLT  269 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~  269 (345)
                      +|+|+|+||+|||++++.+++.++-....
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            68999999999999999999987654443

>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=96.41  E-value=0.0057  Score=54.59  Aligned_cols=98  Identities=11%  Similarity=0.138  Sum_probs=55.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCe---EEEcCCccCc--CCceEEEEeecCeeEeee--ceeeecCCcEEEEcCCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRS---VLTTGVGTTT--AGLTVSALRENGEWHLEA--GALVLSDGGVCCIDEFSS  312 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~---~~~~~~~~~~--~glt~~~~~~~~~~~~~~--G~l~la~~gi~~IDEidk  312 (345)
                      .|||+.|++|+|||++++++....|..   +.+....-..  ..-........++..+..  .+....+.-.+++.|+-.
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR~~pd~iivgEiR~  246 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELRS  246 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEESCCCS
T ss_pred             CCEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhccCCCcccCCccCc
Confidence            489999999999999999999998752   2221111100  011111111111111110  011234678899999984


Q ss_pred             CCHHhHHHHHHHHhCCEEEEeeCCeEEEeccCC
Q psy1366         313 IKEHDRTSIHEAMEQQTISVAKDKESKKVKVKS  345 (345)
Q Consensus       313 ~~~~~~~~l~eame~~~i~i~k~gi~~~l~ar~  345 (345)
                        .+.. .++++|..|.     .|..+|+.|.|
T Consensus       247 --~ea~-~~l~a~~tGh-----~g~~tT~Ha~s  271 (323)
T d1g6oa_         247 --SEAY-DFYNVLCSGH-----KGTLTTLHAGS  271 (323)
T ss_dssp             --THHH-HHHHHHHTTC-----SCEEEEECCSS
T ss_pred             --hhHH-HHHHHHHhcC-----CcEEEEECCCC
Confidence              3444 5778998773     24555666553

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=96.38  E-value=0.00073  Score=55.31  Aligned_cols=29  Identities=24%  Similarity=0.265  Sum_probs=24.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      +.|+|+|+||+|||++++.+++.++-...
T Consensus         4 ~riil~G~pGSGKsT~a~~La~~~g~~~i   32 (190)
T d1ak2a1           4 VRAVLLGPPGAGKGTQAPKLAKNFCVCHL   32 (190)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence            57889999999999999999988764433

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.33  E-value=0.001  Score=54.73  Aligned_cols=30  Identities=20%  Similarity=0.309  Sum_probs=25.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -|+|+|+||+|||++++.+++.++-....+
T Consensus        10 iI~i~GppGSGKsT~a~~La~~~g~~~is~   39 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   39 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeh
Confidence            588999999999999999999886544433

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.32  E-value=0.00065  Score=55.64  Aligned_cols=28  Identities=18%  Similarity=0.315  Sum_probs=24.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSV  267 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~  267 (345)
                      .+|+|+|+||+|||++++.+++.++-..
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~~~~~   31 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKYQLAH   31 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCCEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHCCcE
Confidence            5899999999999999999998876443

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.27  E-value=0.0011  Score=54.54  Aligned_cols=29  Identities=21%  Similarity=0.321  Sum_probs=25.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|+|+|+||+|||++++.+++.++-...
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~g~~~i   35 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHFELKHL   35 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHBCCEEE
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHHCCeEE
Confidence            58999999999999999999998765443

>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=96.26  E-value=0.00096  Score=54.21  Aligned_cols=29  Identities=24%  Similarity=0.370  Sum_probs=24.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      ..|+|+|+||+|||++++.+++.++-...
T Consensus         3 mrIvl~G~pGSGKtT~a~~La~~~g~~~i   31 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQERFHAAHL   31 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceE
Confidence            57999999999999999999998765433

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.25  E-value=0.00081  Score=55.16  Aligned_cols=28  Identities=25%  Similarity=0.302  Sum_probs=23.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      -|+++|+||+|||++++.+++.++-...
T Consensus         8 iI~i~G~pGSGKsT~a~~La~~~g~~~i   35 (194)
T d1qf9a_           8 VVFVLGGPGSGKGTQCANIVRDFGWVHL   35 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            5799999999999999999998764433

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.25  E-value=0.00057  Score=55.67  Aligned_cols=23  Identities=22%  Similarity=0.315  Sum_probs=21.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -|+|+|.||+|||++++.+++.+
T Consensus        21 vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          21 TVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999999999865

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.20  E-value=0.0012  Score=54.30  Aligned_cols=30  Identities=27%  Similarity=0.386  Sum_probs=25.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTT  270 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~  270 (345)
                      -|+|+|+||+|||++++.+++.++-....+
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~~g~~~is~   39 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQKYGYTHLST   39 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeEec
Confidence            589999999999999999999886544433

>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=96.17  E-value=0.00094  Score=54.06  Aligned_cols=28  Identities=21%  Similarity=0.374  Sum_probs=24.2

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      +|+|+|+||+|||++++.+++.++-...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i   29 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQI   29 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcee
Confidence            6899999999999999999988765443

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.12  E-value=0.0012  Score=54.00  Aligned_cols=29  Identities=21%  Similarity=0.261  Sum_probs=24.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .-|+|+|+||+|||++++.+++.++-...
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g~~~i   30 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYGYTHL   30 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCceE
Confidence            36899999999999999999998765443

>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=95.93  E-value=0.013  Score=50.69  Aligned_cols=75  Identities=16%  Similarity=0.072  Sum_probs=49.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcCCccCcCCceEEEEeecCeeEeeeceeeecCCcEEEEcCCCCCCHHhHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTS  320 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~~~~~~~glt~~~~~~~~~~~~~~G~l~la~~gi~~IDEidk~~~~~~~~  320 (345)
                      -++|+|+|++|||.++..+.++++.........              ..|    ..-.+.+.-++++||.+.- ......
T Consensus       106 ~~~l~G~~~tGKS~f~~~i~~~lg~~~~~~~~~--------------~~f----~l~~l~~k~~~~~~e~~~~-~~~~~~  166 (267)
T d1u0ja_         106 TIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTN--------------ENF----PFNDCVDKMVIWWEEGKMT-AKVVES  166 (267)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCEEECCTTC--------------SSC----TTGGGSSCSEEEECSCCEE-TTTHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhcchhhccccC--------------CCc----cccccCCCEEEEEeCCCcc-ccHHHH
Confidence            688999999999999999999986543222111              111    1123445678899998754 344567


Q ss_pred             HHHHHhCCEEEEee
Q psy1366         321 IHEAMEQQTISVAK  334 (345)
Q Consensus       321 l~eame~~~i~i~k  334 (345)
                      +-.++....|++..
T Consensus       167 ~K~l~gGd~i~v~~  180 (267)
T d1u0ja_         167 AKAILGGSKVRVDQ  180 (267)
T ss_dssp             HHHHHTTCCEEC--
T ss_pred             HHHhcCCCceEeec
Confidence            77887777777643

>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=95.78  E-value=0.0034  Score=53.39  Aligned_cols=25  Identities=32%  Similarity=0.295  Sum_probs=22.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      +++++|++|+|||+|++.+++..+.
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~~~~~   55 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGINELNL   55 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTC
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHCCC
Confidence            8999999999999999988876654

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=95.78  E-value=0.0041  Score=54.19  Aligned_cols=49  Identities=22%  Similarity=0.049  Sum_probs=35.3

Q ss_pred             CcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHHHHhh
Q psy1366         205 CPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       205 ~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -|.+||.+.-..-|.-.|......         ....|.|+|..|+|||+||+.+.+.
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~---------~~~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDL---------DSFFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTS---------SSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCC---------CceEEEEECCCCCCHHHHHHHHHHh
Confidence            468999976666666666532111         1137889999999999999998764

>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=95.70  E-value=0.0024  Score=49.76  Aligned_cols=23  Identities=35%  Similarity=0.368  Sum_probs=20.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+|+|+||+|||+|++++..-
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            36899999999999999998653

>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=95.64  E-value=0.0026  Score=52.24  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=20.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      =|+|+|.||+|||++++.+++.+
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999755

>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=95.55  E-value=0.0028  Score=52.47  Aligned_cols=31  Identities=23%  Similarity=0.363  Sum_probs=24.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      -|.+.||||+||+++++.+++-++-....+|
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~iStG   35 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLLDSG   35 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEECHH
Confidence            4666799999999999999998876554443

>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=95.53  E-value=0.0043  Score=50.53  Aligned_cols=26  Identities=38%  Similarity=0.511  Sum_probs=23.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      .|.|+||+|+|||+|++.+++..|..
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~~~   28 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYPDS   28 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCcc
Confidence            68999999999999999999988754

>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=95.52  E-value=0.0026  Score=50.21  Aligned_cols=23  Identities=30%  Similarity=0.273  Sum_probs=20.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .+.++|+||+|||+|++.+++.+
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            58899999999999999998754

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.50  E-value=0.0034  Score=49.21  Aligned_cols=24  Identities=33%  Similarity=0.445  Sum_probs=21.1

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|+|+|+||+|||+|++++..-
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999988653

>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=95.44  E-value=0.0028  Score=50.57  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=20.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -|++.|+||+|||++++.+++.+
T Consensus         3 iI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999999998765

>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=95.42  E-value=0.016  Score=44.12  Aligned_cols=27  Identities=15%  Similarity=0.131  Sum_probs=19.6

Q ss_pred             cCCcEEEEcCCCCCCHHhHHHHHHHHh
Q psy1366         300 SDGGVCCIDEFSSIKEHDRTSIHEAME  326 (345)
Q Consensus       300 a~~gi~~IDEidk~~~~~~~~l~eame  326 (345)
                      .+-+++++||++.++.+....+..+++
T Consensus        93 ~~~~~vIiDE~H~~~~~~~~~~~~~l~  119 (136)
T d1a1va1          93 GAYDIIICDECHSTDATSILGIGTVLD  119 (136)
T ss_dssp             CCCSEEEEETTTCCSHHHHHHHHHHHH
T ss_pred             hcCCEEEEecccccCHHHHHHHHHHHH
Confidence            345899999999998876555544443

>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=95.41  E-value=0.0038  Score=50.38  Aligned_cols=25  Identities=28%  Similarity=0.367  Sum_probs=21.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      .=|+|+|.||+|||++++.++...+
T Consensus        15 ~liil~G~pGsGKST~a~~l~~~~~   39 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLVSAG   39 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTGGGT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4689999999999999998876543

>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=95.37  E-value=0.0081  Score=54.37  Aligned_cols=43  Identities=28%  Similarity=0.400  Sum_probs=32.7

Q ss_pred             HhccCcccccchHHHHHHHHHHhCCCcccCCCCCceeeeeceeeeCCCCChHHHHHHH
Q psy1366         201 LASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKF  258 (345)
Q Consensus       201 ~~s~~p~i~G~~~vk~~i~l~l~~g~~~~~~~~~~~r~~~~iLl~G~pGtGKs~l~~~  258 (345)
                      +..++|.--..+.-|.|+..++.++               -.++.|+||||||+++..
T Consensus       140 ~~~~~~~~~~~~~Q~~A~~~al~~~---------------~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         140 LDKLFPVSDEINWQKVAAAVALTRR---------------ISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             HHTTCCCTTSCCHHHHHHHHHHTBS---------------EEEEECCTTSTHHHHHHH
T ss_pred             HHHhccCcccccHHHHHHHHHHcCC---------------eEEEEcCCCCCceehHHH
Confidence            3445555445677889999998765               789999999999987644

>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=95.37  E-value=0.0035  Score=49.58  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=20.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++|+++|+||+|||+|++++..
T Consensus         3 ~ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           3 LRLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHcC
Confidence            6899999999999999998754

>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=95.34  E-value=0.0037  Score=51.97  Aligned_cols=32  Identities=25%  Similarity=0.328  Sum_probs=26.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEEEcC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTG  271 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~~~~  271 (345)
                      +.|.+.||||+|||++++.+++.++-....+|
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg~~~istG   35 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFGFTYLDTG   35 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCcEECHH
Confidence            45677799999999999999999876655444

>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=95.29  E-value=0.0039  Score=52.21  Aligned_cols=23  Identities=30%  Similarity=0.554  Sum_probs=21.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .++|+|+||+|||.|++++++.+
T Consensus        38 ~l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          38 PIFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cEEEECCCCCcHHHHHHHHHHHh
Confidence            48999999999999999998765

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.11  E-value=0.005  Score=47.77  Aligned_cols=22  Identities=32%  Similarity=0.528  Sum_probs=19.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -|+|+|+||+|||+|+.++..-
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998763

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.99  E-value=0.0061  Score=48.50  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=20.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++-|+|+|++|+|||+|++.+..
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~   24 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLT   24 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHh
Confidence            47899999999999999988765

>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=94.90  E-value=0.0075  Score=49.27  Aligned_cols=25  Identities=32%  Similarity=0.436  Sum_probs=22.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      +|.|+||+|+|||+|++.+++..|.
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~   26 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSS   26 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCC
Confidence            5889999999999999999887764

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.85  E-value=0.007  Score=47.81  Aligned_cols=22  Identities=23%  Similarity=0.453  Sum_probs=19.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+|+|+||+|||+|+..+..
T Consensus         3 iKv~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           3 IKMVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            5799999999999999987664

>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=94.80  E-value=0.0089  Score=48.19  Aligned_cols=25  Identities=24%  Similarity=0.486  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -|.|+||+|+|||+|++.+.+..|.
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~~~~   28 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRERIPN   28 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCCC
Confidence            5789999999999999999988875

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=94.65  E-value=0.0077  Score=47.80  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+|+|+||+|||+|+.++..
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5799999999999999988854

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.64  E-value=0.0083  Score=47.63  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=19.8

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +..|+++|++|+|||+|+..+..
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHh
Confidence            35799999999999999987764

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=94.57  E-value=0.0072  Score=48.00  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=20.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+|+++|+||+|||+|+.++...
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999988753

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=94.51  E-value=0.0096  Score=46.97  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=20.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+.|+|+|++|+|||+|+..+..
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHc
Confidence            36899999999999999998864

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.50  E-value=0.0099  Score=47.05  Aligned_cols=23  Identities=39%  Similarity=0.507  Sum_probs=20.3

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+.|+|+|++|+|||+|++.+..
T Consensus         4 ~~Ki~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           4 ELKVCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHHh
Confidence            36899999999999999998764

>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=94.48  E-value=0.011  Score=49.28  Aligned_cols=23  Identities=30%  Similarity=0.237  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .-++|.|+||+|||+|+-.++..
T Consensus        35 ~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          35 SITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            47999999999999999877643

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.48  E-value=0.009  Score=47.66  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=19.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|+||+|||+|+..+..
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~   25 (173)
T d2a5ja1           4 FKYIIIGDTGVGKSCLLLQFTD   25 (173)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHhc
Confidence            4689999999999999998764

>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=94.46  E-value=0.011  Score=49.52  Aligned_cols=24  Identities=29%  Similarity=0.368  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .-+++.|+||+|||+|+..++..+
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~~   50 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVENA   50 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH
Confidence            379999999999999998887653

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.41  E-value=0.015  Score=47.00  Aligned_cols=24  Identities=25%  Similarity=0.218  Sum_probs=20.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      --+++.|+||+|||+|+..++...
T Consensus        24 ~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          24 SITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHH
Confidence            379999999999999998877544

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.38  E-value=0.0098  Score=47.08  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=19.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .-|+|+|++|+|||+|++.+..
T Consensus         4 fKivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           4 FKVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3689999999999999998764

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.34  E-value=0.011  Score=47.08  Aligned_cols=22  Identities=23%  Similarity=0.560  Sum_probs=19.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+++|+||+|||+|++.+..
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHc
Confidence            5799999999999999998754

>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=94.31  E-value=0.0075  Score=48.17  Aligned_cols=23  Identities=35%  Similarity=0.521  Sum_probs=20.5

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      +++.|.||+|||++++.+++.++
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~   26 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            67899999999999999998764

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.30  E-value=0.01  Score=47.41  Aligned_cols=22  Identities=32%  Similarity=0.440  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|++|+|||+|++.+..
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            6899999999999999988764

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.29  E-value=0.012  Score=46.56  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=20.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .-|+|+|++|+|||+|+..+..-
T Consensus         4 ~Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            57999999999999999887653

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.29  E-value=0.011  Score=46.65  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|++|+|||+|++.+..
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~   25 (167)
T d1c1ya_           4 YKLVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            5799999999999999998764

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.28  E-value=0.011  Score=46.83  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .-|+|+|+||+|||+|++.+..
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~   26 (166)
T d1z0fa1           5 FKYIIIGDMGVGKSCLLHQFTE   26 (166)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            4699999999999999988764

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.23  E-value=0.011  Score=46.92  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=19.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .-|+|+|+||+|||+|++.+..
T Consensus         6 ~Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           6 YRLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5799999999999999988764

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.20  E-value=0.013  Score=46.44  Aligned_cols=22  Identities=32%  Similarity=0.440  Sum_probs=19.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+++|++|+|||+|+..+..
T Consensus         4 iKi~vvG~~~vGKTsLi~~~~~   25 (170)
T d1ek0a_           4 IKLVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            6899999999999999987654

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.17  E-value=0.012  Score=46.20  Aligned_cols=22  Identities=18%  Similarity=0.292  Sum_probs=19.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|++|+|||+|++.+..
T Consensus         3 ~Kv~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           3 FKIIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            4699999999999999998764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.04  E-value=0.013  Score=46.34  Aligned_cols=22  Identities=32%  Similarity=0.425  Sum_probs=19.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|++|+|||+|+..+..
T Consensus         4 ~Ki~viG~~~vGKTsli~~l~~   25 (166)
T d1ctqa_           4 YKLVVVGAGGVGKSALTIQLIQ   25 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5799999999999999988765

>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=94.00  E-value=0.013  Score=46.76  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=20.4

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+.|+++|++|+|||+|++.+..
T Consensus         7 ~iKi~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           7 TLKILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHHh
Confidence            36799999999999999998764

>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=93.91  E-value=0.014  Score=46.83  Aligned_cols=22  Identities=23%  Similarity=0.572  Sum_probs=19.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+++|+||+|||+|+..+..
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            4699999999999999988765

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=93.90  E-value=0.011  Score=46.89  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+++|+||+|||+|++++..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999988743

>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=93.88  E-value=0.015  Score=46.41  Aligned_cols=22  Identities=41%  Similarity=0.696  Sum_probs=19.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+++|+||+|||+|++.+..
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            5799999999999999998765

>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=93.86  E-value=0.013  Score=47.07  Aligned_cols=22  Identities=36%  Similarity=0.519  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+++|+||+|||+|++.+..
T Consensus         6 ~Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           6 IKLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCcCHHHHHHHHhc
Confidence            5799999999999999988764

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.84  E-value=0.014  Score=47.83  Aligned_cols=22  Identities=23%  Similarity=0.197  Sum_probs=20.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +|+|+|+||+|||+|+..+..-
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            7999999999999999998764

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.82  E-value=0.016  Score=46.58  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.0

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+-|+++|++|+|||+|++.+..
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~   27 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTT   27 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHh
Confidence            37899999999999999987654

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.80  E-value=0.02  Score=45.32  Aligned_cols=25  Identities=24%  Similarity=0.396  Sum_probs=21.2

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +-..-|+++|++|+|||+|+..+..
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           4 ICQFKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEEEEECCCCcCHHHHHHHHHh
Confidence            3445799999999999999998874

>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=93.80  E-value=0.015  Score=46.11  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=19.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|+++|++|+|||+|++.+..-
T Consensus         6 ~Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           6 FKILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHcC
Confidence            35999999999999999987653

>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=93.79  E-value=0.0085  Score=47.74  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=20.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++|+++|+||+|||+|++++..
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            6899999999999999998764

>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=93.78  E-value=0.021  Score=46.05  Aligned_cols=26  Identities=27%  Similarity=0.451  Sum_probs=23.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      .|.|+||+|+||++|++.+.+..|..
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~~~~   30 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKHPDR   30 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCTTT
T ss_pred             cEEEECCCCCCHHHHHHHHHHhCCcC
Confidence            58999999999999999999887753

>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=93.73  E-value=0.026  Score=47.14  Aligned_cols=23  Identities=17%  Similarity=0.092  Sum_probs=20.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      --+++.|+||+|||+++..++..
T Consensus        38 ~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          38 AITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999888754

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.70  E-value=0.014  Score=45.89  Aligned_cols=21  Identities=19%  Similarity=0.449  Sum_probs=18.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|+++|++|+|||+|++.+..
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998764

>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=93.69  E-value=0.012  Score=47.17  Aligned_cols=25  Identities=16%  Similarity=0.092  Sum_probs=21.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      +-|-+.|++|+|||+|++.+++.++
T Consensus        23 ~iIgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_          23 LVLGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5688999999999999999987653

>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=93.65  E-value=0.014  Score=46.27  Aligned_cols=22  Identities=23%  Similarity=0.560  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .-|+|+|++|+|||+|++.+..
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            4599999999999999998875

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.64  E-value=0.015  Score=45.82  Aligned_cols=23  Identities=39%  Similarity=0.518  Sum_probs=20.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+++|+||+|||+|++.+..-
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            57999999999999999987653

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=93.63  E-value=0.014  Score=45.47  Aligned_cols=23  Identities=26%  Similarity=0.491  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|+++|+||+|||+|++++...
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999988753

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.54  E-value=0.017  Score=45.58  Aligned_cols=22  Identities=18%  Similarity=0.234  Sum_probs=19.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+|+|++|+|||+|++.+..
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            5799999999999999998764

>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=93.52  E-value=0.017  Score=47.90  Aligned_cols=24  Identities=21%  Similarity=0.198  Sum_probs=21.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .-|+|.|-||+|||+|++.+++.+
T Consensus        25 ~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          25 LTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            469999999999999999998644

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=93.48  E-value=0.018  Score=45.61  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=19.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .-|+++|++|+|||+|++.+..
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            3699999999999999998754

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.46  E-value=0.018  Score=45.84  Aligned_cols=23  Identities=26%  Similarity=0.556  Sum_probs=19.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .-|+|+|++|+|||+|++.+...
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            36999999999999999988653

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.38  E-value=0.018  Score=45.51  Aligned_cols=22  Identities=36%  Similarity=0.715  Sum_probs=19.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -|+++|++|+|||+|++.+...
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            4899999999999999988654

>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=93.29  E-value=0.034  Score=46.37  Aligned_cols=24  Identities=21%  Similarity=0.321  Sum_probs=19.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .-+++.|+||+|||+|+-.++...
T Consensus        37 ~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          37 AITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHh
Confidence            479999999999999988776543

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.27  E-value=0.02  Score=46.54  Aligned_cols=23  Identities=17%  Similarity=0.471  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|+|+|+||+|||+|+.++...
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            37999999999999999999754

>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=93.23  E-value=0.019  Score=46.22  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=20.1

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      -+.|+++|++|+|||+|++.+..
T Consensus         9 ~~Ki~lvG~~~vGKTsLi~r~~~   31 (185)
T d2atxa1           9 MLKCVVVGDGAVGKTCLLMSYAN   31 (185)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHhh
Confidence            36899999999999999988664

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.21  E-value=0.018  Score=45.85  Aligned_cols=21  Identities=33%  Similarity=0.602  Sum_probs=18.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      -|+++|++|+|||+|+..+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~   24 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSK   24 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999988765

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.15  E-value=0.019  Score=45.56  Aligned_cols=22  Identities=36%  Similarity=0.557  Sum_probs=19.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+|+|+||+|||+|++.+..
T Consensus         6 ~KI~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           6 FKFLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            4699999999999999998764

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.12  E-value=0.023  Score=45.15  Aligned_cols=21  Identities=33%  Similarity=0.613  Sum_probs=18.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|+++|+||+|||+|+..+..
T Consensus         8 KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            699999999999999977764

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.04  E-value=0.021  Score=46.02  Aligned_cols=21  Identities=38%  Similarity=0.589  Sum_probs=19.2

Q ss_pred             eceeeeCCCCChHHHHHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      +.|+|+|++|+|||+|++.+.
T Consensus         3 iKivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           3 VKILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            679999999999999999883

>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=92.98  E-value=0.034  Score=47.17  Aligned_cols=30  Identities=30%  Similarity=0.474  Sum_probs=24.3

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      +-|+||+|+|||+|++.++.+.+.   .++..|
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~~p~~G~I~~~G   59 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIVKPDRGEVRLNG   59 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSSCCSEEEEEETT
T ss_pred             EEEECCCCChHHHHHHHHHcCCCCCceEEEECC
Confidence            457899999999999999998865   345554

>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=92.98  E-value=0.024  Score=44.84  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|+|+|++|+|||+|++.+..
T Consensus         5 ~Ki~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           5 YKLVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            5799999999999999997764

>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=92.94  E-value=0.027  Score=46.49  Aligned_cols=25  Identities=20%  Similarity=0.408  Sum_probs=22.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -++|+||+|+|||+|.+.+.+..|.
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~p~   28 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQPL   28 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSCT
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCCc
Confidence            5789999999999999999998873

>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=92.85  E-value=0.025  Score=44.68  Aligned_cols=21  Identities=33%  Similarity=0.635  Sum_probs=18.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      -|.++|+||+|||+|++++..
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            478999999999999999864

>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=92.83  E-value=0.026  Score=44.58  Aligned_cols=22  Identities=41%  Similarity=0.590  Sum_probs=19.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .-|+++|++|+|||+|++.+..
T Consensus         7 fKi~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           7 FKVMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3599999999999999997755

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=92.82  E-value=0.015  Score=46.61  Aligned_cols=21  Identities=33%  Similarity=0.528  Sum_probs=19.2

Q ss_pred             eceeeeCCCCChHHHHHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      +.|+++|+||+|||+|++.+.
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTC
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            799999999999999998763

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.81  E-value=0.025  Score=45.33  Aligned_cols=22  Identities=27%  Similarity=0.599  Sum_probs=19.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +-|+|+|++|+|||+|++.+..
T Consensus         3 ~KivliG~~~vGKTsli~r~~~   24 (179)
T d1m7ba_           3 CKIVVVGDSQCGKTALLHVFAK   24 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            5689999999999999987665

>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=92.67  E-value=0.023  Score=46.79  Aligned_cols=25  Identities=24%  Similarity=0.296  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.|+||.|+|||+|++.++.+.++
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~~p   53 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYLKP   53 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCChHHHHHHHHhccccc
Confidence            6789999999999999999988764

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.65  E-value=0.027  Score=45.53  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=19.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +-|+|+|++|+|||+|+..+..
T Consensus         4 iKvvllG~~~vGKTSli~r~~~   25 (191)
T d2ngra_           4 IKCVVVGDGAVGKTCLLISYTT   25 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            6799999999999999877654

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=92.64  E-value=0.033  Score=46.96  Aligned_cols=31  Identities=23%  Similarity=0.428  Sum_probs=25.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      .+-|+||+|+|||+|++.++.+.+.   .++..|
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~~p~sG~I~~~g   66 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLDKPTEGEVYIDN   66 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETT
T ss_pred             EEEEECCCCCCcchhhHhccCCCCCCcceeEECC
Confidence            7899999999999999999988754   345554

>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=92.57  E-value=0.033  Score=44.50  Aligned_cols=24  Identities=29%  Similarity=0.342  Sum_probs=20.9

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+.|+++|++|+|||+|+..+..-
T Consensus         5 ~~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           5 ELRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHHHS
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhC
Confidence            479999999999999999977653

>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=92.55  E-value=0.043  Score=45.29  Aligned_cols=24  Identities=25%  Similarity=0.224  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .-++|.|+||+|||+++..++..+
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            479999999999999998887544

>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=92.50  E-value=0.023  Score=45.91  Aligned_cols=21  Identities=24%  Similarity=0.385  Sum_probs=19.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|.|+|+||+|||+|++++..
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            799999999999999999974

>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=92.48  E-value=0.23  Score=39.10  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=20.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|.++|+||+|||+|+.++..
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
Confidence            7899999999999999998874

>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=92.46  E-value=0.027  Score=46.36  Aligned_cols=19  Identities=32%  Similarity=0.349  Sum_probs=16.6

Q ss_pred             ceeeeCCCCChHHHHHHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFA  259 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i  259 (345)
                      -++|.|+||+|||+|+..+
T Consensus        28 ~~~I~G~~G~GKT~la~~~   46 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQF   46 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHH
Confidence            7899999999999998554

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.44  E-value=0.018  Score=45.81  Aligned_cols=22  Identities=41%  Similarity=0.581  Sum_probs=9.7

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .-|+++|+||+|||+|++.+..
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           7 FKLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEEECCCCC-----------
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3589999999999999986653

>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=92.37  E-value=0.025  Score=45.01  Aligned_cols=21  Identities=19%  Similarity=0.392  Sum_probs=19.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|+|+|+||+|||+|+.++..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999864

>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=92.29  E-value=0.038  Score=46.88  Aligned_cols=31  Identities=35%  Similarity=0.551  Sum_probs=26.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      .+.++|++|+|||+|++.+..+.+.   .++..|
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~~p~~G~I~i~g   64 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFYIPENGQVLIDG   64 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETT
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCCCCCCEEEECC
Confidence            7999999999999999999998864   344444

>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=92.28  E-value=0.033  Score=46.97  Aligned_cols=25  Identities=28%  Similarity=0.571  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+-|+||+|+|||+|++.++.+.+.
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl~~p   52 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGLETI   52 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCC
Confidence            6889999999999999999998854

>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=92.19  E-value=0.015  Score=45.33  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +.|.|+|+||+|||+|+.++...
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998653

>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=92.14  E-value=0.017  Score=45.83  Aligned_cols=22  Identities=23%  Similarity=0.338  Sum_probs=19.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .+|.|+|.|++|||+|++++..
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            6899999999999999988754

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.07  E-value=0.02  Score=45.42  Aligned_cols=21  Identities=48%  Similarity=0.650  Sum_probs=18.1

Q ss_pred             eceeeeCCCCChHHHHHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      .-|+++|++|+|||+|+.++.
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~   24 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHL   24 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC
T ss_pred             EEEEEECCCCcCHHHHHHHHH
Confidence            368999999999999988654

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.01  E-value=0.053  Score=45.87  Aligned_cols=32  Identities=22%  Similarity=0.417  Sum_probs=26.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGV  272 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~  272 (345)
                      -+-|+||+|+|||+|++.+..+.+.   .++..|.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~~p~sG~I~i~g~   68 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLEEPTEGRIYFGDR   68 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTE
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCCCEEEEcce
Confidence            6899999999999999999998864   3555553

>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=92.01  E-value=0.033  Score=43.80  Aligned_cols=22  Identities=18%  Similarity=0.235  Sum_probs=18.7

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +-++|.+|+|||+|+..+...+
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHH
Confidence            4589999999999999887654

>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=91.97  E-value=0.034  Score=47.51  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=21.0

Q ss_pred             eeceeeeCCCCChHHHHHHHHHh
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .++|+|+|.||+|||+|+.++..
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg   54 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIG   54 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCcHHHHHHHHhC
Confidence            47999999999999999999874

>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=91.87  E-value=0.045  Score=44.85  Aligned_cols=26  Identities=15%  Similarity=0.169  Sum_probs=22.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      +=|-+.|++|+|||++++.+++.++.
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhch
Confidence            34678999999999999999988754

>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=91.86  E-value=0.035  Score=46.72  Aligned_cols=31  Identities=23%  Similarity=0.483  Sum_probs=25.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      -+-|+||+|+|||+|++.++.+.+.   .++..|
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~~p~sG~I~~~G   61 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFHVPDSGRILLDG   61 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSSCCSEEEEEETT
T ss_pred             EEEEECCCCCcHHHHHHHHhcCcCCCCCEEEEcc
Confidence            5889999999999999999998754   344444

>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=91.78  E-value=0.04  Score=45.71  Aligned_cols=23  Identities=26%  Similarity=0.414  Sum_probs=19.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -|+++|++|.|||+|++.+.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            37899999999999999997643

>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=91.76  E-value=0.039  Score=47.51  Aligned_cols=27  Identities=7%  Similarity=0.071  Sum_probs=19.5

Q ss_pred             CCcEEEEcCCCCCCHHhHHHHHHHHhC
Q psy1366         301 DGGVCCIDEFSSIKEHDRTSIHEAMEQ  327 (345)
Q Consensus       301 ~~gi~~IDEidk~~~~~~~~l~eame~  327 (345)
                      .-.+++|||+..+++.+...+...+.+
T Consensus       206 ~~~~i~vDE~QD~~~~~~~~l~~~~~~  232 (306)
T d1uaaa1         206 KIRYLLVDEYQDTNTSQYELVKLLVGS  232 (306)
T ss_dssp             TCSEEEESCGGGCBHHHHHHHHHHHTT
T ss_pred             HhhHHHHHHHHHhhHHHHhhhhhcccC
Confidence            357899999999998766655555533

>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=91.76  E-value=0.036  Score=44.86  Aligned_cols=22  Identities=41%  Similarity=0.557  Sum_probs=19.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .-|+++|++|+|||+|++.+..
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHhh
Confidence            3589999999999999998764

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.70  E-value=0.048  Score=46.48  Aligned_cols=25  Identities=28%  Similarity=0.425  Sum_probs=23.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+-++|++|+|||+|++.+..+.+.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~~p   66 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLYQP   66 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCC
Confidence            7999999999999999999988864

>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=91.69  E-value=0.046  Score=46.68  Aligned_cols=25  Identities=36%  Similarity=0.533  Sum_probs=23.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.+..+.+.
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl~~p   67 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRFYDI   67 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTTCC
T ss_pred             EEEEECCCCChHHHHHHHHhcccCC
Confidence            7999999999999999999988754

>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=91.61  E-value=0.042  Score=43.36  Aligned_cols=21  Identities=33%  Similarity=0.539  Sum_probs=19.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|.|+|.||+|||+|++++..
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999975

>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=91.61  E-value=0.042  Score=43.64  Aligned_cols=21  Identities=33%  Similarity=0.539  Sum_probs=19.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|.|+|.||+|||+|++++..
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~   27 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLG   27 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            599999999999999999875

>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=91.51  E-value=0.045  Score=46.38  Aligned_cols=31  Identities=19%  Similarity=0.471  Sum_probs=25.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTG  271 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~  271 (345)
                      -+-|+||+|+|||+|++.++.+.+.   .++..|
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~~p~sG~I~~~g   64 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLEEPSRGQIYIGD   64 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETT
T ss_pred             EEEEECCCCChHHHHHHHHhcCCCCCCCEEEECC
Confidence            6889999999999999999988764   344444

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=91.48  E-value=0.034  Score=44.25  Aligned_cols=21  Identities=43%  Similarity=0.604  Sum_probs=18.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +|.|+|.|++|||+|+.++..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            689999999999999998753

>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=91.47  E-value=0.046  Score=43.53  Aligned_cols=22  Identities=45%  Similarity=0.564  Sum_probs=19.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +.|+|+|+.|+|||+|++.+..
T Consensus         3 ~KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           3 VKLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhh
Confidence            6899999999999999988754

>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=91.34  E-value=0.14  Score=40.67  Aligned_cols=25  Identities=20%  Similarity=0.336  Sum_probs=22.1

Q ss_pred             eeceeeeCCCCChHHHHHHHHHhhC
Q psy1366         239 ESHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       239 ~~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +++|-++|.|+.|||+|+.++.+..
T Consensus         5 ~inIaiiG~~naGKSTL~n~L~~~~   29 (179)
T d1wb1a4           5 NINLGIFGHIDHGKTTLSKVLTEIA   29 (179)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTTC
T ss_pred             CEEEEEEeCCCCcHHHHHHHHHHhc
Confidence            4799999999999999999998643

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.26  E-value=0.048  Score=43.60  Aligned_cols=24  Identities=33%  Similarity=0.504  Sum_probs=21.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      +.|+|+|+.|+|||+|++.+..--
T Consensus         3 ~Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           3 LKLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            579999999999999999986654

>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=90.92  E-value=0.047  Score=46.31  Aligned_cols=25  Identities=28%  Similarity=0.489  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.++|++|+|||+|++.+..+.+.
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl~~p   54 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERFYQP   54 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCC
Confidence            7899999999999999999988753

>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=90.85  E-value=0.07  Score=42.11  Aligned_cols=26  Identities=23%  Similarity=0.249  Sum_probs=23.4

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .-|+|.||=|.|||+++|.+++.+..
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEecCCCccHHHHHHHHHhhccc
Confidence            46999999999999999999998854

>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=90.81  E-value=0.042  Score=46.55  Aligned_cols=25  Identities=20%  Similarity=0.421  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+-|+|++|+|||+|++.++.+.+.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~~p   57 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLERP   57 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCccc
Confidence            6889999999999999999988764

>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=90.78  E-value=0.22  Score=41.14  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.1

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      .++.|-.|.|||+|++.+.+..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEeeCCCCCHHHHHHHHHhcC
Confidence            6788999999999999988753

>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=90.70  E-value=0.043  Score=46.56  Aligned_cols=25  Identities=16%  Similarity=0.446  Sum_probs=23.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+-|+||+|+|||+|++.++.+.+.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~~p   57 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLDVP   57 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCcCC
Confidence            7899999999999999999998754

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=90.46  E-value=0.058  Score=44.72  Aligned_cols=22  Identities=41%  Similarity=0.569  Sum_probs=19.5

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ..|||+|++|+|||+|++.+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5799999999999999998753

>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=90.46  E-value=0.056  Score=46.90  Aligned_cols=25  Identities=24%  Similarity=0.393  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      .+.|+|++|+|||+|++.++.+.+.
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~~p   88 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGELEA   88 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEECCCCChHHHHHHHHhCCCcC
Confidence            6899999999999999999988754

>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=90.19  E-value=0.063  Score=46.58  Aligned_cols=21  Identities=29%  Similarity=0.532  Sum_probs=16.2

Q ss_pred             ceeeeCCCCChHHHHH-HHHHh
Q psy1366         241 HLLLVGDPGTGKSEIL-KFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~-~~i~~  261 (345)
                      ++|+.|+||||||+.+ ..++.
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~   47 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAY   47 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHHH
Confidence            8999999999999744 44443

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=90.07  E-value=0.23  Score=45.04  Aligned_cols=89  Identities=17%  Similarity=0.237  Sum_probs=49.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC---eEEEcCCcc--CcCCceEEEE-ee-cCeeEeeeceeeecCCcEEEEcCCCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR---SVLTTGVGT--TTAGLTVSAL-RE-NGEWHLEAGALVLSDGGVCCIDEFSSI  313 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~---~~~~~~~~~--~~~glt~~~~-~~-~~~~~~~~G~l~la~~gi~~IDEidk~  313 (345)
                      =+|+.||+|.|||+.+..+.+..++   .+.+...+.  ...|....-+ .+ +..|.----++...|.-|++|.|+...
T Consensus       160 liLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~~~~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~  239 (401)
T d1p9ra_         160 IILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIRDL  239 (401)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCCSH
T ss_pred             eEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccCCCCeeeecCCcCCCHHHHHHHHHhhcCCEEEecCcCCh
Confidence            6999999999999999888876543   333332211  1112221111 11 122211112245678999999999875


Q ss_pred             CHHhHHHHHHHHhCCEEE
Q psy1366         314 KEHDRTSIHEAMEQQTIS  331 (345)
Q Consensus       314 ~~~~~~~l~eame~~~i~  331 (345)
                      ... ..++ +|-+.|...
T Consensus       240 ~ta-~~a~-~aa~tGhlV  255 (401)
T d1p9ra_         240 ETA-QIAV-QASLTGHLV  255 (401)
T ss_dssp             HHH-HHHH-HHHHTTCEE
T ss_pred             HHH-HHHH-HHHhcCCeE
Confidence            543 3444 554555443

>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=89.92  E-value=0.056  Score=43.05  Aligned_cols=21  Identities=38%  Similarity=0.544  Sum_probs=18.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      .|-|+|+|++|||+|+.++..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            688999999999999998754

>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=89.88  E-value=0.069  Score=44.11  Aligned_cols=19  Identities=32%  Similarity=0.410  Sum_probs=14.3

Q ss_pred             eeeeCCCCChHHHHHHHHH
Q psy1366         242 LLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~  260 (345)
                      ++|+|++|+|||+.+--+|
T Consensus        13 i~lvGp~GvGKTTTiaKLA   31 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLA   31 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6889999999987443333

>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=89.74  E-value=0.085  Score=42.38  Aligned_cols=23  Identities=35%  Similarity=0.408  Sum_probs=20.0

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .-+||.|++|.|||+++-.+.+.
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            47999999999999998877664

>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=89.64  E-value=0.071  Score=44.03  Aligned_cols=15  Identities=40%  Similarity=0.645  Sum_probs=13.0

Q ss_pred             ceeeeCCCCChHHHH
Q psy1366         241 HLLLVGDPGTGKSEI  255 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l  255 (345)
                      -++|+||+|+|||+.
T Consensus         8 vi~lvGptGvGKTTT   22 (207)
T d1okkd2           8 VVLVVGVNGVGKTTT   22 (207)
T ss_dssp             EEEEECSTTSSHHHH
T ss_pred             EEEEECCCCCCHHHH
Confidence            578999999999774

>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=89.63  E-value=0.07  Score=45.65  Aligned_cols=25  Identities=24%  Similarity=0.498  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+-|+|+.|+|||+|++.++.+.+.
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~~p   54 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLEKP   54 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCccC
Confidence            7899999999999999999988764

>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=89.51  E-value=0.2  Score=43.76  Aligned_cols=27  Identities=15%  Similarity=0.220  Sum_probs=23.3

Q ss_pred             eeeceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         238 AESHLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       238 ~~~~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      ...=|.+.|++|+|||++++.++.++.
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHh
Confidence            346788999999999999999998763

>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=89.43  E-value=0.064  Score=44.46  Aligned_cols=21  Identities=43%  Similarity=0.525  Sum_probs=11.9

Q ss_pred             eceeeeCCCCChHHHH-HHHHH
Q psy1366         240 SHLLLVGDPGTGKSEI-LKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l-~~~i~  260 (345)
                      .-|+|+||+|+|||+. +|.++
T Consensus        13 ~vi~lvGptGvGKTTTiAKLA~   34 (211)
T d1j8yf2          13 YVIMLVGVQGTGKATTAGKLAY   34 (211)
T ss_dssp             EEEEEECSCCC----HHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3588899999999774 44443

>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=89.39  E-value=0.079  Score=44.46  Aligned_cols=25  Identities=40%  Similarity=0.504  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+-|+|+.|.|||+|++.++.+.|.
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl~~~   51 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGMTSG   51 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTSCCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCC
Confidence            7899999999999999999987763

>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=89.39  E-value=0.077  Score=44.00  Aligned_cols=22  Identities=41%  Similarity=0.496  Sum_probs=16.1

Q ss_pred             eceeeeCCCCChHHH-HHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSE-ILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~-l~~~i~~  261 (345)
                      .-++|+||+|+|||+ ++|.++.
T Consensus        12 ~vi~lvGptGvGKTTTiAKLAa~   34 (213)
T d1vmaa2          12 FVIMVVGVNGTGKTTSCGKLAKM   34 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999977 4444443

>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=89.35  E-value=0.12  Score=44.18  Aligned_cols=34  Identities=9%  Similarity=0.102  Sum_probs=25.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC----CCeEEEcCCcc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS----PRSVLTTGVGT  274 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~~~~  274 (345)
                      -++|+||||+|||+|+-.++..+    ...+|....++
T Consensus        56 itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~   93 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHA   93 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCC
T ss_pred             EEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccc
Confidence            68999999999999887776544    34567765543

>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=89.30  E-value=0.041  Score=43.67  Aligned_cols=23  Identities=26%  Similarity=0.231  Sum_probs=19.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      =.+|+|+.|+|||+++.++.-++
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            35788999999999999998654

>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=89.30  E-value=0.085  Score=42.31  Aligned_cols=29  Identities=24%  Similarity=0.410  Sum_probs=24.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      .-|.+.|..|+|||++++.+++.++...+
T Consensus        10 ~~I~ieG~~GsGKTTl~~~L~~~l~~~~~   38 (197)
T d2vp4a1          10 FTVLIEGNIGSGKTTYLNHFEKYKNDICL   38 (197)
T ss_dssp             EEEEEECSTTSCHHHHHHTTGGGTTTEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            45889999999999999999998876444

>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=89.12  E-value=0.078  Score=44.94  Aligned_cols=24  Identities=25%  Similarity=0.136  Sum_probs=19.4

Q ss_pred             eeeeceeeeCCCCChHHHHHHHHHh
Q psy1366         237 RAESHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      +|. -.+|+|+||+|||+|+-.++.
T Consensus        28 pg~-~~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          28 AGT-VGALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             TTS-EEEEEESTTSSHHHHHHHHHH
T ss_pred             CCc-EEEEEeCCCCCHHHHHHHHHH
Confidence            443 577999999999999887765

>d2gmga1 a.4.5.82 (A:1-105) Hypothetical protein PF0610 {Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PF0610-like
domain: Hypothetical protein PF0610
species: Pyrococcus furiosus [TaxId: 2261]

Probab=89.12  E-value=0.06  Score=39.09  Aligned_cols=27  Identities=30%  Similarity=0.573  Sum_probs=20.7

Q ss_pred             EEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCC
Q psy1366          43 YVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTN   80 (345)
Q Consensus        43 f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~   80 (345)
                      =+|.+||+.|.        ..+..|.+||   .|+|..
T Consensus        68 p~CrkCGfvFr--------~~~kkPSRCP---~CKSE~   94 (105)
T d2gmga1          68 AQCRKCGFVFK--------AEINIPSRCP---KCKSEW   94 (105)
T ss_dssp             CBBTTTCCBCC--------CCSSCCSSCS---SSCCCC
T ss_pred             hhhhhcCCeec--------ccCCCCCCCC---CCCCcc
Confidence            48999999652        1467899998   699863

>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=89.01  E-value=0.081  Score=44.68  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=22.7

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+-|+||.|.|||+|++.++.+.+.
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~~p   58 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLVRA   58 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCCC
Confidence            6889999999999999999998864

>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=88.98  E-value=0.084  Score=44.55  Aligned_cols=25  Identities=24%  Similarity=0.422  Sum_probs=22.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+-|+||.|+|||+|++.++.+.+.
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~~p   54 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLIKP   54 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC
Confidence            5779999999999999999998865

>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=88.92  E-value=0.089  Score=42.12  Aligned_cols=23  Identities=22%  Similarity=0.395  Sum_probs=19.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +=|-+.|.+|+|||++++++.+.
T Consensus         4 ~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
Confidence            34668899999999999999764

>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=88.88  E-value=0.088  Score=43.58  Aligned_cols=20  Identities=45%  Similarity=0.692  Sum_probs=15.1

Q ss_pred             ceeeeCCCCChHHH-HHHHHH
Q psy1366         241 HLLLVGDPGTGKSE-ILKFAK  260 (345)
Q Consensus       241 ~iLl~G~pGtGKs~-l~~~i~  260 (345)
                      -++|+||+|+|||+ ++|.++
T Consensus        11 vi~lvGptGvGKTTTiAKLA~   31 (211)
T d2qy9a2          11 VILMVGVNGVGKTTTIGKLAR   31 (211)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            57899999999977 444433

>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=88.17  E-value=0.4  Score=39.94  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=19.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .++|.||...|||+++|.++-.
T Consensus        43 ~~iiTGpN~~GKSt~lk~i~l~   64 (234)
T d1wb9a2          43 MLIITGPNMGGKSTYMRQTALI   64 (234)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEeccCchhhHHHHHHHHHH
Confidence            5899999999999999998753

>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=88.15  E-value=0.058  Score=46.09  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+.++|++|+|||+|++.+..+.+.
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl~~p   70 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRFYDV   70 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHHhcCCc
Confidence            7999999999999999999887764

>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=88.13  E-value=0.1  Score=41.87  Aligned_cols=23  Identities=35%  Similarity=0.326  Sum_probs=19.9

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .-+||.|++|.|||+++-.+.+.
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            47999999999999999877654

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=87.92  E-value=0.76  Score=37.64  Aligned_cols=33  Identities=12%  Similarity=0.091  Sum_probs=26.0

Q ss_pred             eeeecCCcEEEEcCCCCCCHHhHHHHHHHHhCC
Q psy1366         296 ALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQ  328 (345)
Q Consensus       296 ~l~la~~gi~~IDEidk~~~~~~~~l~eame~~  328 (345)
                      ++..+|..++++|=.+-+.+.+...+..+.+.+
T Consensus        90 ~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~  122 (227)
T d1g7sa4          90 GGALADLAILIVDINEGFKPQTQEALNILRMYR  122 (227)
T ss_dssp             SSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTT
T ss_pred             cccccceEEEEEecccCcccchhHHHHHhhcCC
Confidence            456688999999988888888877777766654

>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=87.87  E-value=0.1  Score=42.44  Aligned_cols=23  Identities=17%  Similarity=0.260  Sum_probs=20.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -|.+.|.+|+|||++++.+++.+
T Consensus         4 fIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47789999999999999998754

>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=87.87  E-value=0.12  Score=43.22  Aligned_cols=20  Identities=30%  Similarity=0.408  Sum_probs=17.9

Q ss_pred             ceeeeCCCCChHHHHHHHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~  260 (345)
                      -..|+|++|+|||+|+.++.
T Consensus        97 t~~~~G~SGVGKSTLiN~L~  116 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAIN  116 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHS
T ss_pred             eEEEECCCCCCHHHHHHhhc
Confidence            57899999999999999874

>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=87.76  E-value=0.12  Score=41.15  Aligned_cols=23  Identities=35%  Similarity=0.427  Sum_probs=19.8

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .-+||.|++|.|||+++-.+.+.
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            48999999999999998776655

>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=87.59  E-value=0.11  Score=47.03  Aligned_cols=21  Identities=48%  Similarity=0.683  Sum_probs=18.4

Q ss_pred             eceeeeCCCCChHHHHHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~  260 (345)
                      -|++++|.+|+|||++++.+.
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li   71 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELA   71 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHH
Confidence            599999999999999887654

>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=87.31  E-value=0.12  Score=43.95  Aligned_cols=25  Identities=24%  Similarity=0.464  Sum_probs=22.5

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPR  265 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~  265 (345)
                      -+-|+||.|.|||+|++.++.+.+.
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~~p   56 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFLKA   56 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             EEEEECCCCCcHHHHHHHHHCCCcC
Confidence            5788999999999999999988764

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=87.06  E-value=0.41  Score=42.04  Aligned_cols=23  Identities=35%  Similarity=0.505  Sum_probs=20.3

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ..|-+.|+||.|||+|+..+...
T Consensus        55 ~~IgitG~pGaGKSTLi~~l~~~   77 (327)
T d2p67a1          55 LRLGVTGTPGAGKSTFLEAFGML   77 (327)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEeeCCCCCCHHHHHHHHHHH
Confidence            57899999999999999988754

>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=87.05  E-value=0.13  Score=42.29  Aligned_cols=22  Identities=23%  Similarity=0.173  Sum_probs=19.2

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      |.|.|+.|+|||++++.+++.+
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6777999999999999988764

>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=86.57  E-value=0.6  Score=40.85  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=20.2

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +-|-+.|+||.|||+|+..+...
T Consensus        52 ~~igitG~pGaGKSTli~~l~~~   74 (323)
T d2qm8a1          52 IRVGITGVPGVGKSTTIDALGSL   74 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEeeeCCCCCCHHHHHHHHHHH
Confidence            46899999999999999888764

>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=86.37  E-value=0.18  Score=41.16  Aligned_cols=21  Identities=29%  Similarity=0.460  Sum_probs=18.8

Q ss_pred             eeeeCCCCChHHHHHHHHHhh
Q psy1366         242 LLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      |-|+|.+|+|||++++++.+.
T Consensus         6 IgitG~igSGKStv~~~l~~~   26 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFADL   26 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEECCCcCCHHHHHHHHHHC
Confidence            568999999999999999765

>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=86.18  E-value=0.63  Score=38.44  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=19.0

Q ss_pred             eeeeCCCCChHHHHHHHHHhh
Q psy1366         242 LLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      ++|.||...|||+++|.++-.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l~   58 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTALI   58 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhHHH
Confidence            799999999999999988754

>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=85.89  E-value=0.18  Score=42.71  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=17.9

Q ss_pred             ceeeeCCCCChHHHHHHHHHh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      -+++.|+||+|||+++..++.
T Consensus        37 l~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            578999999999998877763

>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=85.52  E-value=0.19  Score=40.80  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=19.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      -|-++|.+|+|||++++++.+.
T Consensus         4 iIgITG~igSGKStv~~~l~~~   25 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLFTDL   25 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
Confidence            3668999999999999999764

>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=85.45  E-value=0.35  Score=39.77  Aligned_cols=28  Identities=25%  Similarity=0.401  Sum_probs=24.1

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCeEE
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRSVL  268 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~~~  268 (345)
                      =|.+-|.-|+|||++++.+++.++...+
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            4788999999999999999999876444

>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=85.08  E-value=0.19  Score=40.42  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=19.5

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      |.+.|..|+|||++++.+++.+
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999998754

>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=84.90  E-value=0.17  Score=45.89  Aligned_cols=22  Identities=23%  Similarity=0.517  Sum_probs=20.6

Q ss_pred             eceeeeCCCCChHHHHHHHHHh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKR  261 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~  261 (345)
                      ++|.++|.||+|||+|+.++..
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            7999999999999999999964

>d1lkoa2 g.41.5.1 (A:148-191) Rubrerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=84.86  E-value=1  Score=27.05  Aligned_cols=34  Identities=18%  Similarity=0.445  Sum_probs=24.1

Q ss_pred             EEEEEEeCCCCcEEEEeecccccccccCCcCCCCCCCCCCCC--eeee
Q psy1366          39 FRREYVCTKCKQCFYVKADFEQFYSIANPLSCGSPSSCDGTN--FSPV   84 (345)
Q Consensus        39 ~~~~f~C~~C~~~~~~~~~~~~~~~~~~p~~C~~~~~C~~~~--f~~l   84 (345)
                      ....++|..||+...-         -..|..||   .|+...  |.++
T Consensus         5 ~~~~W~C~~CGyi~~g---------~~aP~~CP---vC~~p~~~Fe~~   40 (44)
T d1lkoa2           5 QATKWRCRNCGYVHEG---------TGAPELCP---ACAHPKAHFELL   40 (44)
T ss_dssp             EEEEEEETTTCCEEEE---------EECCSBCT---TTCCBGGGEEEC
T ss_pred             CCeEEEcCCCCcEEEC---------CCCCCcCC---CCCCcHHHHeec
Confidence            4457999999997632         25788998   598743  5554

>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=84.86  E-value=0.38  Score=41.08  Aligned_cols=33  Identities=12%  Similarity=0.134  Sum_probs=24.3

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhC----CCeEEEcCCc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMS----PRSVLTTGVG  273 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~----~~~~~~~~~~  273 (345)
                      -..++|+||+|||+|+-.++..+    ...+|+...+
T Consensus        62 i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~   98 (269)
T d1mo6a1          62 VIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEH   98 (269)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             eEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCc
Confidence            68999999999999986665433    3356766544

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

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: Clostridium acetobutylicum [TaxId: 1488]

Probab=84.53  E-value=1.1  Score=34.08  Aligned_cols=97  Identities=16%  Similarity=0.149  Sum_probs=50.1

Q ss_pred             eeeeceeeeCCCCChHHH-HHHHHHh--hCCCeEEEcC----------CccCcCCceEEEEeecCeeEeeeceeeecCCc
Q psy1366         237 RAESHLLLVGDPGTGKSE-ILKFAKR--MSPRSVLTTG----------VGTTTAGLTVSALRENGEWHLEAGALVLSDGG  303 (345)
Q Consensus       237 r~~~~iLl~G~pGtGKs~-l~~~i~~--~~~~~~~~~~----------~~~~~~glt~~~~~~~~~~~~~~G~l~la~~g  303 (345)
                      +|.+++. +||=..|||+ |++.+.+  ..++.+...-          .-.+..|....+..-.....+  -.....+--
T Consensus         6 ~G~l~lI-~GpMfSGKTteLi~~~~~~~~~g~~vl~i~~~~D~Ry~~~~i~sh~g~~~~a~~~~~~~~~--~~~~~~~~d   82 (141)
T d1xx6a1           6 HGWVEVI-VGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREI--LKYFEEDTE   82 (141)
T ss_dssp             CCEEEEE-ECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHH--HHHCCTTCS
T ss_pred             ceeEEEE-EeccccHHHHHHHHHHHHhhhcCCcEEEEEeccccccccceeeecccceEEEEEecchhhh--hhhhccccc
Confidence            5667776 7999999976 6777643  3444332111          011112222211110000000  001223457


Q ss_pred             EEEEcCCCCCCHHhHHHHHHHHhCCEEEEeeCCe
Q psy1366         304 VCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKE  337 (345)
Q Consensus       304 i~~IDEidk~~~~~~~~l~eame~~~i~i~k~gi  337 (345)
                      +++|||..-+++.....+.++.+++. .|--+|+
T Consensus        83 vI~IDE~QFf~d~~~~~~~~l~~~g~-~Viv~GL  115 (141)
T d1xx6a1          83 VIAIDEVQFFDDEIVEIVNKIAESGR-RVICAGL  115 (141)
T ss_dssp             EEEECSGGGSCTHHHHHHHHHHHTTC-EEEEEEC
T ss_pred             EEEEeehhhccccHHHHHHhheeCCc-EEEEEEe
Confidence            99999999998766566666665544 4444444

>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=84.50  E-value=0.18  Score=43.15  Aligned_cols=23  Identities=35%  Similarity=0.475  Sum_probs=19.9

Q ss_pred             eeeeCCCCChHHHHHHHHHhhCC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -+|+|+.|+|||.+++++.-++.
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~lg   49 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVFG   49 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTSC
T ss_pred             EEEECCCCCcHHHHHHHHHHHhC
Confidence            47999999999999999977653

>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=84.42  E-value=0.2  Score=41.19  Aligned_cols=26  Identities=19%  Similarity=0.364  Sum_probs=22.8

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCCCe
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSPRS  266 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~~~  266 (345)
                      =|.+.|+.|+|||++++.+++.+...
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~~~   29 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCEDW   29 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCTTE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhcC
Confidence            47899999999999999999988643

>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=83.92  E-value=0.12  Score=43.41  Aligned_cols=20  Identities=30%  Similarity=0.561  Sum_probs=17.2

Q ss_pred             ceeeeCCCCChHHHHHHHHH
Q psy1366         241 HLLLVGDPGTGKSEILKFAK  260 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~  260 (345)
                      -.+|+|++|+|||+|+.++.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~  118 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAIS  118 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHC
T ss_pred             eEEEECCCCccHHHHHHhhc
Confidence            35688999999999998775

>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=81.73  E-value=0.35  Score=41.68  Aligned_cols=23  Identities=22%  Similarity=0.208  Sum_probs=19.1

Q ss_pred             eceeeeCCCCChHHHHHHHHHhh
Q psy1366         240 SHLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      +=|-|-|++|+|||+|+..+...
T Consensus        28 ~iIGi~G~qGSGKSTl~~~l~~~   50 (286)
T d1odfa_          28 LFIFFSGPQGSGKSFTSIQIYNH   50 (286)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEeECCCCCCHHHHHHHHHHH
Confidence            45668899999999999888654

>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=81.36  E-value=0.4  Score=39.45  Aligned_cols=24  Identities=21%  Similarity=0.270  Sum_probs=20.6

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP  264 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~  264 (345)
                      -|-|.|..|+|||++++++++..+
T Consensus         3 iIgiTG~igSGKsTva~~l~e~~g   26 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMSNYS   26 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCC
Confidence            367899999999999999987654

>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=81.08  E-value=0.49  Score=40.30  Aligned_cols=33  Identities=9%  Similarity=0.042  Sum_probs=25.4

Q ss_pred             ceeeeCCCCChHHHHHHHHHhhCC----CeEEEcCCc
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRMSP----RSVLTTGVG  273 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~~~----~~~~~~~~~  273 (345)
                      -..++|+||+|||+|+-.++..+.    ..+|....+
T Consensus        59 itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~   95 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEH   95 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             EEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCc
Confidence            688999999999999988876553    356666543

>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=80.81  E-value=0.41  Score=42.49  Aligned_cols=22  Identities=23%  Similarity=0.419  Sum_probs=18.9

Q ss_pred             eeeeCCCCChHHHHHHHHHhhC
Q psy1366         242 LLLVGDPGTGKSEILKFAKRMS  263 (345)
Q Consensus       242 iLl~G~pGtGKs~l~~~i~~~~  263 (345)
                      -+++|+.|+|||.++.+++-.+
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~l   49 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVL   49 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            3688999999999999997654

>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=80.79  E-value=0.45  Score=38.16  Aligned_cols=16  Identities=31%  Similarity=0.426  Sum_probs=14.7

Q ss_pred             ceeeeCCCCChHHHHH
Q psy1366         241 HLLLVGDPGTGKSEIL  256 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~  256 (345)
                      ++++.+|+|+|||..+
T Consensus        42 ~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          42 NLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             CEEEECSSHHHHHHHH
T ss_pred             CEEEEcCCCCchhHHH
Confidence            8999999999999865

>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=80.16  E-value=0.39  Score=41.42  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=20.0

Q ss_pred             ceeeeCCCCChHHHHHHHHHhh
Q psy1366         241 HLLLVGDPGTGKSEILKFAKRM  262 (345)
Q Consensus       241 ~iLl~G~pGtGKs~l~~~i~~~  262 (345)
                      .+++.|++|+|||.|+..+++.
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHH
Confidence            7999999999999999888864

>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=80.06  E-value=0.21  Score=36.92  Aligned_cols=17  Identities=29%  Similarity=0.417  Sum_probs=14.4

Q ss_pred             eceeeeCCCCChHHHHH
Q psy1366         240 SHLLLVGDPGTGKSEIL  256 (345)
Q Consensus       240 ~~iLl~G~pGtGKs~l~  256 (345)
                      -+.+|.+|||+|||..+
T Consensus         8 ~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             CEEEECCCTTSSTTTTH
T ss_pred             CcEEEEcCCCCChhHHH
Confidence            58999999999999543